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Sample records for micro optical ct

  1. Dental imaging using laminar optical tomography and micro CT

    NASA Astrophysics Data System (ADS)

    Long, Feixiao; Ozturk, Mehmet S.; Intes, Xavier; Kotha, Shiva

    2014-02-01

    Dental lesions located in the pulp are quite difficult to identify based on anatomical contrast, and, hence, to diagnose using traditional imaging methods such as dental CT. However, such lesions could lead to functional and/or molecular optical contrast. Herein, we report on the preliminary investigation of using Laminar Optical Tomography (LOT) to image the pulp and root canals in teeth. LOT is a non-contact, high resolution, molecular and functional mesoscopic optical imaging modality. To investigate the potential of LOT for dental imaging, we injected an optical dye into ex vivo teeth samples and imaged them using LOT and micro-CT simultaneously. A rigid image registration between the LOT and micro-CT reconstruction was obtained, validating the potential of LOT to image molecular optical contrast deep in the teeth with accuracy, non-invasively. We demonstrate that LOT can retrieve the 3D bio-distribution of molecular probes at depths up to 2mm with a resolution of several hundred microns in teeth.

  2. Application of the optically stimulated luminescence (OSL) technique for mouse dosimetry in micro-CT imaging

    SciTech Connect

    Vrigneaud, Jean-Marc; Courteau, Alan; Oudot, Alexandra; Collin, Bertrand; Ranouil, Julien; Morgand, Loïc; Raguin, Olivier; Walker, Paul; Brunotte, François

    2013-12-15

    Purpose: Micro-CT is considered to be a powerful tool to investigate various models of disease on anesthetized animals. In longitudinal studies, the radiation dose delivered by the micro-CT to the same animal is a major concern as it could potentially induce spurious effects in experimental results. Optically stimulated luminescence dosimeters (OSLDs) are a relatively new kind of detector used in radiation dosimetry for medical applications. The aim of this work was to assess the dose delivered by the CT component of a micro-SPECT (single-photon emission computed tomography)/CT camera during a typical whole-body mouse study, using commercially available OSLDs based on Al{sub 2}O{sub 3}:C crystals.Methods: CTDI (computed tomography dose index) was measured in micro-CT with a properly calibrated pencil ionization chamber using a rat-like phantom (60 mm in diameter) and a mouse-like phantom (30 mm in diameter). OSLDs were checked for reproducibility and linearity in the range of doses delivered by the micro-CT. Dose measurements obtained with OSLDs were compared to those of the ionization chamber to correct for the radiation quality dependence of OSLDs in the low-kV range. Doses to tissue were then investigated in phantoms and cadavers. A 30 mm diameter phantom, specifically designed to insert OSLDs, was used to assess radiation dose over a typical whole-body mouse imaging study. Eighteen healthy female BALB/c mice weighing 27.1 ± 0.8 g (1 SD) were euthanized for small animal measurements. OLSDs were placed externally or implanted internally in nine different locations by an experienced animal technician. Five commonly used micro-CT protocols were investigated.Results: CTDI measurements were between 78.0 ± 2.1 and 110.7 ± 3.0 mGy for the rat-like phantom and between 169.3 ± 4.6 and 203.6 ± 5.5 mGy for the mouse-like phantom. On average, the displayed CTDI at the operator console was underestimated by 1.19 for the rat-like phantom and 2.36 for the mouse

  3. MicroCT and optical coherence tomography imagistic assessment of the dental roots adhesive

    NASA Astrophysics Data System (ADS)

    Sinescu, Cosmin; Negrutiu, Meda Lavinia; Nica, Luminita; Manescu, Adrian; Duma, Virgil-Florin; Podoleanu, Adrian G.

    2015-03-01

    Several obturation methods are available today to study the 3D filling of the root canal. There are also several methods capable to evaluate the ability to seal apically the root canals. However, the common methods of investigation are invasive; they also lead to the destruction of the samples. If the sectioning differs slightly from the desired area, the investigation is non-conclusive regarding the micro-leakages. Also, although the use of Cone-Beam Micro Computer Tomography (CBCT) appears to be most promising for endodontic purposes, its effective radiation doses are higher than with conventional intra-oral and panoramic imaging. In contrast, enface (ef) Optical Coherence Tomography (OCT) proves to be efficient for the investigation of material defects of dental restorations, dental materials, and micro-leakage at the interfaces, where the penetration depth depends on the material. Therefore, ef OCT has been proposed in our studies as a potential tool for in vivo endodontic imaging. Twenty five recently extracted human maxillary molars were selected for the study for caries or periodontal reasons. The pulp chambers were completely opened, the dental pulp was removed, and the root canals were shaped. Silver nanoparticles were used in half of the samples in order to increase the scattering of the adhesive material in comparison with the dental roots walls. The sample teeth were then probed using Time Domain (TD) OCT working at 1300 nm. A synchrotron radiation X-Ray microCT experiment was also performed. The imagistic results pointed out the efficiency of the silver nanoparticle layer used in order to increase the scattering of the root canal adhesive scattering for the OCT non-invasive investigation. MicroCT allowed for obtaining qualitative data related to the depth penetration of the root canal adhesive into the dentin walls.

  4. Carbon nanotube based respiratory gated micro-CT imaging of a murine model of lung tumors with optical imaging correlation

    NASA Astrophysics Data System (ADS)

    Burk, Laurel M.; Lee, Yueh Z.; Heathcote, Samuel; Wang, Ko-han; Kim, William Y.; Lu, Jianping; Zhou, Otto

    2011-03-01

    Current optical imaging techniques can successfully measure tumor load in murine models of lung carcinoma but lack structural detail. We demonstrate that respiratory gated micro-CT imaging of such models gives information about structure and correlates with tumor load measurements by optical methods. Four mice with multifocal, Kras-induced tumors expressing firefly luciferase were imaged against four controls using both optical imaging and respiratory gated micro-CT. CT images of anesthetized animals were acquired with a custom CNT-based system using 30 ms x-ray pulses during peak inspiration; respiration motion was tracked with a pressure sensor beneath each animal's abdomen. Optical imaging based on the Luc+ signal correlating with tumor load was performed on a Xenogen IVIS Kinetix. Micro-CT images were post-processed using Osirix, measuring lung volume with region growing. Diameters of the largest three tumors were measured. Relationships between tumor size, lung volumes, and optical signal were compared. CT images and optical signals were obtained for all animals at two time points. In all lobes of the Kras+ mice in all images, tumors were visible; the smallest to be readily identified measured approximately 300 microns diameter. CT-derived tumor volumes and optical signals related linearly, with r=0.94 for all animals. When derived for only tumor bearing animals, r=0.3. The trend of each individual animal's optical signal tracked correctly based on the CT volumes. Interestingly, lung volumes also correlated positively with optical imaging data and tumor volume burden, suggesting active remodeling.

  5. Bone regeneration assessment by optical coherence tomography and MicroCT synchrotron radiation

    NASA Astrophysics Data System (ADS)

    Negrutiu, Meda L.; Sinescu, Cosmin; Canjau, Silvana; Manescu, Adrian; Topalá, Florin I.; Hoinoiu, Bogdan; Romînu, Mihai; Márcáuteanu, Corina; Duma, Virgil; Bradu, Adrian; Podoleanu, Adrian G.

    2013-06-01

    Bone grafting is a commonly performed surgical procedure to augment bone regeneration in a variety of orthopaedic and maxillofacial procedures, with autologous bone being considered as the "gold standard" bone-grafting material, as it combines all properties required in a bone-graft material: osteoinduction (bone morphogenetic proteins - BMPs - and other growth factors), osteogenesis (osteoprogenitor cells) and osteoconduction (scaffold). The problematic elements of bone regenerative materials are represented by their quality control methods, the adjustment of the initial bone regenerative material, the monitoring (noninvasive, if possible) during their osteoconduction and osteointegration period and biomedical evaluation of the new regenerated bone. One of the research directions was the interface investigation of the regenerative bone materials and their behavior at different time periods on the normal femoral rat bone. 12 rat femurs were used for this investigation. In each ones a 1 mm diameter hole were drilled and a bone grafting material was inserted in the artificial defect. The femurs were removed after one, three and six months. The defects repaired by bone grafting material were evaluated by optical coherence tomography working in Time Domain Mode at 1300 nm. Three dimensional reconstructions of the interfaces were generated. The validations of the results were evaluated by microCT. Synchrotron Radiation allows achieving high spatial resolution images to be generated with high signal-to-noise ratio. In addition, Synchrotron Radiation allows acquisition of volumes at different energies and volume subtraction to enhance contrast. Evaluation of the bone grafting material/bone interface with noninvasive methods such as optical coherence tomography could act as a valuable procedure that can be use in the future in the usual clinical techniques. The results were confirmed by microCT. Optical coherence tomography can be performed in vivo and can provide a

  6. Direct composite fillings: an optical coherence tomography and microCT investigation

    NASA Astrophysics Data System (ADS)

    Negrutiu, Meda L.; Sinescu, Cosmin; Borlea, Mugurel V.; Manescu, Adrian; Duma, Virgil F.; Rominu, Mihai; Podoleanu, Adrian G.

    2015-03-01

    The treatment of carious lesions requires removal of affected dental tissue thus creating cavities that are to be filled with dedicated materials. There are several methods known which are used to assess the quality of direct dental restorations, but most of them are invasive. Optical tomographic techniques are of particular importance in the medical imaging field, because these techniques can provide non-invasive diagnostic images. Using an en-face version of OCT, we have recently demonstrated real time thorough evaluation of quality of dental fillings. The major aim of this study was to analyses the optical performance of adhesives modified with zirconia particles in different concentrations in order to improve the contrast of OCT imaging of the interface between the tooth structure, adhesive and composite resin. The OCT investigations were validated by micro CT using synchrotron radiation. The OCT Swept Source is a valuable investigation tool for the clinical evaluation of class II direct composite restorations. The unmodified adhesive layer shows poor contrast on regular OCT investigations. Adding zirconia particles to the adhesive layer provides a better scattering which allows a better characterization and quantification of direct restorations.

  7. Non-destructive evaluation of an internal adaptation of resin composite restoration with swept-source optical coherence tomography and micro-CT.

    PubMed

    Han, Seung-Hoon; Sadr, Alireza; Tagami, Junji; Park, Sung-Ho

    2016-01-01

    Swept-source optical coherence tomography (SS-OCT) and micro-CT can be useful non-destructive methods for evaluating internal adaptation. There is no comparative study evaluating the two methods in the assessment of internal adaptation in composite restoration. The purpose of this study was to compare internal adaptation measurements of SS-OCT and micro-CT. Two cylindrical cavities were created on the labial surface of twelve bovine incisors. The 24 cavities were randomly assigned to four groups of dentin adhesives: (1) three-step etch-and-rinse adhesive, (2) two-step etch-and-rinse adhesive, (3) two-step self-etch adhesive, and (4) one-step self-etch adhesive. After application, the cavities were filled with resin composite. All restorations underwent a thermocycling challenge, and then, eight SS-OCT images were taken using a Santec OCT-2000™ (Santec Co., Komaki, Japan). The internal adaptation was also evaluated using micro-CT (Skyscan, Aartselaar, Belgium). The image analysis was used to calculate the percentage of defective spot (%DS) and compare the results. The groups were compared using one-way ANOVA with Duncan analysis at the 95% significance level. The SS-OCT and micro-CT measurements were compared with a paired t-test, and the relationship was analyzed using a Pearson correlation test at the 95% significance level. The %DS results showed that Group 3≤Group 4micro-CT images. The %DSs on micro-CT were lower than SS-OCT (p<0.05) and the Pearson correlation coefficient between SS-OCT and micro-CT was r=0.787 (p<0.05). Copyright © 2015 Academy of Dental Materials. Published by Elsevier Ltd. All rights reserved.

  8. MicroSight Optics

    SciTech Connect

    2010-01-01

    MicroSight is an innovative gunsight technology that allows a marksman's eye to focus on both the front gunsight and the intended target. The MicroSight improves both firearm safety and performance by imaging two objects at different focal distances. The MicroSight was developed at Idaho National Laboratory, and has been licensed by Apollo Optical Systems. You can learn more about INL's research programs at http://www.facebook.com/idahonationallaboratory.

  9. MicroSight Optics

    ScienceCinema

    None

    2016-07-12

    MicroSight is an innovative gunsight technology that allows a marksman's eye to focus on both the front gunsight and the intended target. The MicroSight improves both firearm safety and performance by imaging two objects at different focal distances. The MicroSight was developed at Idaho National Laboratory, and has been licensed by Apollo Optical Systems. You can learn more about INL's research programs at http://www.facebook.com/idahonationallaboratory.

  10. Medipix-based Spectral Micro-CT

    PubMed Central

    Xu, Qiong; He, Peng; Bennett, James; Amir, Raja; Dobbs, Bruce; Mou, Xuanqin; Wei, Biao; Butler, Anthony; Butler, Phillip; Wang, Ge

    2013-01-01

    Since Hounsfield's Nobel Prize winning breakthrough decades ago, X-ray CT has been widely applied in the clinical and preclinical applications - producing a huge number of tomographic gray-scale images. However, these images are often insufficient to distinguish crucial differences needed for diagnosis. They have poor soft tissue contrast due to inherent photon-count issues, involving high radiation dose. By physics, the X-ray spectrum is polychromatic, and it is now feasible to obtain multi-energy, spectral, or true-color, CT images. Such spectral images promise powerful new diagnostic information. The emerging Medipix technology promises energy-sensitive, high-resolution, accurate and rapid X-ray detection. In this paper, we will review the recent progress of Medipix-based spectral micro-CT with the emphasis on the results obtained by our team. It includes the state- of-the-art Medipix detector, the system and method of a commercial MARS (Medipix All Resolution System) spectral micro-CT, and the design and color diffusion of a hybrid spectral micro-CT. PMID:24194631

  11. Pathological calcifications studied with micro-CT

    NASA Astrophysics Data System (ADS)

    Stock, Stuart R.; Rajamannan, Nalini M.; Brooks, Ellen R.; Langman, Craig B.; Pachman, Lauren M.

    2004-10-01

    The microstructure of pathological biomineral deposits has received relatively little attention, perhaps, in part because of the difficulty preparing samples for microscopy. MicroCT avoids these difficulties, and laboratory microCT results are reviewed for aortic valve calcification (human as well as a rabbit model), for human renal calculi (stones) and for calcinoses formed in juvenile dermatomyositis (JDM). In calcified aortic valves of rabbits, numerical analysis of the data shows statistically significant correlation with diet. In a large kidney stone the pattern of mineralization is clearly revealed and may provide a temporal blueprint for stone growth. In JDM calcified deposits, very different microstructures are observed and may be related to processes unique to this disease.

  12. Implementation of interior micro-CT on a carbon nanotube dynamic micro-CT scanner for lower radiation dose

    NASA Astrophysics Data System (ADS)

    Gong, Hao; Lu, Jianping; Zhou, Otto; Cao, Guohua

    2015-03-01

    Micro-CT is a high-resolution volumetric imaging tool that provides imaging evaluations for many preclinical applications. However, the relatively high cumulative radiation dose from micro-CT scans could lead to detrimental influence on the experimental outcomes or even the damages of specimens. Interior micro-computed tomography (micro- CT) produces exact tomographic images of an interior region-of-interest (ROI) embedded within an object from truncated projection data. It holds promises for many biomedical applications with significantly reduced radiation doses. Here, we present our first implementation of an interior micro-CT system using a carbon nanotube (CNT) field-emission microfocus x-ray source. The system has two modes - interior micro-CT mode and global micro-CT mode, which is realized with a detachable x-ray beam collimator at the source side. The interior mode has an effective field-of-view (FOV) of about 10mm in diameter, while for the global mode the FOV is about 40mm in diameter. We acquired CT data in these two modes from a mouse-sized phantom, and compared the reconstructed image qualities and the associated radiation exposures. Interior ROI reconstruction was achieved by using our in-house developed reconstruction algorithm. Overall, interior micro-CT demonstrated comparable image quality to the conventional global micro-CT. Radiation doses measured by an ion chamber show that interior micro-CT yielded significant dose reduction (up to 83%).

  13. Latching micro optical switch

    DOEpatents

    Garcia, Ernest J; Polosky, Marc A

    2013-05-21

    An optical switch reliably maintains its on or off state even when subjected to environments where the switch is bumped or otherwise moved. In addition, the optical switch maintains its on or off state indefinitely without requiring external power. External power is used only to transition the switch from one state to the other. The optical switch is configured with a fixed optical fiber and a movable optical fiber. The movable optical fiber is guided by various actuators in conjunction with a latching mechanism that configure the switch in one position that corresponds to the on state and in another position that corresponds to the off state.

  14. Fiber optic micro accelerometer

    DOEpatents

    Swierkowski, Steve P.

    2005-07-26

    An accelerometer includes a wafer, a proof mass integrated into the wafer, at least one spring member connected to the proof mass, and an optical fiber. A Fabry-Perot cavity is formed by a partially reflective surface on the proof mass and a partially reflective surface on the end of the optical fiber. The two partially reflective surfaces are used to detect movement of the proof mass through the optical fiber, using an optical detection system.

  15. Spectral optimization for micro-CT

    SciTech Connect

    Hupfer, Martin; Nowak, Tristan; Brauweiler, Robert; Eisa, Fabian; Kalender, Willi A.

    2012-06-15

    Purpose: To optimize micro-CT protocols with respect to x-ray spectra and thereby reduce radiation dose at unimpaired image quality. Methods: Simulations were performed to assess image contrast, noise, and radiation dose for different imaging tasks. The figure of merit used to determine the optimal spectrum was the dose-weighted contrast-to-noise ratio (CNRD). Both optimal photon energy and tube voltage were considered. Three different types of filtration were investigated for polychromatic x-ray spectra: 0.5 mm Al, 3.0 mm Al, and 0.2 mm Cu. Phantoms consisted of water cylinders of 20, 32, and 50 mm in diameter with a central insert of 9 mm which was filled with different contrast materials: an iodine-based contrast medium (CM) to mimic contrast-enhanced (CE) imaging, hydroxyapatite to mimic bone structures, and water with reduced density to mimic soft tissue contrast. Validation measurements were conducted on a commercially available micro-CT scanner using phantoms consisting of water-equivalent plastics. Measurements on a mouse cadaver were performed to assess potential artifacts like beam hardening and to further validate simulation results. Results: The optimal photon energy for CE imaging was found at 34 keV. For bone imaging, optimal energies were 17, 20, and 23 keV for the 20, 32, and 50 mm phantom, respectively. For density differences, optimal energies varied between 18 and 50 keV for the 20 and 50 mm phantom, respectively. For the 32 mm phantom and density differences, CNRD was found to be constant within 2.5% for the energy range of 21-60 keV. For polychromatic spectra and CMs, optimal settings were 50 kV with 0.2 mm Cu filtration, allowing for a dose reduction of 58% compared to the optimal setting for 0.5 mm Al filtration. For bone imaging, optimal tube voltages were below 35 kV. For soft tissue imaging, optimal tube settings strongly depended on phantom size. For 20 mm, low voltages were preferred. For 32 mm, CNRD was found to be almost independent of

  16. Nondestructive Analysis of Astromaterials by Micro-CT and Micro-XRF Analysis for PET Examination

    NASA Astrophysics Data System (ADS)

    Zeigler, R. A.; Righter, K.; Allen, C. C.

    2013-09-01

    Here we discuss our recent investigations into the applications of micro-CT and micro-XRF analyses with Apollo samples and ANSMET meteorites and assess the usefulness of these techniques in future PET.

  17. Current status of developments and applications of micro-CT.

    PubMed

    Ritman, Erik L

    2011-08-15

    Use of microscopic computed-tomography (micro-CT) scanning continues to grow in biomedical research. Laboratory-based micro-CT scanners, laboratory-based nano-CT scanners, and integrated micro-CT/SPECT and micro-CT/PET scanners are now manufactured for "turn-key" operation by a number of commercial vendors. In recent years a number of technical developments in X-ray sources and X-ray imaging arrays have broadened the utility of micro-CT. Of particular interest are photon-counting and energy-resolving detector arrays. These are being explored to maximize micro-CT image grayscale dynamic range and to further increase image contrast by utilizing the unique spectral attenuation characteristics of individual chemical elements. X-ray phase-shift images may increase contrast resolution and reduce radiation exposure. Although radiation exposure is becoming a concern with the drive for increased spatial and temporal resolution, especially for longitudinal studies, gated scans and limited scan-data-set reconstruction algorithms show great potential for keeping radiation exposure to a minimum.

  18. Classification of microcalcifications using micro-CT

    NASA Astrophysics Data System (ADS)

    Temmermans, Frederik; Jansen, Bart; Willekens, Inneke; Van de Casteele, Elke; Deklerck, Rudi; Schelkens, Peter; De Mey, Johan

    2013-09-01

    Microcalcifications are tiny spots of calcium deposit that often occur in female breasts. Microcalcifications are common in healthy woman, but they often are an early sign of breast cancer. On a mammogram; the current standard of care for breast screening; calcifications appear as tiny white dots. They may occur scattered throughout the breast or grouped in clusters. Radiologists determine the suspiciousness based upon several factors, including position, frequency, grouping, evolution compared to prior studies and shape. In this paper, we study micro-CT images of biopsy samples containing microcalcifications. The scanner delivers 3D images with a voxel size of 8.66 μm, i.e. ca. 8 times the spatial resolution of a contemporary digital mammogram. We propose an automated binary classification method of the samples, based upon shape analysis of the microcalcifications. The study is performed on a set of 50 benign and 50 malign samples preserved in paraffin. The ground truth of the classification is based upon anapathological investigation of the paraffin blocks. The results show a sensitivity, i.e. the percentage of correctly classified malign samples, of up to 98% with a specificity of 40%.

  19. Dual-energy micro-CT imaging of pulmonary airway obstruction: correlation with micro-SPECT

    NASA Astrophysics Data System (ADS)

    Badea, C. T.; Befera, N.; Clark, D.; Qi, Y.; Johnson, G. A.

    2014-03-01

    To match recent clinical dual energy (DE) CT studies focusing on the lung, similar developments for DE micro-CT of the rodent lung are required. Our group has been actively engaged in designing pulmonary gating techniques for micro- CT, and has also introduced the first DE micro-CT imaging method of the rodent lung. The aim of this study was to assess the feasibility of DE micro-CT imaging for the evaluation of airway obstruction in mice, and to compare the method with micro single photon emission computed tomography (micro-SPECT) using technetium-99m labeled macroaggregated albumin (99mTc-MAA). The results suggest that the induced pulmonary airway obstruction causes either atelectasis, or air-trapping similar to asthma or chronic bronchitis. Atelectasis could only be detected at early time points in DE micro-CT images, and is associated with a large increase in blood fraction and decrease in air fraction. Air trapping had an opposite effect with larger air fraction and decreased blood fraction shown by DE micro-CT. The decrease in perfusion to the hypoventilated lung (hypoxic vasoconstriction) is also seen in micro-SPECT. The proposed DE micro-CT technique for imaging localized airway obstruction performed well in our evaluation, and provides a higher resolution compared to micro-SPECT. Both DE micro-CT and micro-SPECT provide critical, quantitative lung biomarkers for image-based anatomical and functional information in the small animal. The methods are readily linked to clinical methods allowing direct comparison of preclinical and clinical results.

  20. Local variations in bone mineral density: a comparison of OCT versus x-ray micro-CT

    NASA Astrophysics Data System (ADS)

    Ugryumova, Nadya; Stevens-Smith, Jenna; Scutt, Andrew; Matcher, Stephen J.

    2008-02-01

    We describe variations in the degree of mineralisation within the subchondral bone plate of the equine metacarpophalangeal joint. A comparison of Optical Coherence Tomography, Micro CT, and SEM techniques was performed. These data are compared between sites on a healthy sample and at points on an osteoarthritically degenerated sample. No significant correlation was found between the optical scattering coefficient and the micro-CT derived BMD for comparisons between different sites on the bone surface. Also OCT demonstrated a larger regional variation in scattering coefficient than did micro CT for bone mineral density. This suggests that the optical scattering coefficient of bone is not related solely to the volume-density of calcium-phosphate. Patches of lower optical scattering coefficient were found in the bone structure that was related to the osteoarthritic lesion area on the overlying cartilage. Areas of microcracking, as revealed by both SEM and micro CT produced distinctive granularity in the OCT images. In further experiments, OCT was compared with micro CT and mechanical strength testing (3-point bending) in a small animal model of cardiovascular disease (cholesterol overload in mice). In the cardiovascular diseased mice, micro-CT of the trabecular bone did not demonstrate a significant change in trabecular bone mineral density before and after administration of the high cholesterol diet. However mechanical testing demonstrated a decrease in mechanical strength and OCT demonstrated a corresponding statistically significant decrease in optical scattering of the bone.

  1. Image Reconstruction for Hybrid True-Color Micro-CT

    PubMed Central

    Xu, Qiong; Yu, Hengyong; Bennett, James; He, Peng; Zainon, Rafidah; Doesburg, Robert; Opie, Alex; Walsh, Mike; Shen, Haiou; Butler, Anthony; Butler, Phillip; Mou, Xuanqin; Wang, Ge

    2013-01-01

    X-ray micro-CT is an important imaging tool for biomedical researchers. Our group has recently proposed a hybrid “true-color” micro-CT system to improve contrast resolution with lower system cost and radiation dose. The system incorporates an energy-resolved photon-counting true-color detector into a conventional micro-CT configuration, and can be used for material decomposition. In this paper, we demonstrate an interior color-CT image reconstruction algorithm developed for this hybrid true-color micro-CT system. A compressive sensing-based statistical interior tomography method is employed to reconstruct each channel in the local spectral imaging chain, where the reconstructed global gray-scale image from the conventional imaging chain served as the initial guess. Principal component analysis was used to map the spectral reconstructions into the color space. The proposed algorithm was evaluated by numerical simulations, physical phantom experiments, and animal studies. The results confirm the merits of the proposed algorithm, and demonstrate the feasibility of the hybrid true-color micro-CT system. Additionally, a “color diffusion” phenomenon was observed whereby high-quality true-color images are produced not only inside the region of interest, but also in neighboring regions. It appears harnessing that this phenomenon could potentially reduce the color detector size for a given ROI, further reducing system cost and radiation dose. PMID:22481806

  2. Desktop x-ray micro-CT instruments

    NASA Astrophysics Data System (ADS)

    Sasov, Alexander

    2002-01-01

    An x-ray microtomograph (or micro-CT) is an instrument for nondestructive 3-dimensional reconstruction of the object's internal microstructure without physical cut or time consuming specimen preparation. By using modern technology in x-ray sources and detectors several micro-CT systems were created as a simply usable desktop instrument. First micro- CT system is a laboratory instrument, giving true spatial resolution over ten million times more detailed (in the term of volume parts) than the medical CT-scanners. The instrument contains a sealed microfocus x-ray source, a cooled x-ray digital CCD-camera and a Dual Pentium computer for system control and 3D reconstructions running under Windows 2000. The instrument includes possibilities for image analysis in the nondestructively reconstructed internal microstructure and realistic 3D visualization. During scanning, objects are displaced in normal environment conditions, without vacuum or preparation. Another micro-CT scanner is a low-cost portable instrument, which can be connected to any external Pentium-based PC. Third instrument - microlaminograph - can create nondestructive slicing in any place of big planar objects (electronic assemblies, PCBs, etc.). This system uses principles of tomosynthesis from incomplete dataset for slicing in internal object's layers. The main application areas for micro-CT and microlaminography systems are biomedical research, material sciences, electronic components, etc.

  3. Image reconstruction for hybrid true-color micro-CT.

    PubMed

    Xu, Qiong; Yu, Hengyong; Bennett, James; He, Peng; Zainon, Rafidah; Doesburg, Robert; Opie, Alex; Walsh, Mike; Shen, Haiou; Butler, Anthony; Butler, Phillip; Mou, Xuanqin; Wang, Ge

    2012-06-01

    X-ray micro-CT is an important imaging tool for biomedical researchers. Our group has recently proposed a hybrid "true-color" micro-CT system to improve contrast resolution with lower system cost and radiation dose. The system incorporates an energy-resolved photon-counting true-color detector into a conventional micro-CT configuration, and can be used for material decomposition. In this paper, we demonstrate an interior color-CT image reconstruction algorithm developed for this hybrid true-color micro-CT system. A compressive sensing-based statistical interior tomography method is employed to reconstruct each channel in the local spectral imaging chain, where the reconstructed global gray-scale image from the conventional imaging chain served as the initial guess. Principal component analysis was used to map the spectral reconstructions into the color space. The proposed algorithm was evaluated by numerical simulations, physical phantom experiments, and animal studies. The results confirm the merits of the proposed algorithm, and demonstrate the feasibility of the hybrid true-color micro-CT system. Additionally, a "color diffusion" phenomenon was observed whereby high-quality true-color images are produced not only inside the region of interest, but also in neighboring regions. It appears harnessing that this phenomenon could potentially reduce the color detector size for a given ROI, further reducing system cost and radiation dose.

  4. TLD assessment of mouse dosimetry during microCT imaging

    PubMed Central

    Figueroa, Said Daibes; Winkelmann, Christopher T.; Miller, William H.; Volkert, Wynn A.; Hoffman, Timothy J.

    2008-01-01

    Advances in laboratory animal imaging have provided new resources for noninvasive biomedical research. Among these technologies is microcomputed tomography (microCT) which is widely used to obtain high resolution anatomic images of small animals. Because microCT utilizes ionizing radiation for image formation, radiation exposure during imaging is a concern. The objective of this study was to quantify the radiation dose delivered during a standard microCT scan. Radiation dose was measured using thermoluminescent dosimeters (TLDs), which were irradiated employing an 80 kVp x-ray source, with 0.5 mm Al filtration and a total of 54 mA s for a full 360 deg rotation of the unit. The TLD data were validated using a 3.2 cm3 CT ion chamber probe. TLD results showed a single microCT scan air kerma of 78.0±5.0 mGy when using a poly(methylmethacrylate) (PMMA) anesthesia support module and an air kerma of 92.0±6.0 mGy without the use of the anesthesia module. The validation CT ion chamber study provided a measured radiation air kerma of 81.0±4.0 mGy and 97.0±5.0 mGy with and without the PMMA anesthesia module, respectively. Internal TLD analysis demonstrated an average mouse organ radiation absorbed dose of 76.0±5.0 mGy. The author’s results have defined x-ray exposure for a routine microCT study which must be taken into consideration when performing serial molecular imaging studies involving the microCT imaging modality. PMID:18841837

  5. TLD assessment of mouse dosimetry during microCT imaging

    SciTech Connect

    Figueroa, Said Daibes; Winkelmann, Christopher T.; Miller, William H.; Volkert, Wynn A.; Hoffman, Timothy J.

    2008-09-15

    Advances in laboratory animal imaging have provided new resources for noninvasive biomedical research. Among these technologies is microcomputed tomography (microCT) which is widely used to obtain high resolution anatomic images of small animals. Because microCT utilizes ionizing radiation for image formation, radiation exposure during imaging is a concern. The objective of this study was to quantify the radiation dose delivered during a standard microCT scan. Radiation dose was measured using thermoluminescent dosimeters (TLDs), which were irradiated employing an 80 kVp x-ray source, with 0.5 mm Al filtration and a total of 54 mA s for a full 360 deg rotation of the unit. The TLD data were validated using a 3.2 cm{sup 3} CT ion chamber probe. TLD results showed a single microCT scan air kerma of 78.0{+-}5.0 mGy when using a poly(methylmethacrylate) (PMMA) anesthesia support module and an air kerma of 92.0{+-}6.0 mGy without the use of the anesthesia module. The validation CT ion chamber study provided a measured radiation air kerma of 81.0{+-}4.0 mGy and 97.0{+-}5.0 mGy with and without the PMMA anesthesia module, respectively. Internal TLD analysis demonstrated an average mouse organ radiation absorbed dose of 76.0{+-}5.0 mGy. The author's results have defined x-ray exposure for a routine microCT study which must be taken into consideration when performing serial molecular imaging studies involving the microCT imaging modality.

  6. Image analysis of pulmonary nodules using micro CT

    NASA Astrophysics Data System (ADS)

    Niki, Noboru; Kawata, Yoshiki; Fujii, Masashi; Kakinuma, Ryutaro; Moriyama, Noriyuki; Tateno, Yukio; Matsui, Eisuke

    2001-07-01

    We are developing a micro-computed tomography (micro CT) system for imaging pulmonary nodules. The purpose is to enhance the physician performance in accessing the micro- architecture of the nodule for classification between malignant and benign nodules. The basic components of the micro CT system consist of microfocus X-ray source, a specimen manipulator, and an image intensifier detector coupled to charge-coupled device (CCD) camera. 3D image reconstruction was performed by the slice. A standard fan- beam convolution and backprojection algorithm was used to reconstruct the center plane intersecting the X-ray source. The preprocessing of the 3D image reconstruction included the correction of the geometrical distortions and the shading artifact introduced by the image intensifier. The main advantage of the system is to obtain a high spatial resolution which ranges between b micrometers and 25 micrometers . In this work we report on preliminary studies performed with the micro CT for imaging resected tissues of normal and abnormal lung. Experimental results reveal micro architecture of lung tissues, such as alveolar wall, septal wall of pulmonary lobule, and bronchiole. From the results, the micro CT system is expected to have interesting potentials for high confidential differential diagnosis.

  7. Nondestructive Analysis of Astromaterials by Micro-CT and Micro-XRF Analysis for PET Examination

    NASA Technical Reports Server (NTRS)

    Zeigler, R. A.; Righter, K.; Allen, C. C.

    2013-01-01

    An integral part of any sample return mission is the initial description and classification of returned samples by the preliminary examination team (PET). The goal of the PET is to characterize and classify returned samples and make this information available to the larger research community who then conduct more in-depth studies on the samples. The PET tries to minimize the impact their work has on the sample suite, which has in the past limited the PET work to largely visual, nonquantitative measurements (e.g., optical microscopy). More modern techniques can also be utilized by a PET to nondestructively characterize astromaterials in much more rigorous way. Here we discuss our recent investigations into the applications of micro-CT and micro-XRF analyses with Apollo samples and ANSMET meteorites and assess the usefulness of these techniques in future PET. Results: The application of micro computerized tomography (micro-CT) to astromaterials is not a new concept. The technique involves scanning samples with high-energy x-rays and constructing 3-dimensional images of the density of materials within the sample. The technique can routinely measure large samples (up to approx. 2700 cu cm) with a small individual voxel size (approx. 30 cu m), and has the sensitivity to distinguish the major rock forming minerals and identify clast populations within brecciated samples. We have recently run a test sample of a terrestrial breccia with a carbonate matrix and multiple igneous clast lithologies. The test results are promising and we will soon analyze a approx. 600 g piece of Apollo sample 14321 to map out the clast population within the sample. Benchtop micro x-ray fluorescence (micro-XRF) instruments can rapidly scan large areas (approx. 100 sq cm) with a small pixel size (approx. 25 microns) and measure the (semi) quantitative composition of largely unprepared surfaces for all elements between Be and U, often with sensitivity on the order of a approx. 100 ppm. Our recent

  8. Micro-CT and nano-CT analysis of filling quality of three different endodontic sealers.

    PubMed

    Huang, Yan; Celikten, Berkan; de Faria Vasconcelos, Karla; Ferreira Pinheiro Nicolielo, Laura; Lippiatt, Nicholas; Buyuksungur, Arda; Jacobs, Reinhilde; Orhan, Kaan

    2017-08-27

    To investigate voids in different root canal sealers using micro-CT and nano-CT, and to explore the feasibility of using nano-CT for quantitative analysis of sealer filling quality. Thirty extracted mandibular central incisors were randomly assigned into three groups according to the applied root canal sealers (Total BC Sealer, Sure Seal Root, AH Plus) by the single cone technique. Subsequently, micro-CT and nano-CT were performed to analyze the incidence rate of voids, void fraction, void volume and their distribution in each sample. Micro-CT evaluation showed no significant difference among sealers for the incidence rate of voids or void fraction in the whole filling materials (p > 0.05), whereas a significant difference was found between AH plus and the other two sealers using nano-CT (p < 0.05). All three sealers presented less void volume in the apical third; however, higher void volumes were observed in the apical and coronal thirds in AH Plus using micro-CT (p < 0.05), while nano-CT results displayed higher void volume in AH plus among all the sealers and regions (p < 0.05). Bioactive sealers showed higher root filling rate, lower incidence rate of voids, void fraction and void volume than AH Plus under nano-CT analysis, when round root canals were treated by the single cone technique. The disparate results suggest that the higher resolution of nano-CT have a greater ability of distinguishing internal porosity, and therefore suggesting the potential use of nano-CT in quantitative analysis of filling quality of sealers.

  9. Morphology of Major Stone Types, As Shown by Micro Computed Tomography (micro CT)

    SciTech Connect

    Jackson, Molly E.; Beuschel, Christian A.; McAteer, James A.; Williams, James C.

    2008-09-18

    Micro CT offers the possibility of providing a non-destructive method of stone analysis that allows visualization of 100% of the stone's volume. For the present study, micro CT analysis was completed on stones of known composition with isotropic voxel sizes of either 7 or 9.1 {mu}m. Each mineral type was distinctive, either by x-ray attenuation values or by morphology. Minor components, such as the presence of apatite in oxalate stones, were easily seen. The analysis of stones by micro CT opens up the possibility of exploring the stone as an encapsulated history of the patient's disease, showing changes in mineral deposition with time.

  10. Interior micro-CT with an offset detector

    SciTech Connect

    Sharma, Kriti Sen; Gong, Hao; Ghasemalizadeh, Omid; Yu, Hengyong; Wang, Ge

    2014-06-15

    Purpose: The size of field-of-view (FOV) of a microcomputed tomography (CT) system can be increased by offsetting the detector. The increased FOV is beneficial in many applications. All prior investigations, however, have been focused to the case in which the increased FOV after offset-detector acquisition can cover the transaxial extent of an object fully. Here, the authors studied a new problem where the FOV of a micro-CT system, although increased after offset-detector acquisition, still covers an interior region-of-interest (ROI) within the object. Methods: An interior-ROI-oriented micro-CT scan with an offset detector poses a difficult reconstruction problem, which is caused by both detector offset and projection truncation. Using the projection completion techniques, the authors first extended three previous reconstruction methods from offset-detector micro-CT to offset-detector interior micro-CT. The authors then proposed a novel method which combines two of the extended methods using a frequency split technique. The authors tested the four methods with phantom simulations at 9.4%, 18.8%, 28.2%, and 37.6% detector offset. The authors also applied these methods to physical phantom datasets acquired at the same amounts of detector offset from a customized micro-CT system. Results: When the detector offset was small, all reconstruction methods showed good image quality. At large detector offset, the three extended methods gave either visible shading artifacts or high deviation of pixel value, while the authors’ proposed method demonstrated no visible artifacts and minimal deviation of pixel value in both the numerical simulations and physical experiments. Conclusions: For an interior micro-CT with an offset detector, the three extended reconstruction methods can perform well at a small detector offset but show strong artifacts at a large detector offset. When the detector offset is large, the authors’ proposed reconstruction method can outperform the three

  11. High Resolution X-Ray Micro-CT of Ultra-Thin Wall Space Components

    NASA Technical Reports Server (NTRS)

    Roth, Don J.; Rauser, R. W.; Bowman, Randy R.; Bonacuse, Peter; Martin, Richard E.; Locci, I. E.; Kelley, M.

    2012-01-01

    A high resolution micro-CT system has been assembled and is being used to provide optimal characterization for ultra-thin wall space components. The Glenn Research Center NDE Sciences Team, using this CT system, has assumed the role of inspection vendor for the Advanced Stirling Convertor (ASC) project at NASA. This article will discuss many aspects of the development of the CT scanning for this type of component, including CT system overview; inspection requirements; process development, software utilized and developed to visualize, process, and analyze results; calibration sample development; results on actual samples; correlation with optical/SEM characterization; CT modeling; and development of automatic flaw recognition software. Keywords: Nondestructive Evaluation, NDE, Computed Tomography, Imaging, X-ray, Metallic Components, Thin Wall Inspection

  12. [Micro-CT imaging of guinea pig cochlear].

    PubMed

    Sun, Cheng-cheng; Jiang, Zi-dong; Zhang, Kai

    2012-12-25

    To employ micro-CT equipment for nondestructive three-dimensional (3D) imaging of internal ear. The guinea pigs were anesthetized by napental and bilateral cochleas harvested. Cochlea was fixed in glutaraldehyde before scanning of micro-CT. Two-dimensional (2D) images were acquired for a 3D model of reconstruction. The 2D images was distinct enough to visualize vestibular gallery, scala media, scala tympani, Reissner's membrane, velum, organ of Corti and spiral ganglion, etc. The 3D structure model was excellent for viewing and free to revolve in any axial direction. Micro-CT may allow nondestructive three-dimensional imaging of internal ear. As compared with the traditional method of morphology, this approach is able to save samples, easy to operate and has a high resolution. And it is more easily popularized than the synchrotron radiation approach.

  13. Recent micro-CT scanner developments at UGCT

    NASA Astrophysics Data System (ADS)

    Dierick, Manuel; Van Loo, Denis; Masschaele, Bert; Van den Bulcke, Jan; Van Acker, Joris; Cnudde, Veerle; Van Hoorebeke, Luc

    2014-04-01

    This paper describes two X-ray micro-CT scanners which were recently developed to extend the experimental possibilities of microtomography research at the Centre for X-ray Tomography (www.ugct.ugent.be) of the Ghent University (Belgium). The first scanner, called Nanowood, is a wide-range CT scanner with two X-ray sources (160 kVmax) and two detectors, resolving features down to 0.4 μm in small samples, but allowing samples up to 35 cm to be scanned. This is a sample size range of 3 orders of magnitude, making this scanner well suited for imaging multi-scale materials such as wood, stone, etc. Besides the traditional cone-beam acquisition, Nanowood supports helical acquisition, and it can generate images with significant phase-contrast contributions. The second scanner, known as the Environmental micro-CT scanner (EMCT), is a gantry based micro-CT scanner with variable magnification for scanning objects which are not easy to rotate in a standard micro-CT scanner, for example because they are physically connected to external experimental hardware such as sensor wiring, tubing or others. This scanner resolves 5 μm features, covers a field-of-view of about 12 cm wide with an 80 cm vertical travel range. Both scanners will be extensively described and characterized, and their potential will be demonstrated with some key application results.

  14. 4D micro-CT using fast prospective gating.

    PubMed

    Guo, Xiaolian; Johnston, Samuel M; Qi, Yi; Johnson, G Allan; Badea, Cristian T

    2012-01-07

    Micro-CT is currently used in preclinical studies to provide anatomical information. But, there is also significant interest in using this technology to obtain functional information. We report here a new sampling strategy for 4D micro-CT for functional cardiac and pulmonary imaging. Rapid scanning of free-breathing mice is achieved with fast prospective gating (FPG) implemented on a field programmable gate array. The method entails on-the-fly computation of delays from the R peaks of the ECG signals or the peaks of the respiratory signals for the triggering pulses. Projection images are acquired for all cardiac or respiratory phases at each angle before rotating to the next angle. FPG can deliver the faster scan time of retrospective gating (RG) with the regular angular distribution of conventional prospective gating for cardiac or respiratory gating. Simultaneous cardio-respiratory gating is also possible with FPG in a hybrid retrospective/prospective approach. We have performed phantom experiments to validate the new sampling protocol and compared the results from FPG and RG in cardiac imaging of a mouse. Additionally, we have evaluated the utility of incorporating respiratory information in 4D cardiac micro-CT studies with FPG. A dual-source micro-CT system was used for image acquisition with pulsed x-ray exposures (80 kVp, 100 mA, 10 ms). The cardiac micro-CT protocol involves the use of a liposomal blood pool contrast agent containing 123 mg I ml(-1) delivered via a tail vein catheter in a dose of 0.01 ml g(-1) body weight. The phantom experiment demonstrates that FPG can distinguish the successive phases of phantom motion with minimal motion blur, and the animal study demonstrates that respiratory FPG can distinguish inspiration and expiration. 4D cardiac micro-CT imaging with FPG provides image quality superior to RG at an isotropic voxel size of 88 μm and 10 ms temporal resolution. The acquisition time for either sampling approach is less than 5 min. The

  15. 4D micro-CT using fast prospective gating

    NASA Astrophysics Data System (ADS)

    Guo, Xiaolian; Johnston, Samuel M.; Qi, Yi; Johnson, G. Allan; Badea, Cristian T.

    2012-01-01

    Micro-CT is currently used in preclinical studies to provide anatomical information. But, there is also significant interest in using this technology to obtain functional information. We report here a new sampling strategy for 4D micro-CT for functional cardiac and pulmonary imaging. Rapid scanning of free-breathing mice is achieved with fast prospective gating (FPG) implemented on a field programmable gate array. The method entails on-the-fly computation of delays from the R peaks of the ECG signals or the peaks of the respiratory signals for the triggering pulses. Projection images are acquired for all cardiac or respiratory phases at each angle before rotating to the next angle. FPG can deliver the faster scan time of retrospective gating (RG) with the regular angular distribution of conventional prospective gating for cardiac or respiratory gating. Simultaneous cardio-respiratory gating is also possible with FPG in a hybrid retrospective/prospective approach. We have performed phantom experiments to validate the new sampling protocol and compared the results from FPG and RG in cardiac imaging of a mouse. Additionally, we have evaluated the utility of incorporating respiratory information in 4D cardiac micro-CT studies with FPG. A dual-source micro-CT system was used for image acquisition with pulsed x-ray exposures (80 kVp, 100 mA, 10 ms). The cardiac micro-CT protocol involves the use of a liposomal blood pool contrast agent containing 123 mg I ml-1 delivered via a tail vein catheter in a dose of 0.01 ml g-1 body weight. The phantom experiment demonstrates that FPG can distinguish the successive phases of phantom motion with minimal motion blur, and the animal study demonstrates that respiratory FPG can distinguish inspiration and expiration. 4D cardiac micro-CT imaging with FPG provides image quality superior to RG at an isotropic voxel size of 88 µm and 10 ms temporal resolution. The acquisition time for either sampling approach is less than 5 min. The

  16. Scout-view Assisted Interior Micro-CT

    PubMed Central

    Sen Sharma, Kriti; Holzner, Christian; Vasilescu, Dragoş M.; Jin, Xin; Narayanan, Shree; Agah, Masoud; Hoffman, Eric A.; Yu, Hengyong; Wang, Ge

    2013-01-01

    Micro computed tomography (micro-CT) is a widely-used imaging technique. A challenge of micro-CT is to quantitatively reconstruct a sample larger than the field-of-view (FOV) of the detector. This scenario is characterized by truncated projections and associated image artifacts. However, for such truncated scans, a low resolution scout scan with an increased FOV is frequently acquired so as to position the sample properly. This study shows that the otherwise discarded scout scans can provide sufficient additional information to uniquely and stably reconstruct the interior region of interest. Two interior reconstruction methods are designed to utilize the multi-resolution data without a significant computational overhead. While most previous studies used numerically truncated global projections as interior data, this study uses truly hybrid scans where global and interior scans were carried out at different resolutions. Additionally, owing to the lack of standard interior micro-CT phantoms, we designed and fabricated novel interior micro-CT phantoms for this study to provide means of validation for our algorithms. Finally, two characteristic samples from separate studies were scanned to show the effect of our reconstructions. The presented methods show significant improvements over existing reconstruction algorithms. PMID:23732478

  17. Micro benchtop optics by bulk silicon micromachining

    DOEpatents

    Lee, Abraham P.; Pocha, Michael D.; McConaghy, Charles F.; Deri, Robert J.

    2000-01-01

    Micromachining of bulk silicon utilizing the parallel etching characteristics of bulk silicon and integrating the parallel etch planes of silicon with silicon wafer bonding and impurity doping, enables the fabrication of on-chip optics with in situ aligned etched grooves for optical fibers, micro-lenses, photodiodes, and laser diodes. Other optical components that can be microfabricated and integrated include semi-transparent beam splitters, micro-optical scanners, pinholes, optical gratings, micro-optical filters, etc. Micromachining of bulk silicon utilizing the parallel etching characteristics thereof can be utilized to develop miniaturization of bio-instrumentation such as wavelength monitoring by fluorescence spectrometers, and other miniaturized optical systems such as Fabry-Perot interferometry for filtering of wavelengths, tunable cavity lasers, micro-holography modules, and wavelength splitters for optical communication systems.

  18. Wafer-scale micro-optics fabrication

    NASA Astrophysics Data System (ADS)

    Voelkel, Reinhard

    2012-07-01

    Micro-optics is an indispensable key enabling technology for many products and applications today. Probably the most prestigious examples are the diffractive light shaping elements used in high-end DUV lithography steppers. Highly-efficient refractive and diffractive micro-optical elements are used for precise beam and pupil shaping. Micro-optics had a major impact on the reduction of aberrations and diffraction effects in projection lithography, allowing a resolution enhancement from 250 nm to 45 nm within the past decade. Micro-optics also plays a decisive role in medical devices (endoscopes, ophthalmology), in all laser-based devices and fiber communication networks, bringing high-speed internet to our homes. Even our modern smart phones contain a variety of micro-optical elements. For example, LED flash light shaping elements, the secondary camera, ambient light and proximity sensors. Wherever light is involved, micro-optics offers the chance to further miniaturize a device, to improve its performance, or to reduce manufacturing and packaging costs. Wafer-scale micro-optics fabrication is based on technology established by the semiconductor industry. Thousands of components are fabricated in parallel on a wafer. This review paper recapitulates major steps and inventions in wafer-scale micro-optics technology. The state-of-the-art of fabrication, testing and packaging technology is summarized.

  19. A dual micro-CT system for small animal imaging

    NASA Astrophysics Data System (ADS)

    Badea, C. T.; Johnston, S.; Johnson, B.; Lin, M.; Hedlund, L. W.; Johnson, G. Allan

    2008-03-01

    Micro-CT is a non-invasive imaging modality usually used to assess morphology in small animals. In our previous work, we have demonstrated that functional micro-CT imaging is also possible. This paper describes a dual micro-CT system with two fixed x-ray/detectors developed to address such challenging tasks as cardiac or perfusion studies in small animals. A two-tube/detector system ensures simultaneous acquisition of two projections, thus reducing scanning time and the number of contrast injections in perfusion studies by a factor of two. The system is integrated with software developed in-house for cardio-respiratory monitoring and gating. The sampling geometry was optimized for 88 microns in such a way that the geometric blur of the focal spot matches the Nyquist sample at the detector. A geometric calibration procedure allows one to combine projection data from the two chains into a single reconstructed volume. Image quality was measured in terms of spatial resolution, uniformity, noise, and linearity. The modulation transfer function (MTF) at 10% is 3.4 lp/mm for single detector reconstructions and 2.3 lp/mm for dual tube/detector reconstructions. We attribute this loss in spatial resolution to the compounding of slight errors in the separate single chain calibrations. The dual micro-CT system is currently used in studies for morphological and functional imaging of both rats and mice.

  20. Algorithm-enabled Low-dose Micro-CT Imaging

    PubMed Central

    Han, Xiao; Bian, Junguo; Eaker, Diane R.; Kline, Timothy L.; Sidky, Emil Y.; Ritman, Erik L.; Pan, Xiaochuan

    2013-01-01

    Micro-CT is an important tool in biomedical research and preclinical applications that can provide visual inspection of and quantitative information about imaged small animals and biological samples such as vasculature specimens. Currently, micro-CT imaging uses projection data acquired at a large number (300 – 1000) of views, which can limit system throughput and potentially degrade image quality due to radiation-induced deformation or damage to the small animal or specimen. In this work, we have investigated low-dose micro-CT and its application to specimen imaging from substantially reduced projection data by using a recently developed algorithm, referred to as the adaptive-steepest-descent-projection-onto-convex-sets (ASD-POCS) algorithm, which reconstructs an image through minimizing the image total-variation and enforcing data constraints. To validate and evaluate the performance of the ASD-POCS algorithm, we carried out quantitative evaluation studies in a number of tasks of practical interest in imaging of specimens of real animal organs. The results show that the ASD-POCS algorithm can yield images with quality comparable to that obtained with existing algorithms, while using one-sixth to one quarter of the 361-view data currently used in typical micro-CT specimen imaging. PMID:20977983

  1. Micro-objective manipulated with optical tweezers

    NASA Astrophysics Data System (ADS)

    Sasaki, Minoru; Kurosawa, Tutomu; Hane, Kazuhiro

    1997-02-01

    A microscope is described that uses a μm-sized ball lens, which is here termed micro-objective, manipulated with optical tweezers to image the side view of the arbitrary region of a sample. Since this micro-objective is small in size, it can go into a concave region to produce a local image of the inside which the conventional microscope cannot observe. Preliminary results show good lens performance from the micro-objective when combined with optical tweezers.

  2. A model for clubfoot based on micro-CT data

    PubMed Central

    Windisch, Gunther; Salaberger, Dietmar; Rosmarin, Walter; Kastner, Johann; Exner, Gerhard Ulrich; Haldi-Brändle, Verena; Anderhuber, Friedrich

    2007-01-01

    The pathological anatomy of idiopathic clubfoot has been investigated for more than 180 years using anatomy, computed tomography (CT), histology and microscopy. Seven idiopathic clubfeet and two normal feet of aborted fetuses were dissected in the present study, with special emphasis on the shape of the cartilage and bones. A three-dimensional (3D) micro-CT system, which generates a series of X-ray attenuation measurements, was used to produce computed reconstructed 3D data sets of each of the separated bones. Based on the micro-CT data scans a high-definition 3D colour printing system was used to make a four times enlarged clubfoot model, precisely presenting all the bony malformations. This model reflects the complexity of the anatomy of this disease and is designed to be used in the workshops of orthopaedic surgeons and physiotherapists, for training in new surgical and manipulation techniques. PMID:17504271

  3. Assessing Cardiac Injury in Mice With Dual Energy-MicroCT, 4D-MicroCT, and MicroSPECT Imaging After Partial Heart Irradiation

    SciTech Connect

    Lee, Chang-Lung; Min, Hooney; Befera, Nicholas; Clark, Darin; Qi, Yi; Das, Shiva; Johnson, G. Allan; Badea, Cristian T.; Kirsch, David G.

    2014-03-01

    Purpose: To develop a mouse model of cardiac injury after partial heart irradiation (PHI) and to test whether dual energy (DE)-microCT and 4-dimensional (4D)-microCT can be used to assess cardiac injury after PHI to complement myocardial perfusion imaging using micro-single photon emission computed tomography (SPECT). Methods and Materials: To study cardiac injury from tangent field irradiation in mice, we used a small-field biological irradiator to deliver a single dose of 12 Gy x-rays to approximately one-third of the left ventricle (LV) of Tie2Cre; p53{sup FL/+} and Tie2Cre; p53{sup FL/−} mice, where 1 or both alleles of p53 are deleted in endothelial cells. Four and 8 weeks after irradiation, mice were injected with gold and iodinated nanoparticle-based contrast agents, and imaged with DE-microCT and 4D-microCT to evaluate myocardial vascular permeability and cardiac function, respectively. Additionally, the same mice were imaged with microSPECT to assess myocardial perfusion. Results: After PHI with tangent fields, DE-microCT scans showed a time-dependent increase in accumulation of gold nanoparticles (AuNp) in the myocardium of Tie2Cre; p53{sup FL/−} mice. In Tie2Cre; p53{sup FL/−} mice, extravasation of AuNp was observed within the irradiated LV, whereas in the myocardium of Tie2Cre; p53{sup FL/+} mice, AuNp were restricted to blood vessels. In addition, data from DE-microCT and microSPECT showed a linear correlation (R{sup 2} = 0.97) between the fraction of the LV that accumulated AuNp and the fraction of LV with a perfusion defect. Furthermore, 4D-microCT scans demonstrated that PHI caused a markedly decreased ejection fraction, and higher end-diastolic and end-systolic volumes, to develop in Tie2Cre; p53{sup FL/−} mice, which were associated with compensatory cardiac hypertrophy of the heart that was not irradiated. Conclusions: Our results show that DE-microCT and 4D-microCT with nanoparticle-based contrast agents are novel imaging approaches

  4. MicroCT: Semi-Automated Analysis of CT Reconstructed Data of Home Made Explosive Materials Using the Matlab MicroCT Analysis GUI

    SciTech Connect

    Seetho, I M; Brown, W D; Kallman, J S; Martz, H E; White, W T

    2011-09-22

    This Standard Operating Procedure (SOP) provides the specific procedural steps for analyzing reconstructed CT images obtained under the IDD Standard Operating Procedures for data acquisition [1] and MicroCT image reconstruction [2], per the IDD Quality Assurance Plan for MicroCT Scanning [3]. Although intended to apply primarily to MicroCT data acquired in the HEAFCAT Facility at LLNL, these procedures may also be applied to data acquired at Tyndall from the YXLON cabinet and at TSL from the HEXCAT system. This SOP also provides the procedural steps for preparing the tables and graphs to be used in the reporting of analytical results. This SOP applies to R and D work - for production applications, use [4].

  5. MicroCT: Automated Analysis of CT Reconstructed Data of Home Made Explosive Materials Using the Matlab MicroCT Analysis GUI

    SciTech Connect

    Seetho, I M; Brown, W D; Kallman, J S; Martz, H E; White, W T

    2011-09-22

    This Standard Operating Procedure (SOP) provides the specific procedural steps for analyzing reconstructed CT images obtained under the IDD Standard Operating Procedures for data acquisition [1] and MicroCT image reconstruction [2], per the IDD Quality Assurance Plan for MicroCT Scanning [3]. Although intended to apply primarily to MicroCT data acquired in the HEAFCAT Facility at LLNL, these procedures may also be applied to data acquired at Tyndall from the YXLON cabinet and at TSL from the HEXCAT system. This SOP also provides the procedural steps for preparing the tables and graphs to be used in the reporting of analytical results. This SOP applies to production work - for R and D there are two other semi-automated methods as given in [4, 5].

  6. Micro-CT molecular imaging of tumor angiogenesis using a magnetite nano-cluster probe.

    PubMed

    Liu, Ping; Li, Jing; Zhang, Chunfu; Xu, Lisa X

    2013-06-01

    Due to its high resolution, micro-CT is desirable for molecular imaging of tumor angiogenesis. However, the sensitivity of micro-CT to contrast agents is relatively low. Therefore, the purpose of this study is to develop high micro-CT sensitive molecular imaging probes for direct visualization and dynamic monitoring of tumor angiogenesis. To this end, Arg-Gly-Asp (RGD) peptides conjugated magnetite nano clusters (RGD-MNCs) were developed by assembling individual magnetite nano particles into clusters with amphiphilic (maleimide) methoxypoly(ethylene glycol)-b-poly(lactic acid) ((Mal)mPEG-PLA) copolymer and subsequently encoding RGD peptides onto the clusters for specific targeting alpha(v)beta3 integrin. The hydrodynamic size of RGD-MNCs was about 85 nm. To test its specificity, alpha(v)beta3 positive cells (H1299) were incubated with magnetite nano clusters (MNCs), RGD-MNCs or RGD-MNCs competition with free RGD peptides. Prussian Blue staining and inductively coupled plasma optical emission spectrometer (ICP-OES) measurements indicated that the cell uptake of RGD-MNCs was significantly more than that of MNCs, which could be inhibited by free RGD peptides. For detection of tumor angiogenesis, mice bearing H1299 tumors were injected intravenously with RGD-MNCs at the dose of 400 micro mol Fe/kg. Tumor angiogenic hot spots as well as individual angiogenic vessels could be clearly manifested by micro-CT imaging 12 h post injection, which was dynamically monitored with the extension of probe circulation time. Subsequent histological studies of tumor tissues verified that RGD-MNCs registered tumor angiogenic vessels. Our study demonstrated that RGD-MNC probes fabricated in this study could be used to effectively target alpha(v)beta3 integrin. Using high resolution micro-CT in combination with the probes, tumor angiogenesis could be studied dynamically.

  7. Micro-CT images reconstruction and 3D visualization for small animal studying

    NASA Astrophysics Data System (ADS)

    Gong, Hui; Liu, Qian; Zhong, Aijun; Ju, Shan; Fang, Quan; Fang, Zheng

    2005-01-01

    A small-animal x-ray micro computed tomography (micro-CT) system has been constructed to screen laboratory small animals and organs. The micro-CT system consists of dual fiber-optic taper-coupled CCD detectors with a field-of-view of 25x50 mm2, a microfocus x-ray source, a rotational subject holder. For accurate localization of rotation center, coincidence between the axis of rotation and centre of image was studied by calibration with a polymethylmethacrylate cylinder. Feldkamp"s filtered back-projection cone-beam algorithm is adopted for three-dimensional reconstruction on account of the effective corn-beam angle is 5.67° of the micro-CT system. 200x1024x1024 matrix data of micro-CT is obtained with the magnification of 1.77 and pixel size of 31x31μm2. In our reconstruction software, output image size of micro-CT slices data, magnification factor and rotation sample degree can be modified in the condition of different computational efficiency and reconstruction region. The reconstructed image matrix data is processed and visualization by Visualization Toolkit (VTK). Data parallelism of VTK is performed in surface rendering of reconstructed data in order to improve computing speed. Computing time of processing a 512x512x512 matrix datasets is about 1/20 compared with serial program when 30 CPU is used. The voxel size is 54x54x108 μm3. The reconstruction and 3-D visualization images of laboratory rat ear are presented.

  8. Improving metrology for micro-optics manufacturing

    NASA Astrophysics Data System (ADS)

    Davies, Angela D.; Bergner, Brent C.; Gardner, Neil W.

    2003-11-01

    Metrology is one of the critical enabling technologies for realizing the full market potential for micro-optical systems. Measurement capabilities are currently far behind present and future needs. Much of today"s test equipment was developed for the micro-electronics industry and is not optimized for micro-optic materials and geometries. Metrology capabilities currently limit the components that can be realized, in many cases. Improved testing will be come increasingly important as the technology moves to integration where it will become important to "test early and test often" to achieve high yields. In this paper, we focus on micro-refractive components in particular, and describe measurement challenges for this class of components and current and future needs. We also describe a new micro-optics metrology research program at UNC Charlotte under the Center for Precision Metrology and the new Center for Optoelectronics and Optical Communications to address these needs.

  9. Micro-CT analysis of the rodent jaw bone micro-architecture: A systematic review.

    PubMed

    Faot, F; Chatterjee, M; de Camargos, G V; Duyck, Joke; Vandamme, K

    2015-06-01

    Knowledge about macro- and micro-structural characteristics may improve in vivo estimation of the quality and quantity of regenerated bone tissue. For this reason, micro-CT imaging has been applied to evaluate alveolar bone remodelling, alterations of periodontal ligament thickness and cortical and trabecular bone changes in rodent jaw bones. In this paper, we provide a systematic review on the available micro-CT literature on jaw bone micro-architecture. A detailed search through the PubMed database was performed. Articles published up to December 2013 and related to maxilla, mandible and condyle with quantitatively analysed bone micro-architectural parameters were considered eligible for inclusion. Two reviewers assessed the search results according to inclusion criteria designed to identify animal studies quantifying the bone micro-architecture of the jaw rodent bones in physiological or drug-induced disease status, or in response to interventions such as mechanical loading, hormonal treatment and other metabolic alterations. Finally, the reporting quality of the included publications was evaluated using the tailored ARRIVE guidelines outlined by Vignoletti and Abrahamsson (2012). Database search, additional manual searching and assessment of the inclusion and exclusion criteria retrieved 127 potentially relevant articles. Eventually, 14 maxilla, 20 mandible and 12 condyle articles with focus on bone healing were retained, and were analysed together with 3 methodological papers. Each study was described systematically in terms of subject, experimental intervention, follow-up period, selected region of interest used in the micro-CT analysis, parameters quantified, micro-CT scanner device and software. The evidence level evaluated by the ARRIVE guidelines showed high mean scores (between 18 and 25; range: 0-25), indicating that most of the selected studies are well-reported. The major obstacles identified were related to sample size calculation, absence of adverse

  10. Synchrotron microCT imaging of soft tissue in juvenile zebrafish reveals retinotectal projections

    NASA Astrophysics Data System (ADS)

    Xin, Xuying; Clark, Darin; Ang, Khai Chung; van Rossum, Damian B.; Copper, Jean; Xiao, Xianghui; La Riviere, Patrick J.; Cheng, Keith C.

    2017-02-01

    Biomedical research and clinical diagnosis would benefit greatly from full volume determinations of anatomical phenotype. Comprehensive tools for morphological phenotyping are central for the emerging field of phenomics, which requires high-throughput, systematic, accurate, and reproducible data collection from organisms affected by genetic, disease, or environmental variables. Theoretically, complete anatomical phenotyping requires the assessment of every cell type in the whole organism, but this ideal is presently untenable due to the lack of an unbiased 3D imaging method that allows histopathological assessment of any cell type despite optical opacity. Histopathology, the current clinical standard for diagnostic phenotyping, involves the microscopic study of tissue sections to assess qualitative aspects of tissue architecture, disease mechanisms, and physiological state. However, quantitative features of tissue architecture such as cellular composition and cell counting in tissue volumes can only be approximated due to characteristics of tissue sectioning, including incomplete sampling and the constraints of 2D imaging of 5 micron thick tissue slabs. We have used a small, vertebrate organism, the zebrafish, to test the potential of microCT for systematic macroscopic and microscopic morphological phenotyping. While cell resolution is routinely achieved using methods such as light sheet fluorescence microscopy and optical tomography, these methods do not provide the pancellular perspective characteristic of histology, and are constrained by the limited penetration of visible light through pigmented and opaque specimens, as characterizes zebrafish juveniles. Here, we provide an example of neuroanatomy that can be studied by microCT of stained soft tissue at 1.43 micron isotropic voxel resolution. We conclude that synchrotron microCT is a form of 3D imaging that may potentially be adopted towards more reproducible, large-scale, morphological phenotyping of optically

  11. Self-assembly micro optical filter

    NASA Astrophysics Data System (ADS)

    Zhang, Ping (Cerina); Le, Kevin; Malalur-Nagaraja-Rao, Smitha; Hsu, Lun-Chen; Chiao, J.-C.

    2006-01-01

    Optical communication and sensor industry face critical challenges in manufacturing for system integration. Due to the assembly complexity and integration platform variety, micro optical components require costly alignment and assembly procedures, in which many required manual efforts. Consequently, self-assembly device architectures have become a great interest and could provide major advantages over the conventional optical devices. In this paper, we discussed a self-assembly integration platform for micro optical components. To demonstrate the adaptability and flexibility of the proposed optical device architectures, we chose a commercially available MEMS fabrication foundry service - MUMPs (Multi-User MEMS Process). In this work, polysilicon layers of MUMPS are used as the 3-D structural material for construction of micro component framework and actuators. However, because the polysilicon has high absorption in the visible and near infrared wavelength ranges, it is not suitable for optical interaction. To demonstrate the required optical performance, hybrid integration of materials was proposed and implemented. Organic compound materials were applied on the silicon-based framework to form the required optical interfaces. Organic compounds provide good optical transparency, flexibility to form filters or lens and inexpensive manufacturing procedures. In this paper, we have demonstrated a micro optical filter integrated with self-assembly structures. We will discuss the self-assembly mechanism, optical filter designs, fabrication issues and results.

  12. Estimation of skull table thickness with clinical CT and validation with microCT.

    PubMed

    Lillie, Elizabeth M; Urban, Jillian E; Weaver, Ashley A; Powers, Alexander K; Stitzel, Joel D

    2015-01-01

    Brain injuries resulting from motor vehicle crashes (MVC) are extremely common yet the details of the mechanism of injury remain to be well characterized. Skull deformation is believed to be a contributing factor to some types of traumatic brain injury (TBI). Understanding biomechanical contributors to skull deformation would provide further insight into the mechanism of head injury resulting from blunt trauma. In particular, skull thickness is thought be a very important factor governing deformation of the skull and its propensity for fracture. Current computed tomography (CT) technology is limited in its ability to accurately measure cortical thickness using standard techniques. A method to evaluate cortical thickness using cortical density measured from CT data has been developed previously. This effort validates this technique for measurement of skull table thickness in clinical head CT scans using two postmortem human specimens. Bone samples were harvested from the skulls of two cadavers and scanned with microCT to evaluate the accuracy of the estimated cortical thickness measured from clinical CT. Clinical scans were collected at 0.488 and 0.625 mm in plane resolution with 0.625 mm thickness. The overall cortical thickness error was determined to be 0.078 ± 0.58 mm for cortical samples thinner than 4 mm. It was determined that 91.3% of these differences fell within the scanner resolution. Color maps of clinical CT thickness estimations are comparable to color maps of microCT thickness measurements, indicating good quantitative agreement. These data confirm that the cortical density algorithm successfully estimates skull table thickness from clinical CT scans. The application of this technique to clinical CT scans enables evaluation of cortical thickness in population-based studies.

  13. Estimation of skull table thickness with clinical CT and validation with microCT

    PubMed Central

    Lillie, Elizabeth M; Urban, Jillian E; Weaver, Ashley A; Powers, Alexander K; Stitzel, Joel D

    2015-01-01

    Brain injuries resulting from motor vehicle crashes (MVC) are extremely common yet the details of the mechanism of injury remain to be well characterized. Skull deformation is believed to be a contributing factor to some types of traumatic brain injury (TBI). Understanding biomechanical contributors to skull deformation would provide further insight into the mechanism of head injury resulting from blunt trauma. In particular, skull thickness is thought be a very important factor governing deformation of the skull and its propensity for fracture. Current computed tomography (CT) technology is limited in its ability to accurately measure cortical thickness using standard techniques. A method to evaluate cortical thickness using cortical density measured from CT data has been developed previously. This effort validates this technique for measurement of skull table thickness in clinical head CT scans using two postmortem human specimens. Bone samples were harvested from the skulls of two cadavers and scanned with microCT to evaluate the accuracy of the estimated cortical thickness measured from clinical CT. Clinical scans were collected at 0.488 and 0.625 mm in plane resolution with 0.625 mm thickness. The overall cortical thickness error was determined to be 0.078 ± 0.58 mm for cortical samples thinner than 4 mm. It was determined that 91.3% of these differences fell within the scanner resolution. Color maps of clinical CT thickness estimations are comparable to color maps of microCT thickness measurements, indicating good quantitative agreement. These data confirm that the cortical density algorithm successfully estimates skull table thickness from clinical CT scans. The application of this technique to clinical CT scans enables evaluation of cortical thickness in population-based studies. PMID:25441171

  14. Newt limb regeneration studied with synchrotron micro-CT

    NASA Astrophysics Data System (ADS)

    Stock, Stuart R.; Ignatiev, Konstantin I.; Simon, Hans-Georg; De Carlo, Francesco

    2004-10-01

    Newts are the most developed vertebrates which retain the ability as adults to regenerate missing limbs; they are, therefore, of great interest in terms understanding how such regeneration could be triggered in mammals. In this study, synchrotron microCT was used to study bone microstructure in control forelimbs and in forelimbs regenerated for periods from 37 to 85 days. The bone microstructure in newts has been largely neglected, and interesting patterns within the original bone and in the regenerating arm and hand are described. Periosteal bone formation in the regenerating arm and finger bones, delayed ossification of carpal (but not metacarpal) bones and the complex microstructure of the original carpal bones are areas where microCT reveals detail of particular interest.

  15. Micro-optics metrology using advanced interferometry

    NASA Astrophysics Data System (ADS)

    Reichelt, Stephan; Bieber, Alexander; Aatz, Bernd; Zappe, Hans

    2005-06-01

    Interferometric testing of micro-optical components involves some challenges due to problems such as Fresnel diffraction artefacts, the non-common path interferometer configuration, coherent noise as well disturbing interferences, and uncertainties in distance measurements. Recently we have developed a versatile Mach-Zehnder / Twyman-Green hybride interferometer for micro-optics testing. The system combines the advantages of both interferometer types and allows full characterization of lens and surface figure errors as well as radius of curvature and focal length measurements. The interferometer system is explained and measurement results of micro-lenses are presented. Furthermore, this paper is concerned with the metrology challenges of interferometric testing on microscopic scales.

  16. Micro-objective manipulated with optical tweezers

    SciTech Connect

    Sasaki, M.; Kurosawa, T.; Hane, K.

    1997-02-01

    A microscope is described that uses a {mu}m-sized ball lens, which is here termed micro-objective, manipulated with optical tweezers to image the side view of the arbitrary region of a sample. Since this micro-objective is small in size, it can go into a concave region to produce a local image of the inside which the conventional microscope cannot observe. Preliminary results show good lens performance from the micro-objective when combined with optical tweezers. {copyright} {ital 1997 American Institute of Physics.}

  17. Acoustic emissions in rock deformation experiments under micro-CT

    NASA Astrophysics Data System (ADS)

    Tisato, Nicola; Goodfellow, Sebastian D.; Moulas, Evangelos; Di Toro, Giulio; Young, Paul; Grasselli, Giovanni

    2016-04-01

    The study of acoustic emissions (AE) generated by rocks undergoing deformation has become, in the last decades, one of the most powerful tools for boosting our understanding of the mechanisms which are responsible for rock failures. AE are elastic waves emitted by the local failure of micro- or milli-metric portions of the tested specimen. At the same time, X-ray micro computed tomography (micro-CT) has become an affordable, reliable and powerful tool for imaging the internal structure of rock samples. In particular, micro-CT coupled with a deformation apparatus offers the unique opportunity for observing, without perturbing, the sample while the deformation and the formation of internal structures, such as shear bands, is ongoing. Here we present some preliminary results gathered with an innovative apparatus formed by the X-ray transparent pressure vessel called ERDμ equipped with AE sensors, an AE acquisition system and a micro-CT apparatus available at the University of Toronto. The experiment was performed on a 12 mm diameter 36 mm long porous glass sample which was cut on a 60 deg inclined plane (i.e. saw-cut sample). Etna basaltic sand with size ~1 mm was placed between the two inclined faces forming an inclined fault zone with ~2 mm thickness. The sample assembly was jacketed with a polyefin shrink tube and two AE sensors were glued onto the glass samples above and below the fault zone. The sample was then enclosed in the pressure vessel and confined with compressed air up to 3 MPa. A third AE sensor was placed outside the vessel. The sample was saturated with water and AE were generated by varying the fluid and confining pressure or the vertical force, causing deformations concentrated in the fault zone. Mechanical data and AE traces were collected throughout the entire experiment which lasted ~24 hours. At the same time multiple micro-CT 3D datasets and 2D movie-radiographies were collected, allowing the 3D reconstruction of the deformed sample at

  18. Manufacturing: 3D printed micro-optics

    NASA Astrophysics Data System (ADS)

    Juodkazis, Saulius

    2016-08-01

    Uncompromised performance of micro-optical compound lenses has been achieved by high-fidelity shape definition during two-photon absorption microfabrication. The lenses have been made directly onto image sensors and even onto the tip of an optic fibre.

  19. State of the Art of Micro-CT Applications in Dental Research

    PubMed Central

    Swain, Michael V; Xue, Jing

    2009-01-01

    This review highlights the recent advances in X-ray microcomputed tomography (Micro-CT) applied in dental research. It summarizes Micro-CT applications in measurement of enamel thickness, root canal morphology, evaluation of root canal preparation, craniofacial skeletal structure, micro finite element modeling, dental tissue engineering, mineral density of dental hard tissues and about dental implants. Details of studies in each of these areas are highlighted along with the advantages of Micro-CT, and finally a summary of the future applications of Micro-CT in dental research is given. PMID:20690421

  20. Interior tomographic imaging of mouse heart in a carbon nanotube micro-CT.

    PubMed

    Gong, Hao; Liu, Rui; Yu, Hengyong; Lu, Jianping; Zhou, Otto; Kan, Lijuan; He, Jia-Qiang; Cao, Guohua

    2016-05-02

    The relatively high radiation dose from micro-CT is a cause for concern in preclinical research involving animal subjects. Interior region-of-interest (ROI) imaging was proposed for dose reduction, but has not been experimentally applied in micro-CT. Our aim is to implement interior ROI imaging in a carbon nanotube (CNT) x-ray source based micro-CT, and present the ROI image quality and radiation dose reduction for interior cardiac micro-CT imaging of a mouse heart in situ. An aperture collimator was mounted at the source-side to induce a small-sized cone beam (10 mm width) at the isocenter. Interior in situ micro-CT scans were conducted on a mouse carcass and several micro-CT phantoms. A GPU-accelerated hybrid iterative reconstruction algorithm was employed for volumetric image reconstruction. Radiation dose was measured for the same system operated at the interior and global micro-CT modes. Visual inspection demonstrated comparable image quality between two scan modes. Quantitative evaluation demonstrated high structural similarity index (up to 0.9614) with improved contrast-noise-ratio (CNR) on interior micro-CT mode. Interior micro-CT mode yielded significant reduction (up to 83.9%) for dose length product (DLP). This work demonstrates the applicability of using CNT x-ray source based interior micro-CT for preclinical imaging with significantly reduced radiation dose.

  1. Nondestructive Analysis of Apollo Samples by Micro-CT and Micro-XRF Analysis: A PET Style Examination

    NASA Technical Reports Server (NTRS)

    Zeigler, Ryan A.

    2014-01-01

    An integral part of any sample return mission is the initial description and classification of returned samples by the preliminary examination team (PET). The goal of a PET is to characterize and classify the returned samples, making this information available to the general research community who can then conduct more in-depth studies on the samples. A PET strives to minimize the impact their work has on the sample suite, which often limits the PET work to largely visual measurements and observations like optical microscopy. More modern techniques can also be utilized by future PET to nondestructively characterize astromaterials in a more rigorous way. Here we present our recent analyses of Apollo samples 14321 and 14305 by micro-CT and micro-XRF (respectively), assess the potential for discovery of "new" Apollo samples for scientific study, and evaluate the usefulness of these techniques in future PET efforts.

  2. Dynamic testbed laboratory and micro-optics

    NASA Technical Reports Server (NTRS)

    Milster, T.; Erwin, K.; Froehlich, F.; Kann, J.; Li, W.; Schlichting, W.; Shetty, R.; Walker, E.; Wang, M.

    1993-01-01

    Objectives of this research are as follows: to understand the three classes of superresolution and their behavior in optical data storage systems; to investigate new and improved components and techniques in the optical system for data detection and servo control; to apply micro-optic components to the optical system to reduce size and weight; to investigate techniques, such as near-field optical probes, for recording data densities beyond that possible with superresolution; and to understand and find solutions for problems associated with dynamic testing, especially those that arise when evaluating blue-sensitive media.

  3. Exploring miniature insect brains using micro-CT scanning techniques.

    PubMed

    Smith, Dylan B; Bernhardt, Galina; Raine, Nigel E; Abel, Richard L; Sykes, Dan; Ahmed, Farah; Pedroso, Inti; Gill, Richard J

    2016-02-24

    The capacity to explore soft tissue structures in detail is important in understanding animal physiology and how this determines features such as movement, behaviour and the impact of trauma on regular function. Here we use advances in micro-computed tomography (micro-CT) technology to explore the brain of an important insect pollinator and model organism, the bumblebee (Bombus terrestris). Here we present a method for accurate imaging and exploration of insect brains that keeps brain tissue free from trauma and in its natural stereo-geometry, and showcase our 3D reconstructions and analyses of 19 individual brains at high resolution. Development of this protocol allows relatively rapid and cost effective brain reconstructions, making it an accessible methodology to the wider scientific community. The protocol describes the necessary steps for sample preparation, tissue staining, micro-CT scanning and 3D reconstruction, followed by a method for image analysis using the freeware SPIERS. These image analysis methods describe how to virtually extract key composite structures from the insect brain, and we demonstrate the application and precision of this method by calculating structural volumes and investigating the allometric relationships between bumblebee brain structures.

  4. Towards an inline reconstruction architecture for micro-CT systems

    NASA Astrophysics Data System (ADS)

    Brasse, David; Humbert, Bernard; Mathelin, Carole; Rio, Marie-Christine; Guyonnet, Jean-Louis

    2005-12-01

    Recent developments in micro-CT have revolutionized the ability to examine in vivo living experimental animal models such as mouse with a spatial resolution less than 50 µm. The main requirements of in vivo imaging for biological researchers are a good spatial resolution, a low dose induced to the animal during the full examination and a reduced acquisition and reconstruction time for screening purposes. We introduce inline acquisition and reconstruction architecture to obtain in real time the 3D attenuation map of the animal fulfilling the three previous requirements. The micro-CT system is based on commercially available x-ray detector and micro-focus x-ray source. The reconstruction architecture is based on a cluster of PCs where a dedicated communication scheme combining serial and parallel treatments is implemented. In order to obtain high performance transmission rate between the detector and the reconstruction architecture, a dedicated data acquisition system is also developed. With the proposed solution, the time required to filter and backproject a projection of 2048 × 2048 pixels inside a volume of 140 mega voxels using the Feldkamp algorithm is similar to 500 ms, the time needed to acquire the same projection. Patent no. FR 05 02564 deposited 15 March 2005.

  5. Exploring miniature insect brains using micro-CT scanning techniques

    PubMed Central

    Smith, Dylan B.; Bernhardt, Galina; Raine, Nigel E.; Abel, Richard L.; Sykes, Dan; Ahmed, Farah; Pedroso, Inti; Gill, Richard J.

    2016-01-01

    The capacity to explore soft tissue structures in detail is important in understanding animal physiology and how this determines features such as movement, behaviour and the impact of trauma on regular function. Here we use advances in micro-computed tomography (micro-CT) technology to explore the brain of an important insect pollinator and model organism, the bumblebee (Bombus terrestris). Here we present a method for accurate imaging and exploration of insect brains that keeps brain tissue free from trauma and in its natural stereo-geometry, and showcase our 3D reconstructions and analyses of 19 individual brains at high resolution. Development of this protocol allows relatively rapid and cost effective brain reconstructions, making it an accessible methodology to the wider scientific community. The protocol describes the necessary steps for sample preparation, tissue staining, micro-CT scanning and 3D reconstruction, followed by a method for image analysis using the freeware SPIERS. These image analysis methods describe how to virtually extract key composite structures from the insect brain, and we demonstrate the application and precision of this method by calculating structural volumes and investigating the allometric relationships between bumblebee brain structures. PMID:26908205

  6. Micro-CT with respiratory and cardiac gating

    SciTech Connect

    Badea, C.; Hedlund, L.W.; Johnson, G.A.

    2004-12-01

    Cardiopulmonary imaging in rodents using micro-computed tomography (CT) is a challenging task due to both cardiac and pulmonary motion and the limited fluence rate available from micro-focus x-ray tubes of most commercial systems. Successful imaging in the mouse requires recognition of both the spatial and temporal scales and their impact on the required fluence rate. Smaller voxels require an increase in the total number of photons (integrated fluence) used in the reconstructed image for constant signal-to-noise ratio. The faster heart rates require shorter exposures to minimize cardiac motion blur imposing even higher demands on the fluence rate. We describe a system with fixed tube/detector and with a rotating specimen. A large focal spot x-ray tube capable of producing high fluence rates with short exposure times was used. The geometry is optimized to match focal spot blur with detector pitch and the resolution limits imposed by the reproducibility of gating. Thus, it is possible to achieve isotropic spatial resolution of 100 {mu}m with a fluence rate at the detector 250 times that of a conventional cone beam micro-CT system with rotating detector and microfocal x-ray tube. Motion is minimized for any single projection with 10 ms exposures that are synchronized to both cardiac and breathing motion. System performance was validated in vivo by studies of the cardiopulmonary structures in C57BL/6 mice, demonstrating the value of motion integration with a bright x-ray source.

  7. Cochlear anatomy using micro computed tomography (μCT) imaging

    NASA Astrophysics Data System (ADS)

    Kim, Namkeun; Yoon, Yongjin; Steele, Charles; Puria, Sunil

    2008-02-01

    A novel micro computed tomography (μCT) image processing method was implemented to measure anatomical features of the gerbil and chinchilla cochleas, taking into account the bent modailosis axis. Measurements were made of the scala vestibule (SV) area, the scala tympani (SV) area, and the basilar membrane (BM) width using prepared cadaveric temporal bones. 3-D cochlear structures were obtained from the scanned images using a process described in this study. It was necessary to consider the sharp curvature of mododailosis axis near the basal region. The SV and ST areas were calculated from the μCT reconstructions and compared with existing data obtained by Magnetic Resonance Microscopy (MRM), showing both qualitative and quantitative agreement. In addition to this, the width of the BM, which is the distance between the primary and secondary osseous spiral laminae, is calculated for the two animals and compared with previous data from the MRM method. For the gerbil cochlea, which does not have much cartilage in the osseous spiral lamina, the μCT-based BM width measurements show good agreement with previous data. The chinchilla BM, which contains more cartilage in the osseous spiral lamina than the gerbil, shows a large difference in the BM widths between the μCT and MRM methods. The SV area, ST area, and BM width measurements from this study can be used in building an anatomically based mathematical cochlear model.

  8. Micro electro mechanical system optical switching

    DOEpatents

    Thorson, Kevin J; Stevens, Rick C; Kryzak, Charles J; Leininger, Brian S; Kornrumpf, William P; Forman, Glenn A; Iannotti, Joseph A; Spahn, Olga B; Cowan, William D; Dagel, Daryl J

    2013-12-17

    The present disclosure includes apparatus, system, and method embodiments that provide micro electo mechanical system optical switching and methods of manufacturing switches. For example, one optical switch embodiment includes at least one micro electro mechanical system type pivot mirror structure disposed along a path of an optical signal, the structure having a mirror and an actuator, and the mirror having a pivot axis along a first edge and having a second edge rotatable with respect to the pivot axis, the mirror being capable of and arranged to be actuated to pivot betweeen a position parallel to a plane of an optical signal and a position substantially normal to the plane of the optical signal.

  9. Full-field optical micro-angiography

    NASA Astrophysics Data System (ADS)

    Wang, Mingyi; Zeng, Yaguang; Liang, Xianjun; Lu, Xuanlong; Feng, Guanping; Han, Dingan; Yang, Guojian

    2014-02-01

    We present a detailed description of full-field optical micro-angiography on the basis of frequency-domain laser speckle imaging with intensity fluctuation modulation (LSI-IFM). The imaging approach works based on the instantaneous local intensity fluctuation realized via the combination of short exposure and low sampling rate of a camera and appropriate magnification of a microscope. In vivo experiments on mouse ear verify the theoretical description we made for the imaging mechanism and demonstrate the ability of LSI-IFM as optical micro-angiography. By introducing a fundus camera into LSI-IFM system, our approach has a potential application in label-free retina optical micro-angiography.

  10. Combined micro-PET/micro-CT imaging of lung tumours in SPC-raf and SPC-myc transgenic mice.

    PubMed

    Rodt, Thomas; Luepke, Matthias; Boehm, Claudia; Hueper, Katja; Halter, Roman; Glage, Silke; Hoy, Ludwig; Wacker, Frank; Borlak, Juergen; von Falck, Christian

    2012-01-01

    SPC-raf and SPC-myc transgenic mice develop disseminated and circumscribed lung adenocarcinoma respectively, allowing for assessment of carcinogenesis and treatment strategies. The purpose of this study was to investigate the technical feasibility, the correlation of initial findings to histology and the administered radiation dose of combined micro-PET/micro-CT in these animal models. 14 C57BL/6 mice (4 nontransgenic, 4 SPC-raf transgenic, 6 SPC-myc transgenic) were examined using micro-CT and (18)F-Fluoro-deoxyglucose micro-PET in-vivo. Micro-PET data was corrected for random events and scatter prior to reconstruction with a 3D-FORE/2D-OSEM iterative algorithm. Rigid micro-PET/micro-CT registration was performed. Tumour-to-non-tumour ratios were calculated for different lung regions and focal lesions. Diffuse tumour growth was quantified using a semiautomated micro-CT segmentation routine reported earlier. Regional histologic tumour load was assessed using a 4-point rating scale. Gamma radiation dose was determined using thermoluminescence dosimeters. Micro-CT allowed visualisation of diffuse and circumscribed tumours in SPC-raf and SPC-myc transgenic animals along with morphology, while micro-PET provided information on metabolism, but lacked morphologic detail. Mean tumour-to-non-tumour ratio was 2.47 for circumscribed lesions. No significant correlation could be shown between histological tumour load and tumour-to-nontumour ratio for diffuse tumours in SPC-raf transgenic animals. Calculation of the expected dose based on gamma dosimetry yielded approximately 140 mGy/micro-PET examination additional to approximately 200 mGy due to micro-CT. Combined micro-PET/micro-CT imaging allows for in-vivo assessment of lung tumours in SPC-raf and SPC-myc transgenic mice. The technique has potential for the evaluation of carcinogenesis and treatment strategies in circumscribed lung tumours.

  11. Fabrication of micro-optical devices

    NASA Technical Reports Server (NTRS)

    Anderson, W. W.; Marley, J.; Gal, George; Purdy, Don

    1993-01-01

    We have fabricated a variety of micro-optic components including Fresnel and non-Frensel lenses, off-axis and dispersive lenses with binary stepped contours, and analog contours. Process details for all lens designs fabricated are given including multistep photolithography for binary fabrication and grayscale mask photolithography for analog fabrication. Reactive ion etching and ion beam milling are described for the binary fabrication process, while ion beam milling was used for the analog fabrication process. Examples of micro-optic components fabricated in both Si and CdTe substrates are given.

  12. Nondestructive Evaluation of Composites Using Micro-Focused X-Ray CT Scanner

    NASA Astrophysics Data System (ADS)

    Sugimoto, Sunao; Aoki, Takuya; Iwahori, Yutaka; Ishikawa, Takashi

    2005-04-01

    Micro-Focused X-Ray CT (Micro CT) Scanner has been used for nondestructive evaluation (NDE) of composite materials at Institute of Space Technology and Aeronautics, Japan Aerospace Exploration Agency. Some successful examples of NDE of composites using Micro CT will be presented in this presentation. One example is debonding of fiber/matrix interface, splitting of fiber bundle and matrix crack in carbon/carbon composite. Another example is NDE of stitched CFRP. It was easy to evaluate state of stitch fiber. It has been demonstrated that Micro CT is a powerful device for detecting small damage/flaw in composites, such as delamination, matrix crack and void.

  13. Nondestructive Evaluation of Composites Using Micro-Focused X-Ray CT Scanner

    SciTech Connect

    Sugimoto, Sunao; Aoki, Takuya; Iwahori, Yutaka; Ishikawa, Takashi

    2005-04-09

    Micro-Focused X-Ray CT (Micro CT) Scanner has been used for nondestructive evaluation (NDE) of composite materials at Institute of Space Technology and Aeronautics, Japan Aerospace Exploration Agency. Some successful examples of NDE of composites using Micro CT will be presented in this presentation. One example is debonding of fiber/matrix interface, splitting of fiber bundle and matrix crack in carbon/carbon composite. Another example is NDE of stitched CFRP. It was easy to evaluate state of stitch fiber. It has been demonstrated that Micro CT is a powerful device for detecting small damage/flaw in composites, such as delamination, matrix crack and void.

  14. Characterisation of potato crisp effective porosity using micro-CT.

    PubMed

    Renshaw, Ryan C; Robinson, John P; Dimitrakis, Georgios A; Bows, John R; Kingman, Samuel W

    2016-10-01

    The effective porosity is an important quantitative parameter for food products that has a significant effect on taste and quality. It is challenging to quantify the apparent porosity of fried potato crisps as they have a thin irregularly shaped cross section containing oil and water. This study uses a novel micro-CT technique to determine the solid volume fraction and hence the effective porosity of three types of potato crisps: standard continuously fried crisps, microwaved crisps, and continuously fried 'kettle' crisps. It was found that continuously fried kettle crisps had the lowest effective porosity at 0.54, providing the desired crunchy taste and lower oil contents. Crisps produced using a microwave process designed to mimic the dehydration process of standard continuous fried crisps had an effective porosity of 0.65, which was very similar to the effective porosity of 0.63 for standard continuously fried crisps. The results were supported by the findings of a forced preference consumer test. The effective porosity affects the product taste and is therefore a critical parameter. This study shows that micro-CT analysis can be used to characterise the change in effective porosity of a thin irregularly shaped food product, caused by a change of cooking procedure. © 2016 Society of Chemical Industry. © 2016 Society of Chemical Industry.

  15. Trabecular scaffolds created using micro CT guided fused deposition modeling

    PubMed Central

    Tellis, B.C.; Szivek, J.A.; Bliss, C.L.; Margolis, D.S.; Vaidyanathan, R.K.; Calvert, P.

    2009-01-01

    Free form fabrication and high resolution imaging techniques enable the creation of biomimetic tissue engineering scaffolds. A 3D CAD model of canine trabecular bone was produced via micro CT and exported to a fused deposition modeler, to produce polybutylene terephthalate (PBT) trabeculated scaffolds and four other scaffold groups of varying pore structures. The five scaffold groups were divided into subgroups (n=6) and compression tested at two load rates (49 N/s and 294 N/s). Two groups were soaked in a 25 °C saline solution for 7 days before compression testing. Micro CT was used to compare porosity, connectivity density, and trabecular separation of each scaffold type to a canine trabecular bone sample. At 49 N/s the dry trabecular scaffolds had a compressive stiffness of 4.94±1.19 MPa, similar to the simple linear small pore scaffolds and significantly more stiff (p<0.05) than either of the complex interconnected pore scaffolds. At 294 N/s, the compressive stiffness values for all five groups roughly doubled. Soaking in saline had an insignificant effect on stiffness. The trabecular scaffolds matched bone samples in porosity; however, achieving physiologic connectivity density and trabecular separation will require further refining of scaffold processing. PMID:21461176

  16. Methods of in-vivo mouse lung micro-CT

    NASA Astrophysics Data System (ADS)

    Recheis, Wolfgang A.; Nixon, Earl; Thiesse, Jacqueline; McLennan, Geoffrey; Ross, Alan; Hoffman, Eric

    2005-04-01

    Micro-CT will have a profound influence on the accumulation of anatomical and physiological phenotypic changes in natural and transgenetic mouse models. Longitudinal studies will be greatly facilitated, allowing for a more complete and accurate description of events if in-vivo studies are accomplished. The purpose of the ongoing project is to establish a feasible and reproducible setup for in-vivo mouse lung micro-computed tomography (μCT). We seek to use in-vivo respiratory-gated μCT to follow mouse models of lung disease with subsequent recovery of the mouse. Methodologies for optimizing scanning parameters and gating for the in-vivo mouse lung are presented. A Scireq flexiVent ventilated the gas-anesthetized mice at 60 breaths/minute, 30 cm H20 PEEP, 30 ml/kg tidal volume and provided a respiratory signal to gate a Skyscan 1076 μCT. Physiologic monitoring allowed the control of vital functions and quality of anesthesia, e.g. via ECG monitoring. In contrary to longer exposure times with ex-vivo scans, scan times for in-vivo were reduced using 35μm pixel size, 158ms exposure time and 18μm pixel size, 316ms exposure time to reduce motion artifacts. Gating via spontaneous breathing was also tested. Optimal contrast resolution was achieved at 50kVp, 200μA, applying an aluminum filter (0.5mm). There were minimal non-cardiac related motion artifacts. Both 35μm and 1μm voxel size images were suitable for evaluation of the airway lumen and parenchymal density. Total scan times were 30 and 65 minutes respectively. The mice recovered following scanning protocols. In-vivo lung scanning with recovery of the mouse delivered reasonable image quality for longitudinal studies, e.g. mouse asthma models. After examining 10 mice, we conclude μCT is a feasible tool evaluating mouse models of lung pathology in longitudinal studies with increasing anatomic detail available for evaluation as one moves from in-vivo to ex-vivo studies. Further developments include automated

  17. Lung imaging in rodents using dual energy micro-CT

    NASA Astrophysics Data System (ADS)

    Badea, C. T.; Guo, X.; Clark, D.; Johnston, S. M.; Marshall, C.; Piantadosi, C.

    2012-03-01

    Dual energy CT imaging is expected to play a major role in the diagnostic arena as it provides material decomposition on an elemental basis. The purpose of this work is to investigate the use of dual energy micro-CT for the estimation of vascular, tissue, and air fractions in rodent lungs using a post-reconstruction three-material decomposition method. We have tested our method using both simulations and experimental work. Using simulations, we have estimated the accuracy limits of the decomposition for realistic micro-CT noise levels. Next, we performed experiments involving ex vivo lung imaging in which intact lungs were carefully removed from the thorax, were injected with an iodine-based contrast agent and inflated with air at different volume levels. Finally, we performed in vivo imaging studies in (n=5) C57BL/6 mice using fast prospective respiratory gating in endinspiration and end-expiration for three different levels of positive end-expiratory pressure (PEEP). Prior to imaging, mice were injected with a liposomal blood pool contrast agent. The mean accuracy values were for Air (95.5%), Blood (96%), and Tissue (92.4%). The absolute accuracy in determining all fraction materials was 94.6%. The minimum difference that we could detect in material fractions was 15%. As expected, an increase in PEEP levels for the living mouse resulted in statistically significant increases in air fractions at end-expiration, but no significant changes in end-inspiration. Our method has applicability in preclinical pulmonary studies where various physiological changes can occur as a result of genetic changes, lung disease, or drug effects.

  18. In-line phase contrast micro-CT reconstruction for biomedical specimens.

    PubMed

    Fu, Jian; Tan, Renbo

    2014-01-01

    X-ray phase contrast micro computed tomography (micro-CT) can non-destructively provide the internal structure information of soft tissues and low atomic number materials. It has become an invaluable analysis tool for biomedical specimens. Here an in-line phase contrast micro-CT reconstruction technique is reported, which consists of a projection extraction method and the conventional filter back-projection (FBP) reconstruction algorithm. The projection extraction is implemented by applying the Fourier transform to the forward projections of in-line phase contrast micro-CT. This work comprises a numerical study of the method and its experimental verification using a biomedical specimen dataset measured at an X-ray tube source micro-CT setup. The numerical and experimental results demonstrate that the presented technique can improve the imaging contrast of biomedical specimens. It will be of interest for a wide range of in-line phase contrast micro-CT applications in medicine and biology.

  19. Comparison of micro-CT and cone beam CT on the feasibility of assessing trabecular structures in mandibular condyle.

    PubMed

    Liang, Xin; Zhang, Zuyan; Gu, Jianping; Wang, Zhihui; Vandenberghe, Bart; Jacobs, Reinhilde; Yang, Jie; Ma, Guowu; Ling, Haibin; Ma, Xuchen

    2017-07-01

    To evaluate the accuracy of CBCT in assessing trabecular structures. Two human mandibles were scanned by micro-CT (Skyscan 1173 high-energy spiral scan micro-CT; Skyscan NV, Kontich, Belgium) and CBCT (3D Accuitomo 170; Morita, Japan). The CBCT images were reconstructed with 0.5 and 1 mm thicknesses. The condylar images were selected for registration. A parallel algorithm for histogram computation was introduced to perform the registration. A mutual information (MI) value was used to evaluate the match between the images obtained from micro-CT and CBCT. In comparison with the micro-CT image for the two samples, the CBCT image with 0.5 mm thickness has a MI value of 0.873 and 0.903 while that with 1.0 mm thickness has a MI value of 0.741 and 0.752. The CBCT images with 0.5 mm thickness were better matched with micro-CT images. CBCT shows comparable accuracy with high-resolution micro-CT in assessing trabecular structures. CBCT can be a feasible tool to evaluate osseous changes of jaw bones.

  20. Micro-optics for imaging.

    SciTech Connect

    Boye, Robert R.

    2010-09-01

    This project investigates the fundamental imaging capability of an optic with a physical thickness substantially less than 1 mm. The analysis assumes that post-processing can overcome certain restrictions such as detector pixel size and image degradation due to aberrations. A first order optical analysis quickly reveals the limitations of even an ideal thin lens to provide sufficient image resolution and provides the justification for pursuing an annular design. Some straightforward examples clearly show the potential of this approach. The tradeoffs associated with annular designs, specifically field of view limitations and reduced mid-level spatial frequencies, are discussed and their impact on the imaging performance evaluated using several imaging examples. Additionally, issues such as detector acceptance angle and the need to balance aberrations with resolution are included in the analysis. With these restrictions, the final results present an excellent approximation of the expected performance of the lens designs presented.

  1. Micro-optical artificial compound eyes.

    PubMed

    Duparré, J W; Wippermann, F C

    2006-03-01

    Natural compound eyes combine small eye volumes with a large field of view at the cost of comparatively low spatial resolution. For small invertebrates such as flies or moths, compound eyes are the perfectly adapted solution to obtaining sufficient visual information about their environment without overloading their brains with the necessary image processing. However, to date little effort has been made to adopt this principle in optics. Classical imaging always had its archetype in natural single aperture eyes which, for example, human vision is based on. But a high-resolution image is not always required. Often the focus is on very compact, robust and cheap vision systems. The main question is consequently: what is the better approach for extremely miniaturized imaging systems-just scaling of classical lens designs or being inspired by alternative imaging principles evolved by nature in the case of small insects? In this paper, it is shown that such optical systems can be achieved using state-of-the-art micro-optics technology. This enables the generation of highly precise and uniform microlens arrays and their accurate alignment to the subsequent optics-, spacing- and optoelectronics structures. The results are thin, simple and monolithic imaging devices with a high accuracy of photolithography. Two different artificial compound eye concepts for compact vision systems have been investigated in detail: the artificial apposition compound eye and the cluster eye. Novel optical design methods and characterization tools were developed to allow the layout and experimental testing of the planar micro-optical imaging systems, which were fabricated for the first time by micro-optics technology. The artificial apposition compound eye can be considered as a simple imaging optical sensor while the cluster eye is capable of becoming a valid alternative to classical bulk objectives but is much more complex than the first system.

  2. First X-ray Fluorescence MicroCT Results from Micrometeorites at SSRL

    SciTech Connect

    Ignatyev, K; Huwig, K; Harvey, R; Ishii, H; Bradley, J; Luening, K; Brennan, S; Pianetta, P

    2006-08-23

    X-ray fluorescence microCT (computed tomography) is a novel technique that allows non-destructive determination of the 3D distribution of chemical elements inside a sample. This is especially important in samples for which sectioning is undesirable either due to the risk of contamination or the requirement for further analysis by different characterization techniques. Developments made by third generation synchrotron facilities and laboratory X-ray focusing systems have made these kinds of measurements more attractive by significantly reducing scan times and beam size. First results from the x-ray fluorescence microCT experiments performed at SSRL beamline 6-2 are reported here. Beamline 6-2 is a 54 pole wiggler that uses a two mirror optical system for focusing the x-rays onto a virtual source slit which is then reimaged with a set of KB mirrors to a (2 x 4) {micro}{sup 2} beam spot. An energy dispersive fluorescence detector is located in plane at 90 degrees to the incident beam to reduce the scattering contribution. A PIN diode located behind the sample simultaneously measures the x-ray attenuation in the sample. Several porous micrometeorite samples were measured and the reconstructed element density distribution including self-absorption correction is presented. Ultimately, this system will be used to analyze particles from the coma of comet Wild-2 and fresh interstellar dust particles both of which were collected during the NASA Stardust mission.

  3. Micro-CT Technique Is Well Suited for Documentation of Remodeling Processes in Murine Carotid Arteries

    PubMed Central

    Schürmann, Christoph; Gremse, Felix; Jo, Hanjoong; Kiessling, Fabian; Brandes, Ralf P.

    2015-01-01

    Background The pathomechanisms of atherosclerosis and vascular remodelling are under intense research. Only a few in vivo tools to study these processes longitudinally in animal experiments are available. Here, we evaluated the potential of micro-CT technology. Methods Lumen areas of the common carotid arteries (CCA) in the ApoE-/- partial carotid artery ligation mouse model were compared between in vivo and ex vivo micro-CT technique and serial histology in a total of 28 animals. AuroVist-15 nm nanoparticles were used as in vivo blood pool contrast agent in a Skyscan 1176 micro-CT at resolution of 18 μmeter voxel size and a mean x-ray dose of 0.5 Gy. For ex vivo imaging, animals were perfused with MicroFil and imaged at 9 μmeter voxel size. Lumen area was evaluated at postoperative days 7, 14, and 28 first by micro-CT followed by histology. Results In vivo micro-CT and histology revealed lumen loss starting at day 14. The lumen profile highly correlated (r = 0.79, P<0.0001) between this two methods but absolute lumen values obtained by histology were lower than those obtained by micro-CT. Comparison of in vivo and ex vivo micro-CT imaging revealed excellent correlation (r = 0.83, P<0.01). Post mortem micro-CT yielded a higher resolution than in vivo micro-CT but there was no statistical difference of lumen measurements in the partial carotid artery ligation model. Conclusion These data demonstrate that in vivo micro-CT is a feasible and accurate technique with low animal stress to image remodeling processes in the murine carotid artery. PMID:26086218

  4. Validity of MicroCT for in vitro detection of proximal carious lesions in primary molars.

    PubMed

    Soviero, V M; Leal, S C; Silva, R C; Azevedo, R B

    2012-01-01

    This study aimed to validate the MicroCT for detection of proximal carious lesions in primary molars, using histology as the gold standard. Forty-eight proximal surfaces of primary molars were examined. Two calibrated examiners conducted the examinations independently. Proximal surfaces were visually scored, using ICDAS. Bitewing radiographs, Micro-CT and histological analyses used caries scores: 0=sound; 1=outer enamel; 2=inner enamel; 3=not spread dentine; 4=outer dentine; 5=inner dentine. Axial and sagital images were used for Micro-CT analysis, whilst for histology, tooth sections (400μm) were analyzed stereomicroscopically (×15). Inter-examiner agreement ranged from 0.87 to 0.93 kappa coefficient (k). Histological analysis revealed a frequency of sound tooth surfaces (18.8%) enamel carious lesions (E1) (48%) and dentine carious lesions (D1) (33.3%). MicroCT showed high correlation with histology (r(s)0.88). At both diagnostic thresholds (E1 and D1), sensitivity and accuracy were higher for MicroCT. Inter-device agreement between MicroCT and histology was k=0.81. No difference was found between MicroCT and histology as gold standards for detecting carious lesions using ICDAS. MicroCT can be used as a gold standard for detecting carious lesions in proximal surfaces in primary molars. Copyright © 2011 Elsevier Ltd. All rights reserved.

  5. Computerized methodology for micro-CT and histological data inflation using an IVUS based translation map.

    PubMed

    Athanasiou, Lambros S; Rigas, George A; Sakellarios, Antonis I; Exarchos, Themis P; Siogkas, Panagiotis K; Naka, Katerina K; Panetta, Daniele; Pelosi, Gualtiero; Vozzi, Federico; Michalis, Lampros K; Parodi, Oberdan; Fotiadis, Dimitrios I

    2015-10-01

    A framework for the inflation of micro-CT and histology data using intravascular ultrasound (IVUS) images, is presented. The proposed methodology consists of three steps. In the first step the micro-CT/histological images are manually co-registered with IVUS by experts using fiducial points as landmarks. In the second step the lumen of both the micro-CT/histological images and IVUS images are automatically segmented. Finally, in the third step the micro-CT/histological images are inflated by applying a transformation method on each image. The transformation method is based on the IVUS and micro-CT/histological contour difference. In order to validate the proposed image inflation methodology, plaque areas in the inflated micro-CT and histological images are compared with the ones in the IVUS images. The proposed methodology for inflating micro-CT/histological images increases the sensitivity of plaque area matching between the inflated and the IVUS images (7% and 22% in histological and micro-CT images, respectively). Copyright © 2015 Elsevier Ltd. All rights reserved.

  6. Miniaturized micro-optical scanners

    NASA Astrophysics Data System (ADS)

    Motamedi, M. Edward; Andrews, Angus P.; Gunning, William J.; Khoshnevisan, Moshen

    1994-11-01

    Optical beam scanners are critical components for airborne and space-based laser radar, on- machine-inspection systems, factory automation systems, and optical communication systems. We describe here a laser beam steering system based on dithering two complementary (positive and negative) microlens arrays. When the two microlens arrays are translated relative to one another in the plane parallel to their surfaces, the transmitted light beam is scanned in two directions. We have demonstrated scanning speeds up to 300 Hz with a pair of 6-mm- aperture microlens arrays designed for input from a HeNe laser. The output beam covers a discrete 16 X 16 spot scan pattern with about 3.6 mrad separation and only 400 (mu) rad of beam divergence, in close agreement with design predictions. This demo system is relatively compact; less than 2 in. on a side. We also describe several near-term applications, some critical design trade-offs, and important fabrication and design issues.

  7. NOTE: Estimating perfusion using microCT to locate microspheres

    NASA Astrophysics Data System (ADS)

    Marxen, M.; Paget, C.; Yu, L. X.; Henkelman, R. M.

    2006-01-01

    The injection of microspheres into the blood stream has been a common method to measure the spatial distribution of blood flow (perfusion). A technique to conduct this kind of measurement in small animal organs is presented using silver-coated microspheres with a diameter of 16 µm and high-resolution computed tomography (microCT) to detect individual microspheres. Phantom experiments demonstrate the detectability of individual spheres. The distribution of microspheres within a rat heart is given as an example. Using non-destructive, three-dimensional imaging for microsphere detection avoids the cumbersome dissection of the organ into samples or slices and their subsequent registration. The detection of individual spheres allows high-resolution measurements of perfusion and arbitrary definition of regions of interest. These, in turn, allow for accurate statistical analysis of perfusion such as relative dispersion curves.

  8. Cryostatic micro-CT imaging of transient processes

    NASA Astrophysics Data System (ADS)

    Jorgensen, Steven M.; Blank, Basil; Ritman, Erik L.

    2002-01-01

    A double walled copper vessel, 32 cc in volume, was fabricated for micro-CT scanning tissue specimens maintained at cryogenic temperature. The space between the two nested vessels was evacuated and in two opposing sides of the vessel the copper has been replaced by beryllium foil. Nitrogen gas, boiling off liquid nitrogen, is injected continuously into the top of the chamber during the scanning process. Just prior to venting from the vessel the gas is heated and directed through a narrow gap over the outside of the beryllium windows so as to maintain the beryllium windows frost free. A temperature detector within the chamber is used to control the rate of inflow of the nitrogen gas. The frozen specimen is attached to a small horizontal platform on top of a vertical stainless steel pin which exits the base of the vessel through a closely fitting hole and is attached to the computer-controlled rotating stage under the vessel. The vessel and rotation-stage assembly is mounted on a computer-controlled horizontal translation stage which can move the specimen out of the x- ray beam, from time to time, for x-ray beam calibration purposes. The purpose of this arrangement is to permit scanning of specimens that: 1) either cannot be fixed (e.g., with formalin) because of biomolecular analyses which are incompatible with prior fixation, or 2) are snap-frozen during a transient process, such as the accumulation and/or washout of radiopaque indicators distributed in microvascular or extravascular compartments, which lasts only seconds and hence is too fast for normal micro-CT methods to capture.

  9. Micro-CTvlab: A web based virtual gallery of biological specimens using X-ray microtomography (micro-CT)

    PubMed Central

    Faulwetter, Sarah; Chatzinikolaou, Eva; Michalakis, Nikitas; Filiopoulou, Irene; Minadakis, Nikos; Panteri, Emmanouela; Perantinos, George; Gougousis, Alexandros; Arvanitidis, Christos

    2016-01-01

    Abstract Background During recent years, X-ray microtomography (micro-CT) has seen an increasing use in biological research areas, such as functional morphology, taxonomy, evolutionary biology and developmental research. Micro-CT is a technology which uses X-rays to create sub-micron resolution images of external and internal features of specimens. These images can then be rendered in a three-dimensional space and used for qualitative and quantitative 3D analyses. However, the online exploration and dissemination of micro-CT datasets are rarely made available to the public due to their large size and a lack of dedicated online platforms for the interactive manipulation of 3D data. Here, the development of a virtual micro-CT laboratory (Micro-CTvlab) is described, which can be used by everyone who is interested in digitisation methods and biological collections and aims at making the micro-CT data exploration of natural history specimens freely available over the internet. New information The Micro-CTvlab offers to the user virtual image galleries of various taxa which can be displayed and downloaded through a web application. With a few clicks, accurate, detailed and three-dimensional models of species can be studied and virtually dissected without destroying the actual specimen. The data and functions of the Micro-CTvlab can be accessed either on a normal computer or through a dedicated version for mobile devices. PMID:27956848

  10. Micro-CTvlab: A web based virtual gallery of biological specimens using X-ray microtomography (micro-CT).

    PubMed

    Keklikoglou, Kleoniki; Faulwetter, Sarah; Chatzinikolaou, Eva; Michalakis, Nikitas; Filiopoulou, Irene; Minadakis, Nikos; Panteri, Emmanouela; Perantinos, George; Gougousis, Alexandros; Arvanitidis, Christos

    2016-01-01

    During recent years, X-ray microtomography (micro-CT) has seen an increasing use in biological research areas, such as functional morphology, taxonomy, evolutionary biology and developmental research. Micro-CT is a technology which uses X-rays to create sub-micron resolution images of external and internal features of specimens. These images can then be rendered in a three-dimensional space and used for qualitative and quantitative 3D analyses. However, the online exploration and dissemination of micro-CT datasets are rarely made available to the public due to their large size and a lack of dedicated online platforms for the interactive manipulation of 3D data. Here, the development of a virtual micro-CT laboratory (Micro-CTvlab) is described, which can be used by everyone who is interested in digitisation methods and biological collections and aims at making the micro-CT data exploration of natural history specimens freely available over the internet. The Micro-CTvlab offers to the user virtual image galleries of various taxa which can be displayed and downloaded through a web application. With a few clicks, accurate, detailed and three-dimensional models of species can be studied and virtually dissected without destroying the actual specimen. The data and functions of the Micro-CTvlab can be accessed either on a normal computer or through a dedicated version for mobile devices.

  11. MicroCT vs. Hg porosimetry: microporosity in commercial stones

    NASA Astrophysics Data System (ADS)

    Fusi, N.; Martinez-Martinez, J.; Barberini, V.; Galimberti, L.

    2009-04-01

    have been cut and scanned by means of a X ray microCT system before and after mercury saturation with Hg porosimeter. The microCT system used is a BIR Actis 130/150 with nominal resolution of 5 micron; for our samples resolution is of 25 microns. Generator and detector are fixed, while the sample rotates; the scanning plane is horizontal. Samples reduce the X rays energy passing through, as a function of its density and atomic number. X rays are then collected on a detector, which converts them into light radiations; a digital camera collects light radiations in raw data and send them to the computer, where they are processed as black/white images. The Hg porosimeter used is a Pascal 140/240 Thermo Fisher. Samples were first degassed and then intruded by Hg. Apparent density, bulk density, porosity and open pore size distribution (pore diameter between 3.7 and 58000 nm) of each sample have been computed using the PASCAL (Pressurization with Automatic Speed-up by Continuous Adjustametnt Logic) method and the Washburn equation; this equation assumes: cylindrical pores, a contact angle between mercury and sample of 140°, a surface tension of mercury vacuum of 0,480 N/m and mercury density equal to 13.5 g/cm³. MicroCT images and porosity data from Hg porosimeter have been compared by several authors both for rocks (Klobes et alii, 1997) and for artificial materials with medical applications (Lin-Gibson et alii, 2007) In samples with no density/composition differences microCT images are homogeneous and gives no information on the internal structure of the sample. This is the case of massive samples (such as BA, BT, GM and TB) and of samples without any significant density differences between clasts and matrix (A and BS) or rock and veins (RC). MicroCT images of the same sample after mercury saturation offer a detailed map of microporosity of the rock, due to the high density contrast between mercury (13.6 g/cm3) and the rock (2.71 g/cm3 for calcite and 2.86 g/cm3 for

  12. A combined micro-PET/CT scanner for small animal imaging

    NASA Astrophysics Data System (ADS)

    Jan, Meei-Ling; Ni, Yu-Ching; Chen, Kuo-Wei; Liang, Hsing-Ching; Chuang, Keh-Shih; Fu, Ying-Kai

    2006-12-01

    A micro-PET/CT system was developed by combination of an in-house micro-CT and a microPET ® R4 scanner. The cone-beam micro-CT consists of a rotational gantry that fits an X-ray tube, a CCD-based X-ray detector, and motor-driven linear stages. The gantry was designed to be coaxial with the scanner of microPET ® R4. It can be moved for the convenience of mounting the Ge-68 point-source holder for PET's calibration. The image volumes obtained from two modalities is registered by a pre-determined, inherent spatial transformation function. This hardware-approach fusion, which provides accurate and no labor-intensive alignment, is suitable for mass scanning. The micro-PET/CT system has been operated successfully. Merging the anatomical and functional images benefit studies of the small animal imaging.

  13. Micro structured glass optics - basics and benefits

    NASA Astrophysics Data System (ADS)

    Geyer, Ulf; Paßlick, Christian; Heßling, Thomas; Hellwig, Ansgar; Hübner, Marc C.

    2016-09-01

    Today's trends in illumination engineering clearly turn towards high power LED applications with a precisely controlled light output. The first requires glass optics which will withstand the increasing temperature load and lumen output of LEDs. The second requires tight control of production tolerances and defined surface structuring. Especially the surface structure - which can be realized for example as micro lens arrays - is of increasing importance. Using two different fabrication techniques we investigated the implementation of micro surface textures on glass optics. The first method uses directly molded glass from the liquid phase while the second is an imprint process. For both methods we determined the minimum replicable feature size and found current limits of only 50 μm for the imprint process.

  14. Optical forces near micro-fabricated devices

    NASA Astrophysics Data System (ADS)

    Mejia Prada, Camilo Andres

    In this dissertation, I study optical forces near micro-fabricated devices for multi- particle manipulation. I consider particles of different sizes and compositions. In particular, I focus my study on both dielectric and gold particles as well as Giant Unilamellar Vesicles. First, I consider optical forces near a PhC and establish the feasibility of a technique which we term Light-Assisted Templated Self-assembly (LATS). In contrast to previous work on Fabry-Perot enhancement of trapping forces above a flat substrate, I exploit the guided resonance modes of a PhC to provide resonant enhancement of optical forces. Then, I explore optical forces near a Dual Beam Optical Trap (DBOT). I present a method to extract the bending modulus of the membrane from the area strain data. This method incorporates three-dimensional ray-tracing to calculate the applied stress in the DBOT within the ray optics approximation. I compare the optical force calculated using the ray optics approximation and Maxwell Stress Tensor method to ensure the approximation's accuracy. Next, we apply this method to 3 populations of GUVs to extract the bending modulus of membranes comprised of saturated and monounsaturated lipids in both gel and liquid phases.

  15. Integrated Micro-Optics for Microfluidic Detection.

    PubMed

    Kazama, Yuto; Hibara, Akihide

    2016-01-01

    A method of embedding micro-optics into a microfluidic device was proposed and demonstrated. First, the usefulness of embedded right-angle prisms was demonstrated in microscope observation. Lateral-view microscopic observation of an aqueous dye flow in a 100-μm-sized microchannel was demonstrated. Then, the embedded right-angle prisms were utilized for multi-beam laser spectroscopy. Here, crossed-beam thermal lens detection of a liquid sample was applied to glucose detection.

  16. Micro-CT artifacts reduction based on detector random shifting and fast data inpainting.

    PubMed

    Zhu, Yining; Zhao, Mengliu; Li, Hongwei; Zhang, Peng

    2013-03-01

    In Micro-CT systems based on optical coupling detectors, the defects of scintillator or CCD-camera would lead to heavy artifacts in reconstructed CT images. Meanwhile, different detector units usually suffer from inhomogeneous response, which also leads to artifacts in the CT images. Detector shifting is a simple and efficient method to remove the artifacts due to inhomogeneous responses of detector units. However, it does not work well for heavy artifacts due to defects in scintillator or CCD. The purpose of this paper is to develop a data preprocessing method to reduce both kinds of artifacts. A hybrid method which involves detector random shifting and data inpainting is proposed to correct the projection data, so as to suppress the artifacts in the reconstructed CT images. The defects in scintillator or CCD-camera lead to data lost in some areas of the projection data. The Criminisi algorithm is employed to recover the lost data. By detector random shifting, the location of the lost data in one view might be shifted away in adjacent views. This feature is utilized to design the search window, such that the best match patch shall be searched across adjacent views. By this way, the best match patches should really enjoy high similarity. As a result, the heavy artifacts due to defects of scintillator or CCD-camera should be suppressed. Furthermore, a multiscale tessellation method is proposed to locate the defects and similarity patches, which makes the Criminisi algorithm very fast. The authors tested the proposed method on both simulated projection data and real projection data. Experiments show that the proposed method could correct the bad data in the projections quite well. Compared to other popular methods, such as linear interpolation, wavelet combining Fourier transform, and TV-inpainting, experimental results suggest that the CT images reconstructed from the preprocessed data sets by our method is significantly better in quality. They have proposed a

  17. Optically controlled hydrodynamic micro-manipulation

    NASA Astrophysics Data System (ADS)

    Phillips, David B.; Debono, Luke; Simpson, Stephen H.; Padgett, Miles J.

    2015-08-01

    The ability to precisely manipulate micro- and nano-scale objects has been a major driver in the progression of nanotechnologies. In this proceedings we describe a form of micro-manipulation in which the position of a target object can be controlled via locally generated fluid flow, created by the motion of nearby optically trapped objects. The ability to do this relies on a simple principle: when an object is moved through a fluid, it displaces the surrounding fluid in a predictable manner, resulting in controllable hydrodynamic forces exerted on adjacent objects. Therefore, by moving optically trapped actuators using feedback in response to a target object's current position, the flow-field at the target can be dynamically controlled. Here we investigate the performance of such a system using stochastic Brownian dynamics simulations, which are based on numerical integration of the Langevin equation describing the evolution of the system, using the Rotne-Praga approximation to capture hydrodynamic interactions. We show that optically controlled hydrodynamic micro-manipulation has the potential to hold target objects in place, move them along prescribed trajectories, and damp their Brownian motion, using the indirect forces of the surrounding water alone.

  18. Multimodal imaging of the human temporal bone: A comparison of CT and optical scanning techniques

    NASA Astrophysics Data System (ADS)

    Voie, Arne H.; Whiting, Bruce; Skinner, Margaret; Neely, J. Gail; Lee, Kenneth; Holden, Tim; Brunsden, Barry

    2003-10-01

    A collaborative effort between Washington University in St. Louis and Spencer Technologies in Seattle, WA has been undertaken to create a multimodal 3D reconstruction of the human cochlea and vestibular system. The goal of this project is to improve the accuracy of in vivo CT reconstructions of implanted cochleae, and to expand the knowledge of high-resolution anatomical detail provided by orthogonal-plane optical sectioning (OPFOS). At WUSL, computed tomography (CT) images of the cochlea are used to determine the position of cochlear implant electrodes relative to target auditory neurons. The cochlear implant position is determined using pre- and post-operative CT scans. The CT volumes are cross-registered to align the semicircular canals and internal auditory canal, which have a unique configuration in 3-D space. The head of a human body donor was scanned with a clinical CT device, after which the temporal bones were removed, fixed in formalin and trimmed prior to scanning with a laboratory Micro CT scanner. Following CT, the temporal bones were sent to the OPFOS Imaging Lab at Spencer Technologies for a further analysis. 3-D reconstructions of CT and OPFOS imaging modalities were compared, and results are presented. [Work supported by NIDCD Grants R44-03623-5 and R01-00581-13.

  19. Coronary artery wall imaging in mice using osmium tetroxide and micro-computed tomography (micro-CT)

    SciTech Connect

    Pai, Vinay M.; Kozlowski, Megan; Donahue, Danielle; Miller, Elishiah; Xiao, Xianghui; Chen, Marcus Y.; Yu, Zu-Xi; Connelly, Patricia; Jeffries, Kenneth; Wen, Han

    2012-05-10

    The high spatial resolution of micro-computed tomography (micro-CT) is ideal for 3D imaging of coronary arteries in intact mouse heart specimens. Previously, micro-CT of mouse heart specimens utilized intravascular contrast agents that hardened within the vessel lumen and allowed a vascular cast to be made. However, for mouse coronary artery disease models, it is highly desirable to image coronary artery walls and highlight plaques. For this purpose, we describe an ex vivo contrast-enhanced micro-CT imaging technique based on tissue staining with osmium tetroxide (OsO{sub 4}) solution. As a tissue-staining contrast agent, OsO{sub 4} is retained in the vessel wall and surrounding tissue during the fixation process and cleared from the vessel lumens. Its high X-ray attenuation makes the artery wall visible in CT. Additionally, since OsO{sub 4} preferentially binds to lipids, it highlights lipid deposition in the artery wall. We performed micro-CT of heart specimens of 5- to 25-week-old C57BL/6 wild-type mice and 5- to 13-week-old apolipoprotein E knockout (apoE{sup -/-}) mice at 10 {mu}m resolution. The results show that walls of coronary arteries as small as 45 {mu}m in diameter are visible using a table-top micro-CT scanner. Similar image clarity was achieved with 1/2000th the scan time using a synchrotron CT scanner. In 13-week-old apoE mice, lipid-rich plaques are visible in the aorta. Our study shows that the combination of OsO{sub 4} and micro-CT permits the visualization of the coronary artery wall in intact mouse hearts.

  20. MicroCT Analysis of Micro-Nano Titanium Implant Surface on the Osseointegration.

    PubMed

    Ban, Jaesam; Kang, Seongsoo; Kim, Jihyun; Lee, Kwangmin; Hyunpil, Lim; Vang, Mongsook; Yang, Hongso; Oh, Gyejeong; Kim, Hyunseung; Hwang, Gabwoon; Jung, Yongho; Lee, Kyungku; Park, Sangwon; Yunl, Kwidug

    2015-01-01

    This study was to investigate the effects of micro-nano titanium implant surface on the osseointegration. A total of 36 screw-shaped implants were used. The implant surfaces were classified into 3 groups (n = 12): machined surface (M group), nanosurface which is nanotube formation on the machined surface (MA group) and nano-micro surface which is nanotube formation on the RBM surface (RA group). Anodic oxidation was performed at a 20 V for 10 min with 1 M H3PO4 and 1.5 wt% HF solutions. The implants were installed on the humerus on 6 beagles. After 4 and 12 weeks, the morphometric analysis with micro CT (skyscan 1172, SKYSCAN, Antwerpen, Belgium) was done. The data were statistically analyzed with two-way ANOVA. Bone mineral density and bone volume were significantly increased depending on time. RA group showed the highest bone mineral density and bone volume at 4 weeks and 12 weeks significantly. It indicated that nano-micro titanium implant surface showed faster and more mature osseointegration.

  1. Micro-CT scouting for transmission electron microscopy of human tissue specimens

    DOE PAGES

    Morales, A. G.; Stempinski, E. S.; XIAO, X.; ...

    2016-02-08

    Transmission electron microscopy (TEM) provides sub-nanometre-scale details in volumetric samples. Samples such as pathology tissue specimens are often stained with a metal element to enhance contrast, which makes them opaque to optical microscopes. As a result, it can be a lengthy procedure to find the region of interest inside a sample through sectioning. Here, we describe micro-CT scouting for TEM that allows noninvasive identification of regions of interest within a block sample to guide the sectioning step. In a tissue pathology study, a bench-top micro-CT scanner with 10 m resolution was used to determine the location of patches of themore » mucous membrane in osmium-stained human nasal scraping samples. Furthermore, once the regions of interest were located, the sample block was sectioned to expose that location, followed by ultra-thin sectioning and TEM to inspect the internal structure of the cilia of the membrane epithelial cells with nanometre resolution. This method substantially reduced the time and labour of the search process from typically 20 sections for light microscopy to three sections with no added sample preparation. Lay description Electron microscopy provides very high levels of detail in a small area, and thus the question of where to look in an opaque sample, such as a stained tissue specimen, needs to be answered by sectioning the sample in small steps and examining the sections under a light microscope, until the region of interest is found. The search process can be lengthy and labor intensive, especially for a study involving a large number of samples. Small areas of interest can be missed in the process if not enough regions are examined. We also describe a method to directly locate the region of interest within a whole sample using micro-CT imaging, bypassing the need of blindly sectioning. Micro-CT enables locating the region within 3D space; this information provides a guide for sectioning the sample to expose that precise

  2. Micro-CT scouting for transmission electron microscopy of human tissue specimens

    SciTech Connect

    Morales, A. G.; Stempinski, E. S.; XIAO, X.; Patel, A.; Panna, A.; Oliver, K. N.; McShane, P. J.; Robinson, C.; George, A. J.; Donahue, D. R.; Chen, P.; Wen, H.

    2016-02-08

    Transmission electron microscopy (TEM) provides sub-nanometre-scale details in volumetric samples. Samples such as pathology tissue specimens are often stained with a metal element to enhance contrast, which makes them opaque to optical microscopes. As a result, it can be a lengthy procedure to find the region of interest inside a sample through sectioning. Here, we describe micro-CT scouting for TEM that allows noninvasive identification of regions of interest within a block sample to guide the sectioning step. In a tissue pathology study, a bench-top micro-CT scanner with 10 m resolution was used to determine the location of patches of the mucous membrane in osmium-stained human nasal scraping samples. Furthermore, once the regions of interest were located, the sample block was sectioned to expose that location, followed by ultra-thin sectioning and TEM to inspect the internal structure of the cilia of the membrane epithelial cells with nanometre resolution. This method substantially reduced the time and labour of the search process from typically 20 sections for light microscopy to three sections with no added sample preparation. Lay description Electron microscopy provides very high levels of detail in a small area, and thus the question of where to look in an opaque sample, such as a stained tissue specimen, needs to be answered by sectioning the sample in small steps and examining the sections under a light microscope, until the region of interest is found. The search process can be lengthy and labor intensive, especially for a study involving a large number of samples. Small areas of interest can be missed in the process if not enough regions are examined. We also describe a method to directly locate the region of interest within a whole sample using micro-CT imaging, bypassing the need of blindly sectioning. Micro-CT enables locating the region within 3D space; this information provides a guide for sectioning the sample to expose that precise location for

  3. Temporal and spectral imaging with micro-CT

    SciTech Connect

    Johnston, Samuel M.; Johnson, G. Allan; Badea, Cristian T.

    2012-08-15

    Purpose: Micro-CT is widely used for small animal imaging in preclinical studies of cardiopulmonary disease, but further development is needed to improve spatial resolution, temporal resolution, and material contrast. We present a technique for visualizing the changing distribution of iodine in the cardiac cycle with dual source micro-CT. Methods: The approach entails a retrospectively gated dual energy scan with optimized filters and voltages, and a series of computational operations to reconstruct the data. Projection interpolation and five-dimensional bilateral filtration (three spatial dimensions + time + energy) are used to reduce noise and artifacts associated with retrospective gating. We reconstruct separate volumes corresponding to different cardiac phases and apply a linear transformation to decompose these volumes into components representing concentrations of water and iodine. Since the resulting material images are still compromised by noise, we improve their quality in an iterative process that minimizes the discrepancy between the original acquired projections and the projections predicted by the reconstructed volumes. The values in the voxels of each of the reconstructed volumes represent the coefficients of linear combinations of basis functions over time and energy. We have implemented the reconstruction algorithm on a graphics processing unit (GPU) with CUDA. We tested the utility of the technique in simulations and applied the technique in an in vivo scan of a C57BL/6 mouse injected with blood pool contrast agent at a dose of 0.01 ml/g body weight. Postreconstruction, at each cardiac phase in the iodine images, we segmented the left ventricle and computed its volume. Using the maximum and minimum volumes in the left ventricle, we calculated the stroke volume, the ejection fraction, and the cardiac output. Results: Our proposed method produces five-dimensional volumetric images that distinguish different materials at different points in time, and

  4. Application of micro-CT: a new method for stone drilling research.

    PubMed

    Yang, Yimin; Yang, Min; Xie, Yaoting; Wang, Changsui

    2009-04-01

    Drilling is one of the most complex techniques for making ancient stone implement or adornment. For smaller perforations, it is very difficult to effectively observe drilling marks under microscope, SEM, or to obtain negative silicone rubber cast. In this report, a new exclusive nondestructive method was first introduced to resolve the observation difficulty. Virtual 3D reconstruction by using micro CT (microCT) was successfully applied to disclose drilling tool marks on the inner wall of one small perforation and its relative drilling technique was deduced, which implied that microCT has great potential to understand ancient stone drilling.

  5. Micro-optical instrumentation for process spectroscopy

    NASA Astrophysics Data System (ADS)

    Crocombe, Richard A.; Flanders, Dale C.; Atia, Walid

    2004-12-01

    Traditional laboratory ultraviolet/visible/near-infrared spectroscopy instruments are tabletop-sized pieces of equipment that exhibit very high performance, but are generally too large and costly to be widely distributed for process control applications or used as spectroscopic sensors. Utilizing a unique, and proven, micro-optical technology platform origi-nally developed, qualified and deployed in the telecommunications industry, we have developed a new class of spectro-scopic micro-instrumentation that has laboratory quality resolution and spectral range, with superior speed and robust-ness. The fundamentally lower cost and small form factor of the technology will enable widespread use in process moni-toring and control. This disruption in the ground rules of spectroscopic analysis in these processes is enabled by the re-placement of large optics and detector arrays with a high-finesse, high-speed micro electro mechanical system (MEMS) tunable filter and a single detector, that enable the manufacture of a high performance and extremely rugged spectrome-ter in the footprint of a credit card. Specific process monitoring and control applications discussed in the paper include pharmaceutical, gas sensing and chemical processing applications.

  6. Perfusion measurements by micro-CT using prior image constrained compressed sensing (PICCS): initial phantom results.

    PubMed

    Nett, Brian E; Brauweiler, Robert; Kalender, Willi; Rowley, Howard; Chen, Guang-Hong

    2010-04-21

    Micro-CT scanning has become an accepted standard for anatomical imaging in small animal disease and genome mutation models. Concurrently, perfusion imaging via tracking contrast dynamics after injection of an iodinated contrast agent is a well-established tool for clinical CT scanners. However, perfusion imaging is not yet commercially available on the micro-CT platform due to limitations in both radiation dose and temporal resolution. Recent hardware developments in micro-CT scanners enable continuous imaging of a given volume through the use of a slip-ring gantry. Now that dynamic CT imaging is feasible, data may be acquired to measure tissue perfusion using a micro-CT scanner (CT Imaging, Erlangen, Germany). However, rapid imaging using micro-CT scanners leads to high image noise in individual time frames. Using the standard filtered backprojection (FBP) image reconstruction, images are prohibitively noisy for calculation of voxel-by-voxel perfusion maps. In this study, we apply prior image constrained compressed sensing (PICCS) to reconstruct images with significantly lower noise variance. In perfusion phantom experiments performed on a micro-CT scanner, the PICCS reconstruction enabled a reduction to 1/16 of the noise variance of standard FBP reconstruction, without compromising the spatial or temporal resolution. This enables a significant increase in dose efficiency, and thus, significantly less exposure time is needed to acquire images amenable to perfusion processing. This reduction in required irradiation time enables voxel-by-voxel perfusion maps to be generated on micro-CT scanners. Sample perfusion maps using a deconvolution-based perfusion analysis are included to demonstrate the improvement in image quality using the PICCS algorithm.

  7. Perfusion measurements by micro-CT using Prior Image Constrained Compressed Sensing (PICCS): Initial Phantom Results

    PubMed Central

    Nett, Brian E.; Brauweiler, Robert; Kalender, Willi; Rowley, Howard; Chen, Guang-Hong

    2010-01-01

    Micro-CT scanning has become an accepted standard for anatomical imaging in small animal disease and genome mutation models. Concurrently, perfusion imaging via tracking contrast dynamics after injection of an iodinated contrast agent is a well established tool on clinical CT scanners. However, perfusion imaging is not yet commercially available on the micro-CT platform. Recent hardware developments in micro-CT scanners enable continuous imaging of a given volume through the use of a slip-ring gantry. Now that dynamic CT imaging is feasible data may be acquired to measure tissue perfusion using a micro-CT scanner (CT Imaging, Erlangen, Germany). However, rapid imaging using micro-CT scanners leads to high image noise in individual time frames. Using the standard filterered backprojection (FBP) image reconstruction images are prohibitively noisy for calculation of voxel-by-voxel perfusion maps. Here we apply Prior Image Constrained Compressed Sensing (PICCS) to reconstruct images with significantly lower noise variance. In perfusion phantom experiments performed on a micro-CT scanner the PICCS reconstruction enabled a reduction to 1/16 of the noise variance of standard FBP reconstruction, without compromising the spatial or temporal resolution. This enables a significant increase in dose efficiency and thus significantly less exposure time is needed to acquire images amenable to perfusion processing. This reduction in required irradiation time enables voxel-by-voxel perfusion maps to be generated on micro-CT scanners. Sample perfusion maps using a deconvolution based perfusion analysis are included to demonstrate the improvement in image quality using the PICCS algorithm. PMID:20360635

  8. A quality assurance phantom for the performance evaluation of volumetric micro-CT systems

    NASA Astrophysics Data System (ADS)

    Du, Louise Y.; Umoh, Joseph; Nikolov, Hristo N.; Pollmann, Steven I.; Lee, Ting-Yim; Holdsworth, David W.

    2007-12-01

    Small-animal imaging has recently become an area of increased interest because more human diseases can be modeled in transgenic and knockout rodents. As a result, micro-computed tomography (micro-CT) systems are becoming more common in research laboratories, due to their ability to achieve spatial resolution as high as 10 µm, giving highly detailed anatomical information. Most recently, a volumetric cone-beam micro-CT system using a flat-panel detector (eXplore Ultra, GE Healthcare, London, ON) has been developed that combines the high resolution of micro-CT and the fast scanning speed of clinical CT, so that dynamic perfusion imaging can be performed in mice and rats, providing functional physiological information in addition to anatomical information. This and other commercially available micro-CT systems all promise to deliver precise and accurate high-resolution measurements in small animals. However, no comprehensive quality assurance phantom has been developed to evaluate the performance of these micro-CT systems on a routine basis. We have designed and fabricated a single comprehensive device for the purpose of performance evaluation of micro-CT systems. This quality assurance phantom was applied to assess multiple image-quality parameters of a current flat-panel cone-beam micro-CT system accurately and quantitatively, in terms of spatial resolution, geometric accuracy, CT number accuracy, linearity, noise and image uniformity. Our investigations show that 3D images can be obtained with a limiting spatial resolution of 2.5 mm-1 and noise of ±35 HU, using an acquisition interval of 8 s at an entrance dose of 6.4 cGy.

  9. A quality assurance phantom for the performance evaluation of volumetric micro-CT systems.

    PubMed

    Du, Louise Y; Umoh, Joseph; Nikolov, Hristo N; Pollmann, Steven I; Lee, Ting-Yim; Holdsworth, David W

    2007-12-07

    Small-animal imaging has recently become an area of increased interest because more human diseases can be modeled in transgenic and knockout rodents. As a result, micro-computed tomography (micro-CT) systems are becoming more common in research laboratories, due to their ability to achieve spatial resolution as high as 10 microm, giving highly detailed anatomical information. Most recently, a volumetric cone-beam micro-CT system using a flat-panel detector (eXplore Ultra, GE Healthcare, London, ON) has been developed that combines the high resolution of micro-CT and the fast scanning speed of clinical CT, so that dynamic perfusion imaging can be performed in mice and rats, providing functional physiological information in addition to anatomical information. This and other commercially available micro-CT systems all promise to deliver precise and accurate high-resolution measurements in small animals. However, no comprehensive quality assurance phantom has been developed to evaluate the performance of these micro-CT systems on a routine basis. We have designed and fabricated a single comprehensive device for the purpose of performance evaluation of micro-CT systems. This quality assurance phantom was applied to assess multiple image-quality parameters of a current flat-panel cone-beam micro-CT system accurately and quantitatively, in terms of spatial resolution, geometric accuracy, CT number accuracy, linearity, noise and image uniformity. Our investigations show that 3D images can be obtained with a limiting spatial resolution of 2.5 mm(-1) and noise of +/-35 HU, using an acquisition interval of 8 s at an entrance dose of 6.4 cGy.

  10. Automatic quantification of neo-vasculature from micro-CT

    NASA Astrophysics Data System (ADS)

    Mallya, Yogish; Narayanan, A. K.; Zagorchev, Lyubomir

    2009-02-01

    Angiogenesis is the process of formation of new blood vessels as outgrowths of pre-existing ones. It occurs naturally during development, tissue repair, and abnormally in pathologic diseases such as cancer. It is associated with proliferation of blood vessels/tubular sprouts that penetrate deep into tissues to supply nutrients and remove waste products. The process starts with migration of endothelial cells. As the cells move towards the target area they form small tubular sprouts recruited from the parent vessel. The sprouts grow in length due to migration, proliferation, and recruitment of new endothelial cells and the process continues until the target area becomes fully vascular. Accurate quantification of sprout formation is very important for evaluation of treatments for ischemia as well as angiogenesis inhibitors and plays a key role in the battle against cancer. This paper presents a technique for automatic quantification of newly formed blood vessels from Micro-CT volumes of tumor samples. A semiautomatic technique based on interpolation of Bezier curves was used to segment out the cancerous growths. Small vessels as determined by their diameter within the segmented tumors were enhanced and quantified with a multi-scale 3-D line detection filter. The same technique can be easily extended for quantification of tubular structures in other 3-D medical imaging modalities. Experimental results are presented and discussed.

  11. In vivo small animal micro-CT using nanoparticle contrast agents.

    PubMed

    Ashton, Jeffrey R; West, Jennifer L; Badea, Cristian T

    2015-01-01

    Computed tomography (CT) is one of the most valuable modalities for in vivo imaging because it is fast, high-resolution, cost-effective, and non-invasive. Moreover, CT is heavily used not only in the clinic (for both diagnostics and treatment planning) but also in preclinical research as micro-CT. Although CT is inherently effective for lung and bone imaging, soft tissue imaging requires the use of contrast agents. For small animal micro-CT, nanoparticle contrast agents are used in order to avoid rapid renal clearance. A variety of nanoparticles have been used for micro-CT imaging, but the majority of research has focused on the use of iodine-containing nanoparticles and gold nanoparticles. Both nanoparticle types can act as highly effective blood pool contrast agents or can be targeted using a wide variety of targeting mechanisms. CT imaging can be further enhanced by adding spectral capabilities to separate multiple co-injected nanoparticles in vivo. Spectral CT, using both energy-integrating and energy-resolving detectors, has been used with multiple contrast agents to enable functional and molecular imaging. This review focuses on new developments for in vivo small animal micro-CT using novel nanoparticle probes applied in preclinical research.

  12. In vivo small animal micro-CT using nanoparticle contrast agents

    PubMed Central

    Ashton, Jeffrey R.; West, Jennifer L.; Badea, Cristian T.

    2015-01-01

    Computed tomography (CT) is one of the most valuable modalities for in vivo imaging because it is fast, high-resolution, cost-effective, and non-invasive. Moreover, CT is heavily used not only in the clinic (for both diagnostics and treatment planning) but also in preclinical research as micro-CT. Although CT is inherently effective for lung and bone imaging, soft tissue imaging requires the use of contrast agents. For small animal micro-CT, nanoparticle contrast agents are used in order to avoid rapid renal clearance. A variety of nanoparticles have been used for micro-CT imaging, but the majority of research has focused on the use of iodine-containing nanoparticles and gold nanoparticles. Both nanoparticle types can act as highly effective blood pool contrast agents or can be targeted using a wide variety of targeting mechanisms. CT imaging can be further enhanced by adding spectral capabilities to separate multiple co-injected nanoparticles in vivo. Spectral CT, using both energy-integrating and energy-resolving detectors, has been used with multiple contrast agents to enable functional and molecular imaging. This review focuses on new developments for in vivo small animal micro-CT using novel nanoparticle probes applied in preclinical research. PMID:26581654

  13. Serial CT Findings of Paragonimus Infested Dogs and the Micro-CT Findings of the Worm Cysts

    PubMed Central

    Lee, Chang Hyun; Goo, Jin Mo; Lee, Hyun Ju; Hong, Sung-Tae; Shen, Cheng Hua; Chung, Doo Hyun; Son, Kyu Ri; Chang, Jung Min; Eo, Hong

    2007-01-01

    Objective To investigate the serial CT findings of Paragonimus westermani infected dogs and the microscopic structures of the worm cysts using Micro-CT. Materials and Methods This study was approved by the committee on animal research at our institution. Fifteen dogs infected with P. westermani underwent serial contrast-enhanced CT scans at pre-infection, after 10 days of infection, and monthly thereafter until six months for determining the radiologic-pathologic correlation. Three dogs (one dog each time) were sacrificed at 1, 3 and 6 months, respectively. After fixation of the lungs, both multi-detector CT and Micro-CT were performed for examining the worm cysts. Results The initial findings were pleural effusion and/or subpleural ground-glass opacities or linear opacities at day 10. At day 30, subpleural and peribronchial nodules appeared with hydropneumothorax and abdominal or chest wall air bubbles. Cavitary change and bronchial dilatation began to be seen on CT scan at day 30 and this was mostly seen together with mediastinal lymphadenopathy at day 60. Thereafter, subpleural ground-glass opacities and nodules with or without cavitary changes were persistently observed until day 180. After cavitary change of the nodules, the migratory features of the subpleural or peribronchial nodules were seen on all the serial CT scans. Micro-CT showed that the cyst wall contained dilated interconnected tubular structures, which had communications with the cavity and the adjacent distal bronchus. Conclusion The CT findings of paragonimiasis depend on the migratory stage of the worms. The worm cyst can have numerous interconnected tubular channels within its own wall and these channels have connections with the cavity and the adjacent distal bronchus. PMID:17923779

  14. The impact of spectral filtration on image quality in micro-CT system.

    PubMed

    Ren, Liqiang; Ghani, Muhammad U; Wu, Di; Zheng, Bin; Chen, Yong; Yang, Kai; Wu, Xizeng; Liu, Hong

    2016-01-08

    This paper aims to evaluate the impact of spectral filtration on image quality in a microcomputed tomography (micro-CT) system. A mouse phantom comprising 11rods for modeling lung, muscle, adipose, and bones was scanned with 17 s and 2min, respectively. The current (μA) for each scan was adjusted to achieve identical entrance exposure to the phantom, providing a baseline for image quality evaluation. For each region of interest (ROI) within specific composition, CT number variations, noise levels, and contrast-to-noise ratios (CNRs) were evaluated from the reconstructed images. CT number variations and CNRs for bone with high density, muscle, and adipose were compared with theoretical predictions. The results show that the impact of spectral filtration on image quality indicators, such as CNR in a micro-CT system, is significantly associated with tissue characteristics. The findings may provide useful references for optimizing the scanning parameters of general micro-CT systems in future imaging applications.

  15. Agreement and precision of periprosthetic bone density measurements in micro-CT, single and dual energy CT.

    PubMed

    Mussmann, Bo; Overgaard, Søren; Torfing, Trine; Traise, Peter; Gerke, Oke; Andersen, Poul Erik

    2017-07-01

    The objective of this study was to test the precision and agreement between bone mineral density measurements performed in micro CT, single and dual energy computed tomography, to determine how the keV level influences density measurements and to assess the usefulness of quantitative dual energy computed tomography as a research tool for longitudinal studies aiming to measure bone loss adjacent to total hip replacements. Samples from 10 fresh-frozen porcine femoral heads were placed in a Perspex phantom and computed tomography was performed with two acquisition modes. Bone mineral density was calculated and compared with measurements derived from micro CT. Repeated scans and dual measurements were performed in order to measure between- and within-scan precision. Mean density difference between micro CT and single energy computed tomography was 72 mg HA/cm(3) . For dual energy CT, the mean difference at 100 keV was 128 mg HA/cm(3) while the mean difference at 110-140 keV ranged from -84 to -67 mg HA/cm(3) compared with micro CT. Rescanning the samples resulted in a non-significant overall between-scan difference of 13 mg HA/cm(3) . Bland-Altman limits of agreement were wide and intraclass correlation coefficients ranged from 0.29 to 0.72, while 95% confidence intervals covered almost the full possible range. Repeating the density measurements for within-scan precision resulted in ICCs >0.99 and narrow limits of agreement. Single and dual energy quantitative CT showed excellent within-scan precision, but poor between-scan precision. No significant density differences were found in dual energy quantitative CT at keV-levels above 110 keV. © 2016 Orthopaedic Research Society. Published by Wiley Periodicals, Inc. J Orthop Res 35:1470-1477, 2017. © 2016 Orthopaedic Research Society. Published by Wiley Periodicals, Inc.

  16. Micro-CT of rodents: state-of-the-art and future perspectives

    PubMed Central

    Clark, D. P.; Badea, C. T.

    2014-01-01

    Micron-scale computed tomography (micro-CT) is an essential tool for phenotyping and for elucidating diseases and their therapies. This work is focused on preclinical micro-CT imaging, reviewing relevant principles, technologies, and applications. Commonly, micro-CT provides high-resolution anatomic information, either on its own or in conjunction with lower-resolution functional imaging modalities such as positron emission tomography (PET) and single-photon emission computed tomography (SPECT). More recently, however, advanced applications of micro-CT produce functional information by translating clinical applications to model systems (e.g. measuring cardiac functional metrics) and by pioneering new ones (e.g. measuring tumor vascular permeability with nanoparticle contrast agents). The primary limitations of micro-CT imaging are the associated radiation dose and relatively poor soft tissue contrast. We review several image reconstruction strategies based on iterative, statistical, and gradient sparsity regularization, demonstrating that high image quality is achievable with low radiation dose given ever more powerful computational resources. We also review two contrast mechanisms under intense development. The first is spectral contrast for quantitative material discrimination in combination with passive or actively targeted nanoparticle contrast agents. The second is phase contrast which measures refraction in biological tissues for improved contrast and potentially reduced radiation dose relative to standard absorption imaging. These technological advancements promise to develop micro-CT into a commonplace, functional and even molecular imaging modality. PMID:24974176

  17. Decentralized nonimaging micro-optical concentrator

    NASA Astrophysics Data System (ADS)

    Gu, Tian; Sweatt, William C.; Agrawal, Gautam; Jared, Bradley H.; Anderson, Ben J.; Goeke, Ron S.; Elisberg, Brenton; Paap, Scott M.; Cruz-Campa, Jose Luis; Gupta, Vipin; Okandan, Murat; Nielson, Gregory N.; Haney, Michael W.

    2014-09-01

    A novel non-imaging micro-concentrator concept and its development in Sandia National Lab's microsystems-enabled photovoltaics (MEPV) program are described in this paper. Key notions of the compact 2-element optical concentrator are toroidal lens surfaces that decentralize the focused beam and a reflective cone structure that enhances light collection and illumination onto micro-scale solar cells (e.g., ~100's microns in diameter). The optical configuration therefore provides a low-intensity, hot-spot-free illumination pattern on the receiver while achieving a concentration-acceptance angle product (CAP) over 1. Designs taking into account practical factors (such as fabrication capabilities, misalignments) achieve a 400X geometric concentration with a +/-2.4° (90% of peak) acceptance angle (CAP = 0.84) and a 600X geometric concentration with a +/-2° acceptance angle (CAP = 0.85), allowing low cost, mass production using injection molding. Development and experimental evaluation of a baseline prototype module is also described.

  18. Micro computed tomography (CT) scanned anatomical gateway to insect pest bioinformatics

    USDA-ARS?s Scientific Manuscript database

    An international collaboration to establish an interactive Digital Video Library for a Systems Biology Approach to study the Asian citrus Psyllid and psyllid genomics/proteomics interactions is demonstrated. Advances in micro-CT, digital computed tomography (CT) scan uses X-rays to make detailed pic...

  19. Planar Micro-Optic Solar Concentration

    NASA Astrophysics Data System (ADS)

    Karp, Jason Harris

    Solar radiation can be converted directly into electricity with materials exhibiting a photovoltaic response. Most photovoltaic arrays use crystalline silicon cells assembled in large modules which convert <20% of incident light into electricity. More recently, multijunction solar cells, comprised of multiple semiconducting layers, have exceeded 41% conversion. The drawback to these devices is the high cost associated with materials and fabrication, making them impractical as rigid panels. The field of concentrator photovoltaics pairs these costly devices with inexpensive collection optics which reduce the amount of active cell area. Most commercial systems rely upon simple lenses or mirrors focusing through secondary optics, yet these approaches lead to hundreds of individual components which must be assembled, aligned and interconnected. In this dissertation, I present an alternative concentration approach which replaces discrete optics with a segmented lens array and common slab waveguide. Sunlight collected by each small lens aperture focuses onto mirrors placed on the waveguide surface which reflect rays at angles that guide by total internal reflection. This configuration directs light from thousands of arrayed lenses into the same waveguide which connects to a single photovoltaic cell. We refer to this approach as planar micro-optic concentration because the waveguide remains uniform in cross-section and is compatible with large-scale microfabrication techniques such as roll-to-roll processing. In the following chapters, I discuss the concept and tradeoffs associated with waveguide coupling and propagation. I present optimized systems which demonstrated >80% optical efficiency at 300x geometric concentration. In addition, I develop a self-aligned fabrication process to assemble several small-scale prototypes using commercially-available components. These systems were experimentally measured at 52.3% optical efficiency. Lastly, I show how the waveguide

  20. Micro-optics technology and sensor systems applications

    NASA Technical Reports Server (NTRS)

    Gal, George; Herman, B.; Anderson, W.; Whitney, R.; Morrow, H.

    1993-01-01

    The current generation of electro-optical sensors utilizing refractive and reflective optical elements require sophisticated, complex, and expensive designs. Advanced-technology-based electro-optical sensors of minimum size and weight require miniaturization of optical, electrical, and mechanical devices with an increasing trend toward integration of various components. Micro-optics technology has the potential in a number of areas to simplify optical design with improved performance. This includes internally cooled apertures, hybrid optical design, microlenses, dispersive multicolor microlenses, active dither, electronically controlled optical beam steer, and microscopic integration of micro-optics, detectors, and signal processing layers. This paper describes our approach to the development of micro-optics technology with our main emphasis for sensors applications.

  1. Automated microSPECT/microCT image analysis of the mouse thyroid gland.

    PubMed

    Cheng, Peng; Hollingsworth, Brynn; Scarberry, Daniel; Shen, Daniel Hueng-Yuan; Powell, Kimerly; Smart, Sean C; Beech, John; Sheng, Xiaochao; Kirschner, Lawrence S; Menq, Chia-Hsiang; Jhiang, Sissy M

    2017-09-16

    Background: The ability of thyroid follicular cells to take up iodine enables the use of radioactive iodine (RAI) for imaging and targeted killing of RAI-avid thyroid cancer following thyroidectomy. To facilitate identifying novel strategies to improve 131I therapeutic efficacy for patients with RAI refractory disease, it is desired to optimize image acquisition and analysis for preclinical mouse models of thyroid cancer. Methods: A customized mouse cradle was designed and used for microSPECT/CT image acquisition at 1 hour (t1) and 24 hours (t24) post-injection of 123I, which mainly reflect RAI influx/efflux equilibrium and RAI retention in the thyroid, respectively. FVB/N mice with normal thyroid glands and TgBRAFV600E mice with thyroid tumors were imaged. In-house CTViewer software was developed to streamline image analysis with new capabilities along with display of 3D voxel-based 123I gamma photon intensity in MATLAB. Results: Our customized mouse cradle facilitates consistent tissue configuration among image acquisitions such that rigid body registration can be applied to align serial images of the same mouse via our in-house CTViewer software. CTViewer is designed specifically to streamline SPECT/CT image analysis with functions tailored to quantify thyroid radioiodine uptake. Automatic segmentation of thyroid volumes of interest (VOI) from adjacent salivary glands in t1 images is enabled by superimposing the thyroid VOI from the t24 image onto the corresponding aligned t1 image. The extent of heterogeneity in 123I accumulation within thyroid VOIs can be visualized by 3D display of voxel-based 123I gamma photon intensity. Conclusion: MicroSPECT/CT image acquisition and analysis for thyroidal RAI uptake is greatly improved by our cradle and CTViewer software, respectively. Furthermore, our approach of superimposing thyroid VOIs from t24 images to select thyroid VOIs on corresponding aligned t1

  2. Unison micro-optic security film

    NASA Astrophysics Data System (ADS)

    Steenblik, Richard A.; Hurt, Mark J.

    2004-06-01

    Unison is a new class of highly counterfeit and simulation resistant micro-optic security films that provide a wide range of overt, unique, and highly visible three-dimensional and fluidic motion visual effects for currency, document, and product authentication by the general public. Unlike holograms, interference films, and diffractive OVDs, Unison incorporates micron-scale geometrical optic systems to create synthetic images that exhibit striking visual effects that are independent of illumination angle and collimation. Unison presents a pattern of visually dynamic, non-holographic, colored images that are seen against either a transparent or an opaque background. These images can be designed to either float above the surface, appear beneath the surface, or appear in the plane of the surface and to move in a counter-intuitive ortho-parallactic manner. Unison can be used as a laminate over print without obscuring it; the Unison images appear to move within, under, or over the print. Unison images can be viewed under all lighting conditions from any azimuthal angle and from a wide range of elevation angles. This new material is highly resistant to counterfeiting because it is an all-polymer multi-layer film that contains no metallized layers and its non-diffractive optical elements are based on proprietary origination, tooling, and manufacturing processes.

  3. IMRT verification using a radiochromic/optical-CT dosimetry system

    NASA Astrophysics Data System (ADS)

    Oldham, Mark; Guo, Pengyi; Gluckman, Gary; Adamovics, John

    2006-12-01

    This work represents our first experiences relating to IMRT verification using a relatively new 3D dosimetry system consisting of a PRESAGETM dosimeter (Heuris Inc, Pharma LLC) and an optical-CT scanning system (OCTOPUSTM TM MGS Inc). This work builds in a step-wise manner on prior work in our lab.

  4. Advantages of micro-optics over holograms for document authentication

    NASA Astrophysics Data System (ADS)

    Steenblik, Richard A.; Hurt, Mark J.; Knotts, Michael E.

    2002-04-01

    Holograms have been utilized to authenticate financial instruments and high value products for many years. The security provided by embossed holograms is limited by their low surface relief, typically 0.25 micron, which makes them susceptible to counterfeiting: stripping the hologram from the substrate exposes the complete holographic microstructure which can be easily used to create counterfeit tooling. A large improvement in counterfeit deterrence can be gained by the use of high precision non-holographic micro-optics and microstructures having a surface relief greater than a few microns. An unlimited range of distinctive optical effects can be obtained from micro-optic systems. Many of the possible optical effects, such as optical interactions between discrete elements, cannot be effectively simulated by any other means, including holography. We present descriptions of five Visual Physics document authentication micro-optic systems that provide sophisticated optical effects: Virtual Image, BackLite, Encloak, Optical Black, and Structural Color . Visual Physics document authentication micro-optics impose an additional level of counterfeit deterrence because the production of polymer films incorporating these microstructures requires unconventional manufacturing methods; conventional holographic reproduction processes, typical of hologram counterfeiting operations, are inadequate to faithfully reproduce the details and the function of these micro-optic elements. We have developed mastering, tooling, and high precision/high speed manufacturing processes that can faithfully replicate these complex surface relief micro-optics at low cost.

  5. 4D micro-CT for cardiac and perfusion applications with view under sampling.

    PubMed

    Badea, Cristian T; Johnston, Samuel M; Qi, Yi; Johnson, G Allan

    2011-06-07

    Micro-CT is commonly used in preclinical studies to provide anatomical information. There is growing interest in obtaining functional measurements from 4D micro-CT. We report here strategies for 4D micro-CT with a focus on two applications: (i) cardiac imaging based on retrospective gating and (ii) pulmonary perfusion using multiple contrast injections/rotations paradigm. A dual source micro-CT system is used for image acquisition with a sampling rate of 20 projections per second. The cardiac micro-CT protocol involves the use of a liposomal blood pool contrast agent. Fast scanning of free breathing mice is achieved using retrospective gating. The ECG and respiratory signals are used to sort projections into ten cardiac phases. The pulmonary perfusion protocol uses a conventional contrast agent (Isovue 370) delivered by a micro-injector in four injections separated by 2 min intervals to allow for clearance. Each injection is synchronized with the rotation of the animal, and each of the four rotations is started with an angular offset of 22.5 from the starting angle of the previous rotation. Both cardiac and perfusion protocols result in an irregular angular distribution of projections that causes significant streaking artifacts in reconstructions when using traditional filtered backprojection (FBP) algorithms. The reconstruction involves the use of the point spread function of the micro-CT system for each time point, and the analysis of the distribution of the reconstructed data in the Fourier domain. This enables us to correct for angular inconsistencies via deconvolution and identify regions where data is missing. The missing regions are filled with data from a high quality but temporally averaged prior image reconstructed with all available projections. Simulations indicate that deconvolution successfully removes the streaking artifacts while preserving temporal information. 4D cardiac micro-CT in a mouse was performed with adequate image quality at isotropic

  6. Volume quantification of Cycloclypeus carpenteri by microCT investigation

    NASA Astrophysics Data System (ADS)

    Fabienke, W.; Briguglio, A.; Hohenegger, J.

    2012-04-01

    Complete equatorial oriented sections of larger benthic foraminifera (LBF) with ring-shaped chambers are difficult to obtain due to the common waved geometry of the equatorial plane. Detailed studies on the sequence of the annular chambers, their variation with ontogeny and their size and shape continuum are therefore almost impossible with oriented sections. The quantitative high-resolution images of a microCT scanner make it possible to create a 3D model of a test and to extract each chamber differentiating chamberlets . To get a quality 3D model several steps have to be done. First the sample has to be scanned and reconstructed and then the obtained images have to be resliced by a reorientation of the three axes. The enhanced images are then converted into greyscale to allow a semiautomatic segmentation of the lumina. Those segmentations are then rendered to create a 3D model which can be quantified. For this project 13 specimens of Cycloclypeus carpenteri have been scanned, their chambers extracted and their volume quantified. Beside the discovery of different specimens with pluriembryonal apparati and two or more orthogonal equatorial layers, the evolution of the chamber height has been studied by means of volume measurements. Several chambers are in fact higher than others and some couplets of larger-shorter chambers have been observed. It is very likely, that those irregularities during the ontogeny derive from various environmental factors which may be cyclic or not (e.g., rain seasons, astronomic cycles). To test this hypothesis from the resulting 3D model, the volume of each chamber (not considering the nepionic and the very first spiral coiled chambers) has been rendered and calculated. With this data, that show the actual growth of the foraminiferal cell, it is possible to search for growth cycles after having standardized the residuals of the volumes along a calculated growth function. It was possible to compare the obtained cycles from these recent

  7. Light scattering in optical CT scanning of Presage dosimeters

    NASA Astrophysics Data System (ADS)

    Xu, Y.; Adamovics, J.; Cheeseborough, J. C.; Chao, K. S.; Wuu, C. S.

    2010-11-01

    The intensity of the scattered light from the Presage dosimeters was measured using a Thorlabs PM100D optical power meter (Thorlabs Inc, Newton, NJ) with an optical sensor of 1 mm diameter sensitive area. Five Presage dosimeters were made as cylinders of 15.2 cm, 10 cm, 4 cm diameters and irradiated with 6 MV photons using a Varian Clinac 2100EX. Each dosimeter was put into the scanning tank of an OCTOPUS" optical CT scanner (MGS Research Inc, Madison, CT) filled with a refractive index matching liquid. A laser diode was positioned at one side of the water tank to generate a stationary laser beam of 0.8 mm width. On the other side of the tank, an in-house manufactured positioning system was used to move the optical sensor in the direction perpendicular to the outgoing laser beam from the dosimeters at an increment of 1 mm. The amount of scattered photons was found to be more than 1% of the primary light signal within 2 mm from the laser beam but decreases sharply with increasing off-axis distance. The intensity of the scattered light increases with increasing light attenuations and/or absorptions in the dosimeters. The scattered light at the same off-axis distance was weaker for dosimeters of larger diameters and for larger detector-to-dosimeter distances. Methods for minimizing the effect of the light scattering in different types of optical CT scanners are discussed.

  8. Identification of dental root canals and their medial line from micro-CT and cone-beam CT records

    PubMed Central

    2012-01-01

    Background Shape of the dental root canal is highly patient specific. Automated identification methods of the medial line of dental root canals and the reproduction of their 3D shape can be beneficial for planning endodontic interventions as severely curved root canals or multi-rooted teeth may pose treatment challenges. Accurate shape information of the root canals may also be used by manufacturers of endodontic instruments in order to make more efficient clinical tools. Method Novel image processing procedures dedicated to the automated detection of the medial axis of the root canal from dental micro-CT and cone-beam CT records are developed. For micro-CT, the 3D model of the root canal is built up from several hundred parallel cross sections, using image enhancement, histogram based fuzzy c-means clustering, center point detection in the segmented slice, three dimensional inner surface reconstruction, and potential field driven curve skeleton extraction in three dimensions. Cone-beam CT records are processed with image enhancement filters and fuzzy chain based regional segmentation, followed by the reconstruction of the root canal surface and detecting its skeleton via a mesh contraction algorithm. Results The proposed medial line identification and root canal detection algorithms are validated on clinical data sets. 25 micro-CT and 36 cone-beam-CT records are used in the validation procedure. The overall success rate of the automatic dental root canal identification was about 92% in both procedures. The algorithms proved to be accurate enough for endodontic therapy planning. Conclusions Accurate medial line identification and shape detection algorithms of dental root canal have been developed. Different procedures are defined for micro-CT and cone-beam CT records. The automated execution of the subsequent processing steps allows easy application of the algorithms in the dental care. The output data of the image processing procedures is suitable for mathematical

  9. Optical micro-profilometry for archaeology

    NASA Astrophysics Data System (ADS)

    Carcagni, Pierluigi; Daffara, Claudia; Fontana, Raffaella; Gambino, Maria Chiara; Mastroianni, Maria; Mazzotta, Cinazia; Pampaloni, Enrico; Pezzati, Luca

    2005-06-01

    A quantitative morphological analysis of archaeological objects represents an important element for historical evaluations, artistic studies and conservation projects. At present, a variety of contact instruments for high-resolution surface survey is available on the market, but because of their invasivity they are not well received in the field of artwork conservation. On the contrary, optical testing techniques have seen a successful growth in last few years due to their effectiveness and safety. In this work we present a few examples of application of high-resolution 3D techniques for the survey of archaeological objects. Measurements were carried out by means of an optical micro-profilometer composed of a commercial conoprobe mounted on a scanning device that allows a maximum sampled area of 280×280 mm2. Measurements as well as roughness calculations were carried out on selected areas, representative of the differently degraded surface, of an ellenestic bronze statue to document the surface corrosion before restoration intervention started. Two highly-corroded ancient coins and a limestone column were surveyed to enhance the relief of inscriptions and drawings for dating purposes. High-resolution 3D survey, beyond the faithful representation of objects, makes it possible to display the surface in an image format that can be processed by means of image processing software. The application of digital filters as well as rendering techniques easies the readability of the smallest details.

  10. Micro Electro Mechanical Systems (MEMS) Micro-Switches for Use in DC, RF, and Optical Applications

    NASA Astrophysics Data System (ADS)

    Suzuki, Kenichiro

    2002-06-01

    Micromachined micro-switches have stimulated the development of the core infrastructure technology for the next generation communication systems because of their superior performance. They are fabricated by similar silicon micromachined processes, but the switch structure and its characteristics depend on each application. Micro electro mechanical systems (MEMS) technology has been applied to micro relays, RF switches, and optical switches; as a result, optical and mechanical performance has been improved.

  11. Quantifying lung morphology with respiratory-gated micro-CT in a murine model of emphysema

    NASA Astrophysics Data System (ADS)

    Ford, N. L.; Martin, E. L.; Lewis, J. F.; Veldhuizen, R. A. W.; Holdsworth, D. W.; Drangova, M.

    2009-04-01

    Non-invasive micro-CT imaging techniques have been developed to investigate lung structure in free-breathing rodents. In this study, we investigate the utility of retrospectively respiratory-gated micro-CT imaging in an emphysema model to determine if anatomical changes could be observed in the image-derived quantitative analysis at two respiratory phases. The emphysema model chosen was a well-characterized, genetically altered model (TIMP-3 knockout mice) that exhibits a homogeneous phenotype. Micro-CT scans of the free-breathing, anaesthetized mice were obtained in 50 s and retrospectively respiratory sorted and reconstructed, providing 3D images representing peak inspiration and end expiration with 0.15 mm isotropic voxel spacing. Anatomical measurements included the volume and CT density of the lungs and the volume of the major airways, along with the diameters of the trachea, left bronchus and right bronchus. From these measurements, functional parameters such as functional residual capacity and tidal volume were calculated. Significant differences between the wild-type and TIMP-3 knockout groups were observed for measurements of CT density over the entire lung, indicating increased air content in the lungs of TIMP-3 knockout mice. These results demonstrate retrospective respiratory-gated micro-CT, providing images at multiple respiratory phases that can be analyzed quantitatively to investigate anatomical changes in murine models of emphysema.

  12. Dual-energy micro-CT imaging for differentiation of iodine- and gold-based nanoparticles

    NASA Astrophysics Data System (ADS)

    Badea, C. T.; Johnston, S. M.; Qi, Y.; Ghaghada, K.; Johnson, G. A.

    2011-03-01

    Spectral CT imaging is expected to play a major role in the diagnostic arena as it provides material decomposition on an elemental basis. One fascinating possibility is the ability to discriminate multiple contrast agents targeting different biological sites. We investigate the feasibility of dual energy micro-CT for discrimination of iodine (I) and gold (Au) contrast agents when simultaneously present in the body. Simulations and experiments were performed to measure the CT enhancement for I and Au over a range of voltages from 40-to-150 kVp using a dual source micro-CT system. The selected voltages for dual energy micro-CT imaging of Au and I were 40 kVp and 80 kVp. On a massconcentration basis, the relative average enhancement of Au to I was 2.75 at 40 kVp and 1.58 at 80 kVp. We have demonstrated the method in a preclinical model of colon cancer to differentiate vascular architecture and extravasation. The concentration maps of Au and I allow quantitative measure of the bio-distribution of both agents. In conclusion, dual energy micro-CT can be used to discriminate probes containing I and Au with immediate impact in pre-clinical research.

  13. CT guided diffuse optical tomography for breast cancer imaging

    NASA Astrophysics Data System (ADS)

    Baikejiang, Reheman; Zhang, Wei; Zhu, Dianwen; Li, Changqing

    2016-03-01

    Diffuse optical tomography (DOT) has attracted attentions in the last two decades due to its intrinsic sensitivity in imaging chromophores of tissues such as blood, water, and lipid. However, DOT has not been clinically accepted yet due to its low spatial resolution caused by strong optical scattering in tissues. Structural guidance provided by an anatomical imaging modality enhances the DOT imaging substantially. Here, we propose a computed tomography (CT) guided multispectral DOT imaging system for breast cancer detection. To validate its feasibility, we have built a prototype DOT imaging system which consists of a laser at wavelengths of 650 and an electron multiplying charge coupled device (EMCCD) camera. We have validated the CT guided DOT reconstruction algorithms with numerical simulations and phantom experiments, in which different imaging setup parameters, such as projection number of measurements, the width of measurement patch, have been investigated. Our results indicate that an EMCCD camera with air cooling is good enough for the transmission mode DOT imaging. We have also found that measurements at six projections are sufficient for DOT to reconstruct the optical targets with 4 times absorption contrast when the CT guidance is applied. Finally, we report our effort and progress on the integration of the multispectral DOT imaging system into a breast CT scanner.

  14. Imaging of Orthotopic Glioblastoma Xenografts in Mice Using a Clinical CT Scanner: Comparison with Micro-CT and Histology

    PubMed Central

    Kirschner, Stefanie; Mürle, Bettina; Felix, Manuela; Arns, Anna; Groden, Christoph; Wenz, Frederik; Hug, Andreas; Glatting, Gerhard; Kramer, Martin

    2016-01-01

    Purpose There is an increasing need for small animal in vivo imaging in murine orthotopic glioma models. Because dedicated small animal scanners are not available ubiquitously, the applicability of a clinical CT scanner for visualization and measurement of intracerebrally growing glioma xenografts in living mice was validated. Materials and Methods 2.5x106 U87MG cells were orthotopically implanted in NOD/SCID/ᵞc-/- mice (n = 9). Mice underwent contrast-enhanced (300 μl Iomeprol i.v.) imaging using a micro-CT (80 kV, 75 μAs, 360° rotation, 1,000 projections, scan time 33 s, resolution 40 x 40 x 53 μm) and a clinical CT scanner (4-row multislice detector; 120 kV, 150 mAs, slice thickness 0.5 mm, feed rotation 0.5 mm, resolution 98 x 98 x 500 μm). Mice were sacrificed and the brain was worked up histologically. In all modalities tumor volume was measured by two independent readers. Contrast-to-noise ratio (CNR) and Signal-to-noise ratio (SNR) were measured from reconstructed CT-scans (0.5 mm slice thickness; n = 18). Results Tumor volumes (mean±SD mm3) were similar between both CT-modalities (micro-CT: 19.8±19.0, clinical CT: 19.8±18.8; Wilcoxon signed-rank test p = 0.813). Moreover, between reader analyses for each modality showed excellent agreement as demonstrated by correlation analysis (Spearman-Rho >0.9; p<0.01 for all correlations). Histologically measured tumor volumes (11.0±11.2) were significantly smaller due to shrinkage artifacts (p<0.05). CNR and SNR were 2.1±1.0 and 1.1±0.04 for micro-CT and 23.1±24.0 and 1.9±0.7 for the clinical CTscanner, respectively. Conclusion Clinical CT scanners may reliably be used for in vivo imaging and volumetric analysis of brain tumor growth in mice. PMID:27829015

  15. Innovative advanced occlusion planning with superimposed CT and optical scans.

    PubMed

    Tremblay, Gilbert

    2011-04-01

    In order to increase the likelihood of a successful treatment plan outcome, it is critical to be able to effectively view the patient's underlying bony skeletal relationship of his or her TMJ. An innovative approach suggested to achieve this is to use the CT scan, optical scan, and Kois deprogrammer. Once the vertical dimension has been increased, the novelty of this approach is the ability to superimpose both scans along with the Kois deprogrammer and, using computer software, evaluate the TMJ position in three dimensions. This case presentation describes how TMJ CT scan evaluation is used in planning a complex rehabilitation case, given that the occlusion structures can be visualized independently and interactively.

  16. Quantitative imaging of proteoglycan in cartilage using a gadolinium probe and microCT.

    PubMed

    Cockman, M D; Blanton, C A; Chmielewski, P A; Dong, L; Dufresne, T E; Hookfin, E B; Karb, M J; Liu, S; Wehmeyer, K R

    2006-03-01

    Micro-computed tomography (microCT) imaging has the potential to allow the three-dimensional (3D) visualization of cartilage morphology. However, cartilage intensity on a microCT image is weak because cartilage does not strongly attenuate X-rays. This work was designed to demonstrate that exposure of cartilage to charged gadolinium compounds modifies the intensity to allow an improved visualization of cartilage morphology and the determination of proteoglycan content. Trypsin was used to deplete proteoglycan in bovine nasal cartilage disks. Disks were then exposed to Gd(3+), gadopentetate (Gd-DTPA(2-)), or gadoteridol (Gd-HP-DO3A), and imaged with microCT. The intensities of the disks were measured from the images and compared to the actual proteoglycan content determined with a dimethylmethylene blue assay. Treatment of naïve disks with 200 mM Gd(3+) for 24h at room temperature produced a 2.8-fold increase in intensity on microCT images. Similar treatment with 200 mM Gd-DTPA(2-) produced a 1.4-fold increase. After 2h of trypsin treatment at room temperature, the intensities of cartilage disks exposed to 20 0mM Gd(3+) decreased by 12%. Conversely, the intensities of trypsin-treated disks exposed to 200 mM Gd-DPTA(2-) increased by 15%. Trypsin treatment caused a 4% increase in the intensities of disks exposed to neutral Gd-HP-DO3A. The correlation between proteoglycan content and the microCT intensity of cartilage treated with Gd(3+) was very good (r(2)=0.81). Gadolinium and microCT allow an improved 3D visualization of cartilage and quantification of its proteoglycan content.

  17. Optical-CT gel-dosimetry I: basic investigations.

    PubMed

    Oldham, Mark; Siewerdsen, Jeffrey H; Kumar, Sai; Wong, John; Jaffray, David A

    2003-04-01

    Comprehensive verification of the intricate dose distributions associated with advanced radiation treatments is now an immediate and substantial problem. The task is challenging using traditional dosimeters because of restrictions to point measurements (ion chambers, diodes, TLD, etc.) or planar measurements (film). In essence, rapid advances in the technology to deliver radiation treatments have not been paralleled by corresponding advances in the ability to verify these treatments. A potential solution has emerged in the form of water equivalent three dimensional (3D) gel-dosimetry. In this paper we present basic characterization and performance studies of a prototype optical-CT scanning system developed in our laboratory. An analysis of the potential role or scope of gel dosimetry, in relation to other dosimeters, and to verification across the spectrum of therapeutic techniques is also given. The characterization studies enabled the determination of nominal operating conditions for optical-CT scanning. "Finger" phantoms are introduced as a powerful and flexible tool for the investigation of optical-CT performance. The modulation-transfer function (MTF) of the system is determined to be better than 10% out to 1 mm(-1), confirming sub-mm imaging ability. System performance is demonstrated by the acquisition of a 1 x 1 x 1 mm3 dataset through the dose distribution delivered by an x-ray lens that focuses x rays in the energy range 40-80 KeV. This 3D measurement would be extremely difficult to achieve with other dosimetry techniques and highlights some of the strengths of gel dosimetry. Finally, an optical Monte Carlo model is introduced and shown to have potential to model light transport through gel-dosimetry systems, and to provide a tool for the study and optimization of optical-CT gel dosimetry. The model utilizes Mie scattering theory and requires knowledge of the variation of the particle size distribution with dose. The latter was determined here using the

  18. A LabVIEW Platform for Preclinical Imaging Using Digital Subtraction Angiography and Micro-CT.

    PubMed

    Badea, Cristian T; Hedlund, Laurence W; Johnson, G Allan

    2013-01-01

    CT and digital subtraction angiography (DSA) are ubiquitous in the clinic. Their preclinical equivalents are valuable imaging methods for studying disease models and treatment. We have developed a dual source/detector X-ray imaging system that we have used for both micro-CT and DSA studies in rodents. The control of such a complex imaging system requires substantial software development for which we use the graphical language LabVIEW (National Instruments, Austin, TX, USA). This paper focuses on a LabVIEW platform that we have developed to enable anatomical and functional imaging with micro-CT and DSA. Our LabVIEW applications integrate and control all the elements of our system including a dual source/detector X-ray system, a mechanical ventilator, a physiological monitor, and a power microinjector for the vascular delivery of X-ray contrast agents. Various applications allow cardiac- and respiratory-gated acquisitions for both DSA and micro-CT studies. Our results illustrate the application of DSA for cardiopulmonary studies and vascular imaging of the liver and coronary arteries. We also show how DSA can be used for functional imaging of the kidney. Finally, the power of 4D micro-CT imaging using both prospective and retrospective gating is shown for cardiac imaging.

  19. Geometry-constraint-scan imaging for in-line phase contrast micro-CT.

    PubMed

    Fu, Jian; Yu, Guangyuan; Fan, Dekai

    2014-01-01

    X-ray phase contrast computed tomography (CT) uses the phase shift that x-rays undergo when passing through matter, rather than their attenuation, as the imaging signal and may provide better image quality in soft-tissue and biomedical materials with low atomic number. Here a geometry-constraint-scan imaging technique for in-line phase contrast micro-CT is reported. It consists of two circular-trajectory scans with x-ray detector at different positions, the phase projection extraction method with the Fresnel free-propagation theory and the filter back-projection reconstruction algorithm. This method removes the contact-detector scan and the pure phase object assumption in classical in-line phase contrast Micro-CT. Consequently it relaxes the experimental conditions and improves the image contrast. This work comprises a numerical study of this technique and its experimental verification using a biomedical composite dataset measured at an x-ray tube source Micro-CT setup. The numerical and experimental results demonstrate the validity of the presented method. It will be of interest for a wide range of in-line phase contrast Micro-CT applications in biology and medicine.

  20. Dual energy micro CT SkyScan 1173 for the characterization of urinary stone

    NASA Astrophysics Data System (ADS)

    Fitri, L. A.; Asyana, V.; Ridwan, T.; Anwary, F.; Soekersi, H.; Latief, F. D. E.; Haryanto, F.

    2016-03-01

    Knowledge of the composition of urinary stones is an essential part to determine suitable treatments for patients. The aim of this research is to characterize the urinary stones by using dual energy micro CT SkyScan 11173. This technique combines high-energy and low- energy scanning during a single acquisition. Six human urinary stones were scanned in vitro using 80 kV and 120 kV micro CT SkyScan 1173. Projected images were produced by micro CT SkyScan 1173 and then reconstructed using NRecon (in-house software from SkyScan) to obtain a complete 3D image. The urinary stone images were analysed using CT analyser to obtain information of internal structure and Hounsfield Unit (HU) values to determine the information regarding the composition of the urinary stones, respectively. HU values obtained from some regions of interest in the same slice are compared to a reference HU. The analysis shows information of the composition of the six scanned stones obtained. The six stones consist of stone number 1 (calcium+cystine), number 2 (calcium+struvite), number 3 (calcium+cystine+struvite), number 4 (calcium), number 5 (calcium+cystine+struvite), and number 6 (calcium+uric acid). This shows that dual energy micro CT SkyScan 1173 was able to characterize the composition of the urinary stone.

  1. A LabVIEW Platform for Preclinical Imaging Using Digital Subtraction Angiography and Micro-CT

    PubMed Central

    Badea, Cristian T.; Hedlund, Laurence W.; Johnson, G. Allan

    2013-01-01

    CT and digital subtraction angiography (DSA) are ubiquitous in the clinic. Their preclinical equivalents are valuable imaging methods for studying disease models and treatment. We have developed a dual source/detector X-ray imaging system that we have used for both micro-CT and DSA studies in rodents. The control of such a complex imaging system requires substantial software development for which we use the graphical language LabVIEW (National Instruments, Austin, TX, USA). This paper focuses on a LabVIEW platform that we have developed to enable anatomical and functional imaging with micro-CT and DSA. Our LabVIEW applications integrate and control all the elements of our system including a dual source/detector X-ray system, a mechanical ventilator, a physiological monitor, and a power microinjector for the vascular delivery of X-ray contrast agents. Various applications allow cardiac- and respiratory-gated acquisitions for both DSA and micro-CT studies. Our results illustrate the application of DSA for cardiopulmonary studies and vascular imaging of the liver and coronary arteries. We also show how DSA can be used for functional imaging of the kidney. Finally, the power of 4D micro-CT imaging using both prospective and retrospective gating is shown for cardiac imaging. PMID:27006920

  2. Development of a Carbon Nanotube-Based Micro-CT and its Applications in Preclinical Research

    NASA Astrophysics Data System (ADS)

    Burk, Laurel May

    Due to the dependence of researchers on mouse models for the study of human disease, diagnostic tools available in the clinic must be modified for use on these much smaller subjects. In addition to high spatial resolution, cardiac and lung imaging of mice presents extreme temporal challenges, and physiological gating methods must be developed in order to image these organs without motion blur. Commercially available micro-CT imaging devices are equipped with conventional thermionic x-ray sources and have a limited temporal response and are not ideal for in vivo small animal studies. Recent development of a field-emission x-ray source with carbon nanotube (CNT) cathode in our lab presented the opportunity to create a micro-CT device well-suited for in vivo lung and cardiac imaging of murine models for human disease. The goal of this thesis work was to present such a device, to develop and refine protocols which allow high resolution in vivo imaging of free-breathing mice, and to demonstrate the use of this new imaging tool for the study many different disease models. In Chapter 1, I provide background information about x-rays, CT imaging, and small animal micro-CT. In Chapter 2, CNT-based x-ray sources are explained, and details of a micro-focus x-ray tube specialized for micro-CT imaging are presented. In Chapter 3, the first and second generation CNT micro-CT devices are characterized, and successful respiratory- and cardiac-gated live animal imaging on normal, wild-type mice is achieved. In Chapter 4, respiratory-gated imaging of mouse disease models is demonstrated, limitations to the method are discussed, and a new contactless respiration sensor is presented which addresses many of these limitations. In Chapter 5, cardiac-gated imaging of disease models is demonstrated, including studies of aortic calcification, left ventricular hypertrophy, and myocardial infarction. In Chapter 6, several methods for image and system improvement are explored, and radiation

  3. Quantitative micro-CT based coronary artery profiling using interactive local thresholding and cylindrical coordinates.

    PubMed

    Panetta, Daniele; Pelosi, Gualtiero; Viglione, Federica; Kusmic, Claudia; Terreni, Marianna; Belcari, Nicola; Guerra, Alberto Del; Athanasiou, Lambros; Exarchos, Themistoklis; Fotiadis, Dimitrios I; Filipovic, Nenad; Trivella, Maria Giovanna; Salvadori, Piero A; Parodi, Oberdan

    2015-01-01

    Micro-CT is an established imaging technique for high-resolution non-destructive assessment of vascular samples, which is gaining growing interest for investigations of atherosclerotic arteries both in humans and in animal models. However, there is still a lack in the definition of micro-CT image metrics suitable for comprehensive evaluation and quantification of features of interest in the field of experimental atherosclerosis (ATS). A novel approach to micro-CT image processing for profiling of coronary ATS is described, providing comprehensive visualization and quantification of contrast agent-free 3D high-resolution reconstruction of full-length artery walls. Accelerated coronary ATS has been induced by high fat cholesterol-enriched diet in swine and left coronary artery (LCA) harvested en bloc for micro-CT scanning and histologic processing. A cylindrical coordinate system has been defined on the image space after curved multiplanar reformation of the coronary vessel for the comprehensive visualization of the main vessel features such as wall thickening and calcium content. A novel semi-automatic segmentation procedure based on 2D histograms has been implemented and the quantitative results validated by histology. The potentiality of attenuation-based micro-CT at low kV to reliably separate arterial wall layers from adjacent tissue as well as identify wall and plaque contours and major tissue components has been validated by histology. Morphometric indexes from histological data corresponding to several micro-CT slices have been derived (double observer evaluation at different coronary ATS stages) and highly significant correlations (R2 > 0.90) evidenced. Semi-automatic morphometry has been validated by double observer manual morphometry of micro-CT slices and highly significant correlations were found (R2 > 0.92). The micro-CT methodology described represents a handy and reliable tool for quantitative high resolution and contrast agent free full length

  4. In vivo longitudinal micro-CT study of bent long limb bones in rat offspring.

    PubMed

    De Schaepdrijver, Luc; Delille, Peter; Geys, Helena; Boehringer-Shahidi, Christian; Vanhove, Christian

    2014-07-01

    Micro-computed X-ray tomography (micro-CT) has been reported as a reliable method to assess ex vivo rat and rabbit fetal skeletons in embryo-fetal developmental toxicity studies. Since micro-CT is a non-invasive imaging modality it has the potential for longitudinal, in vivo investigation of postnatal skeletal development. This is the first paper using micro-CT to assess the reversibility of drug-induced bent long bones in a longitudinal study from birth to early adulthood in rat offspring. Analysis of the scans obtained on postnatal Day 0, 7, 21 and 80 showed complete recovery or repair of the bent long limb bones (including the scapula) within the first 3 weeks. When assessing risk the ability to demonstrate recovery is highly advantageous when interpreting such transient skeletal change. In summary, in vivo micro-CT of small laboratory animals can aid in non-clinical safety assessment, particularly for specific mechanistic purposes or to address a particular concern in developmental biology. Copyright © 2014 Elsevier Inc. All rights reserved.

  5. Robust Optic Nerve Segmentation on Clinically Acquired CT.

    PubMed

    Panda, Swetasudha; Asman, Andrew J; Delisi, Michael P; Mawn, Louise A; Galloway, Robert L; Landman, Bennett A

    2014-03-21

    The optic nerve is a sensitive central nervous system structure, which plays a critical role in many devastating pathological conditions. Several methods have been proposed in recent years to segment the optic nerve automatically, but progress toward full automation has been limited. Multi-atlas methods have been successful for brain segmentation, but their application to smaller anatomies remains relatively unexplored. Herein we evaluate a framework for robust and fully automated segmentation of the optic nerves, eye globes and muscles. We employ a robust registration procedure for accurate registrations, variable voxel resolution and image field-of-view. We demonstrate the efficacy of an optimal combination of SyN registration and a recently proposed label fusion algorithm (Non-local Spatial STAPLE) that accounts for small-scale errors in registration correspondence. On a dataset containing 30 highly varying computed tomography (CT) images of the human brain, the optimal registration and label fusion pipeline resulted in a median Dice similarity coefficient of 0.77, symmetric mean surface distance error of 0.55 mm, symmetric Hausdorff distance error of 3.33 mm for the optic nerves. Simultaneously, we demonstrate the robustness of the optimal algorithm by segmenting the optic nerve structure in 316 CT scans obtained from 182 subjects from a thyroid eye disease (TED) patient population.

  6. Robust optic nerve segmentation on clinically acquired CT

    NASA Astrophysics Data System (ADS)

    Panda, Swetasudha; Asman, Andrew J.; DeLisi, Michael P.; Mawn, Louise A.; Galloway, Robert L.; Landman, Bennett A.

    2014-03-01

    The optic nerve is a sensitive central nervous system structure, which plays a critical role in many devastating pathological conditions. Several methods have been proposed in recent years to segment the optic nerve automatically, but progress toward full automation has been limited. Multi-atlas methods have been successful for brain segmentation, but their application to smaller anatomies remains relatively unexplored. Herein we evaluate a framework for robust and fully automated segmentation of the optic nerves, eye globes and muscles. We employ a robust registration procedure for accurate registrations, variable voxel resolution and image fieldof- view. We demonstrate the efficacy of an optimal combination of SyN registration and a recently proposed label fusion algorithm (Non-local Spatial STAPLE) that accounts for small-scale errors in registration correspondence. On a dataset containing 30 highly varying computed tomography (CT) images of the human brain, the optimal registration and label fusion pipeline resulted in a median Dice similarity coefficient of 0.77, symmetric mean surface distance error of 0.55 mm, symmetric Hausdorff distance error of 3.33 mm for the optic nerves. Simultaneously, we demonstrate the robustness of the optimal algorithm by segmenting the optic nerve structure in 316 CT scans obtained from 182 subjects from a thyroid eye disease (TED) patient population.

  7. Implementation and assessment of an animal management system for small-animal micro-CT / micro-SPECT imaging

    NASA Astrophysics Data System (ADS)

    Holdsworth, David W.; Detombe, Sarah A.; Chiodo, Chris; Fricke, Stanley T.; Drangova, Maria

    2011-03-01

    Advances in laboratory imaging systems for CT, SPECT, MRI, and PET facilitate routine micro-imaging during pre-clinical investigations. Challenges still arise when dealing with immune-compromised animals, biohazardous agents, and multi-modality imaging. These challenges can be overcome with an appropriate animal management system (AMS), with the capability for supporting and monitoring a rat or mouse during micro-imaging. We report the implementation and assessment of a new AMS system for mice (PRA-3000 / AHS-2750, ASI Instruments, Warren MI), designed to be compatible with a commercial micro-CT / micro-SPECT imaging system (eXplore speCZT, GE Healthcare, London ON). The AMS was assessed under the following criteria: 1) compatibility with the imaging system (i.e. artifact generation, geometric dimensions); 2) compatibility with live animals (i.e. positioning, temperature regulation, anesthetic supply); 3) monitoring capabilities (i.e. rectal temperature, respiratory and cardiac monitoring); 4) stability of co-registration; and 5) containment. Micro-CT scans performed using a standardized live-animal protocol (90 kVp, 40 mA, 900 views, 16 ms per view) exhibited low noise (+/-19 HU) and acceptable artifact from high-density components within the AMS (e.g. ECG pad contacts). Live mice were imaged repeatedly (with removal and replacement of the AMS) and spatial registration was found to be stable to within +/-0.07 mm. All animals tolerated enclosure within the AMS for extended periods (i.e. > one hour) without distress, based on continuous recordings of rectal temperature, ECG waveform and respiratory rate. A sealed AMS system extends the capability of a conventional micro-imaging system to include immune-compromised and biosafety level 2 mouse-imaging protocols.

  8. Dosimetry concepts for scanner quality assurance and tissue dose assessment in micro-CT

    SciTech Connect

    Hupfer, Martin; Kolditz, Daniel; Nowak, Tristan; Eisa, Fabian; Brauweiler, Robert; Kalender, Willi A.

    2012-02-15

    Purpose: At present, no established methods exist for dosimetry in micro computed tomography (micro-CT). The purpose of this study was therefore to investigate practical concepts for both dosimetric scanner quality assurance and tissue dose assessment for micro-CT. Methods: The computed tomography dose index (CTDI) was adapted to micro-CT and measurements of the CTDI both free in air and in the center of cylindrical polymethyl methacrylate (PMMA) phantoms of 20 and 32 mm diameter were performed in a 6 month interval with a 100 mm pencil ionization chamber calibrated for low tube voltages. For tissue dose assessment, z-profile measurements using thermoluminescence dosimeters (TLDs) were performed and both profile and CTDI measurements were compared to Monte Carlo (MC) dose calculations to validate an existing MC tool for use in micro-CT. The consistency of MC calculations and TLD measurements was further investigated in two mice cadavers. Results: CTDI was found to be a reproducible quantity for constancy tests on the micro-CT system under study, showing a linear dependence on tube voltage and being by definition proportional to mAs setting and z-collimation. The CTDI measured free in air showed larger systematic deviations after the 6 month interval compared to the CTDI measured in PMMA phantoms. MC calculations were found to match CTDI measurements within 3% when using x-ray spectra measured at our micro-CT installation and better than 10% when using x-ray spectra calculated from semi-empirical models. Visual inspection revealed good agreement for all z-profiles. The consistency of MC calculations and TLD measurements in mice was found to be better than 10% with a mean deviation of 4.5%. Conclusions: Our results show the CTDI implemented for micro-CT to be a promising candidate for dosimetric quality assurance measurements as it linearly reflects changes in tube voltage, mAs setting, and collimation used during the scan, encouraging further studies on a variety of

  9. Multiplying optical tweezers force using a micro-lever.

    PubMed

    Lin, Chih-Lang; Lee, Yi-Hsiung; Lin, Chin-Te; Liu, Yi-Jui; Hwang, Jiann-Lih; Chung, Tien-Tung; Baldeck, Patrice L

    2011-10-10

    This study presents a photo-driven micro-lever fabricated to multiply optical forces using the two-photon polymerization 3D-microfabrication technique. The micro-lever is a second class lever comprising an optical trapping sphere, a beam, and a pivot. A micro-spring is placed between the short and long arms to characterize the induced force. This design enables precise manipulation of the micro-lever by optical tweezers at the micron scale. Under optical dragging, the sphere placed on the lever beam moves, resulting in torque that induces related force on the spring. The optical force applied at the sphere is approximately 100 to 300 pN, with a laser power of 100 to 300 mW. In this study, the optical tweezers drives the micro-lever successfully. The relationship between the optical force and the spring constant can be determined by using the principle of leverage. The arm ratio design developed in this study multiplies the applied optical force by 9. The experimental results are in good agreement with the simulation of spring property.

  10. Integrating micro CT indices, CT imaging and computational modelling to assess the mechanical performance of fluoride treated bone.

    PubMed

    Sreenivasan, D; Watson, M; Callon, K; Dray, M; Das, R; Grey, A; Cornish, J; Fernandez, J

    2013-12-01

    In this study we evaluate the influence of low-dose fluoride treatment on 23 patient biopsies. Computational finite element (FE) models of each biopsy were subjected to a range of loads including compression, shear and torsion. The modelling framework was validated against three 3D printed models with known material properties subjected to compression till failure using an Instron machine. The primary outcomes from this study were that mechanical strength was not significantly correlated to low-dose (<10 mg/day) of fluoride levels (one-way ANOVA, P-values of 0.78, 0.69 and 0.62 for compression, shear and torsion, respectively). However, when bulk bone material properties were derived from DXA bone mineral density (BMD) from each patient's proximal femur a non-significant linear decline in mechanical strength with increase in fluoride was predicted. When the same material property was used for all bones (to evaluate bone architecture influence) then mechanical strength showed a characteristic concave upwards trend, consistent with the variation of micro CT derived percentage bone volume (BV/TV). The secondary outcomes from this study were that in compression, BV/TV was observed to be a strong surrogate measure for mechanical strength (R(2) = 0.83), while bone surface density (R(2)=0.6), trabecular thickness (R(2) = 0.5) and intersection surface (R(2) = 0.6) also explained the variation of mechanical strength well. However, trabecular separation and trabecular number were mildly correlated with mechanical strength (R(2) of 0.31 and 0.35, respectively). Compression was the loading mode most strongly correlated to micro CT indices. Material properties adapted from the proximal femur reduced the CT index correlations by up to 58% indicating that bulk density from a near proximity is a poor representation of specific localised density. Substituting the 3D micro CT indices with 2D histomorphometric data decreased correlations by at least 33% indicating that structural

  11. Single energy micro CT SkyScan 1173 for the characterization of urinary stone

    NASA Astrophysics Data System (ADS)

    Fitri, L. A.; Asyana, V.; Ridwan, T.; Anwary, F.; Soekersi, H.; Latief, F. D. E.; Haryanto, F.

    2016-08-01

    A urinary stone is a solid piece of material produced from crystallization of excreted substances in the urine. Knowledge of the composition of urinary stones is essential to determine the suitable treatment for the patient. The aim of this research was to characterize urinary stones using single energy micro CT SkyScan 1173. Six human urinary stones were scanned in vitro using 80 kV in micro CT SkyScan 1173. The produced projection, images, were reconstructed using NRecon (in-house software from SkyScan). The images of urinary stones were analyzed using CT Analyser (CT An) to obtain information of the internal structure and the Hounsfield Unit (HU) value to determine the information regarding the composition of the urinary stones, respectively. The average HU values from certain region of interests in the same slice were compared with spectral curves of known materials from National Institute of Standards and Technology (NIST). From the analysis, the composition of the six scanned stones were obtained. Two stones are composed of cystine, two are composed of struvite, two other stones are composed of struvite+cystine. In conclusion, the single energy micro CT with 80 kV can be used identifying cystine and struvite urinary stone.

  12. The impact of spectral filtration on image quality in micro-CT system.

    PubMed

    Ren, Liqiang; Ghani, Muhammad U; Wu, Di; Zheng, Bin; Chen, Yong; Yang, Kai; Wu, Xizeng; Liu, Hong

    2016-01-01

    This paper aims to evaluate the impact of spectral filtration on image quality in a microcomputed tomography (micro-CT) system. A mouse phantom comprising 11 rods for modeling lung, muscle, adipose, and bones was scanned with 17 s and 2 min, respectively. The current (μA) for each scan was adjusted to achieve identical entrance exposure to the phantom, providing a baseline for image quality evaluation. For each region of interest (ROI) within specific composition, CT number variations, noise levels, and contrast-to-noise ratios (CNRs) were evaluated from the reconstructed images. CT number variations and CNRs for bone with high density, muscle, and adipose were compared with theoretical predictions. The results show that the impact of spectral filtration on image quality indicators, such as CNR in a micro-CT system, is significantly associated with tissue characteristics. The findings may provide useful references for optimizing the scanning parameters of general micro-CT systems in future imaging applications. PACS numbers: 87.57.C-, 87.57.Q-, 87.64.kd.

  13. Efficient digitalization method for dental restorations using micro-CT data

    PubMed Central

    Kim, Changhwan; Baek, Seung Hoon; Lee, Taewon; Go, Jonggun; Kim, Sun Young; Cho, Seungryong

    2017-01-01

    The objective of this study was to demonstrate the feasibility of using micro-CT scan of dental impressions for fabricating dental restorations and to compare the dimensional accuracy of dental models generated from various methods. The key idea of the proposed protocol is that dental impression of patients can be accurately digitized by micro-CT scan and that one can make digital cast model from micro-CT data directly. As air regions of the micro-CT scan data of dental impression are equivalent to the real teeth and surrounding structures, one can segment the air regions and fabricate digital cast model in the STL format out of them. The proposed method was validated by a phantom study using a typodont with prepared teeth. Actual measurement and deviation map analysis were performed after acquiring digital cast models for each restoration methods. Comparisons of the milled restorations were also performed by placing them on the prepared teeth of typodont. The results demonstrated that an efficient fabrication of precise dental restoration is achievable by use of the proposed method. PMID:28294188

  14. A Novel Mouse Segmentation Method Based on Dynamic Contrast Enhanced Micro-CT Images

    PubMed Central

    Yan, Dongmei; Zhang, Zhihong; Luo, Qingming; Yang, Xiaoquan

    2017-01-01

    With the development of hybrid imaging scanners, micro-CT is widely used in locating abnormalities, studying drug metabolism, and providing structural priors to aid image reconstruction in functional imaging. Due to the low contrast of soft tissues, segmentation of soft tissue organs from mouse micro-CT images is a challenging problem. In this paper, we propose a mouse segmentation scheme based on dynamic contrast enhanced micro-CT images. With a homemade fast scanning micro-CT scanner, dynamic contrast enhanced images were acquired before and after injection of non-ionic iodinated contrast agents (iohexol). Then the feature vector of each voxel was extracted from the signal intensities at different time points. Based on these features, the heart, liver, spleen, lung, and kidney could be classified into different categories and extracted from separate categories by morphological processing. The bone structure was segmented using a thresholding method. Our method was validated on seven BALB/c mice using two different classifiers: a support vector machine classifier with a radial basis function kernel and a random forest classifier. The results were compared to manual segmentation, and the performance was assessed using the Dice similarity coefficient, false positive ratio, and false negative ratio. The results showed high accuracy with the Dice similarity coefficient ranging from 0.709 ± 0.078 for the spleen to 0.929 ± 0.006 for the kidney. PMID:28060917

  15. Efficient digitalization method for dental restorations using micro-CT data.

    PubMed

    Kim, Changhwan; Baek, Seung Hoon; Lee, Taewon; Go, Jonggun; Kim, Sun Young; Cho, Seungryong

    2017-03-15

    The objective of this study was to demonstrate the feasibility of using micro-CT scan of dental impressions for fabricating dental restorations and to compare the dimensional accuracy of dental models generated from various methods. The key idea of the proposed protocol is that dental impression of patients can be accurately digitized by micro-CT scan and that one can make digital cast model from micro-CT data directly. As air regions of the micro-CT scan data of dental impression are equivalent to the real teeth and surrounding structures, one can segment the air regions and fabricate digital cast model in the STL format out of them. The proposed method was validated by a phantom study using a typodont with prepared teeth. Actual measurement and deviation map analysis were performed after acquiring digital cast models for each restoration methods. Comparisons of the milled restorations were also performed by placing them on the prepared teeth of typodont. The results demonstrated that an efficient fabrication of precise dental restoration is achievable by use of the proposed method.

  16. Direct micro-CT observation confirms the induction of embolism upon xylem cutting under tension

    USDA-ARS?s Scientific Manuscript database

    We used two different Synchrotron-based micro-CT facilities (SLS: Swiss Light Source, Villigen, Switzerland, and ALS: Advanced Light Source, Berkeley, CA USA) to test the excision artifact described by Wheeler et al. (2013). Specifically, we examined the impact of cutting xylem under tension and und...

  17. Novel approach for quantification of porosity for biomaterial implants using microcomputed tomography (microCT).

    PubMed

    Hiu-Yan, Yeung; Ling, Qin; Kwong-Man, Lee; Ming, Zhang; Kwok-Sui, Leung; Chun-yiu, Cheng Jack

    2005-11-01

    Porous bioceramics have been widely investigated in orthopaedic tissue engineering. Attention has been given to manufacturing of a porous bioceramic that mimics the trabecular bone structure for proper bone regeneration. With the advance of biomedical imaging through microcomputed tomography (microCT), this study attempted to quantify the pore structure of different bioceramics. Two bioceramic blocks (BSC and ChronOS) were synthesized by two methods. The specification claimed the porosity of the bioceramic ranged from 40% to 70%. Six blocks of each bioceramic were evaluated by conventional water immersion method and microCT. The pore size and connectivity were evaluated with standardized protocols. By the water immersion method, the porosity of BSC and ChronOS was 60.4% and 74.7%, respectively. The three-dimensional results of microCT showed that BSC porosity was 26.2% and ChronOS was 60.0%. The pore connectivity was evaluated to be 2.6 for BSC and 39.7 for ChronOS. ChronOS had functional pores with 200 microm to 400 microm in diameter (87.8%+/-0.5%), which is significantly more than 52.8%+/-11.5% of pores in BSC (p<0.05). Providing information on the functional pores objectively, the microCT evaluation serves as a good standard for specification of the bioceramic-related implants. Copyright (c) 2005 Wiley Periodicals, Inc.

  18. Three-dimensional murine airway segmentation in micro-CT images

    NASA Astrophysics Data System (ADS)

    Shi, Lijun; Thiesse, Jacqueline; McLennan, Geoffrey; Hoffman, Eric A.; Reinhardt, Joseph M.

    2007-03-01

    Thoracic imaging for small animals has emerged as an important tool for monitoring pulmonary disease progression and therapy response in genetically engineered animals. Micro-CT is becoming the standard thoracic imaging modality in small animal imaging because it can produce high-resolution images of the lung parenchyma, vasculature, and airways. Segmentation, measurement, and visualization of the airway tree is an important step in pulmonary image analysis. However, manual analysis of the airway tree in micro-CT images can be extremely time-consuming since a typical dataset is usually on the order of several gigabytes in size. Automated and semi-automated tools for micro-CT airway analysis are desirable. In this paper, we propose an automatic airway segmentation method for in vivo micro-CT images of the murine lung and validate our method by comparing the automatic results to manual tracing. Our method is based primarily on grayscale morphology. The results show good visual matches between manually segmented and automatically segmented trees. The average true positive volume fraction compared to manual analysis is 91.61%. The overall runtime for the automatic method is on the order of 30 minutes per volume compared to several hours to a few days for manual analysis.

  19. A hybrid registration-based method for whole-body micro-CT mice images.

    PubMed

    Qu, Xiaochao; Gao, Xueyuan; Xu, Xianhui; Zhu, Shouping; Liang, Jimin

    2016-07-01

    The widespread use of whole-body small animal in vivo imaging in preclinical research has proposed the new demands on imaging processing and analysis. Micro-CT provides detailed anatomical structural information for continuous detection and different individual comparison, but the body deformation happened during different data acquisition needs sophisticated registration. In this paper, we propose a hybrid method for registering micro-CT mice images, which combines the strengths of point-based and intensity-based registration methods. Point-based non-rigid method using thin-plate spline robust point matching algorithm is utilized to acquire a coarse registration. And then intensity-based non-rigid method using normalized mutual information, Halton sampling and adaptive stochastic gradient descent optimization is used to acquire precise registration. Two accuracy metrics, Dice coefficient and average surface distance are used to do the quantitative evaluation. With the intra- and intersubject micro-CT mice images registration assessment, the hybrid method has been proven capable of excellent performance on micro-CT mice images registration.

  20. Investigation of pathogen infiltration into produce using Xradia Bio MicroCT

    USDA-ARS?s Scientific Manuscript database

    The internalization of human pathogens into plant tissues has received significant attention. Human pathogens can infiltrate plant tissue through stomata, cut edges, wounds on produce, or the plant vascular system. The nondestructive X-ray computed microtomography (MicroCT) technique is an X-ra...

  1. Efficient digitalization method for dental restorations using micro-CT data

    NASA Astrophysics Data System (ADS)

    Kim, Changhwan; Baek, Seung Hoon; Lee, Taewon; Go, Jonggun; Kim, Sun Young; Cho, Seungryong

    2017-03-01

    The objective of this study was to demonstrate the feasibility of using micro-CT scan of dental impressions for fabricating dental restorations and to compare the dimensional accuracy of dental models generated from various methods. The key idea of the proposed protocol is that dental impression of patients can be accurately digitized by micro-CT scan and that one can make digital cast model from micro-CT data directly. As air regions of the micro-CT scan data of dental impression are equivalent to the real teeth and surrounding structures, one can segment the air regions and fabricate digital cast model in the STL format out of them. The proposed method was validated by a phantom study using a typodont with prepared teeth. Actual measurement and deviation map analysis were performed after acquiring digital cast models for each restoration methods. Comparisons of the milled restorations were also performed by placing them on the prepared teeth of typodont. The results demonstrated that an efficient fabrication of precise dental restoration is achievable by use of the proposed method.

  2. EXD HME MicroCT Data Acquisition, Processing and Data Request Overview

    SciTech Connect

    Seetho, Isaac M.; Brown, William D.; Martz, Jr., Harry E.

    2016-12-06

    This document is a short summary of the steps required for MicroCT evaluation of a specimen. This includes data acquisition through image analysis, for the EXD HME program. Expected outputs for each stage are provided. Data shall be shipped to LLNL as described herein.

  3. Large volume reconstruction from laser scanning microscopy using micro-CT as a template for deformation compensation

    NASA Astrophysics Data System (ADS)

    Subramanian, A.; Krol, A.; Poddar, A. H.; Price, R. L.; Swarnkar, R.; Feiglin, D. H.

    2007-03-01

    In biomedical research, there is an increased need for reconstruction of large soft tissue volumes (e.g. whole organs) at the microscopic scale from images obtained using laser scanning microscopy (LSM) with fluorescent dyes targeting selected cellular features. However, LSM allows reconstruction of volumes not exceeding a few hundred ım in size and most LSM procedures require physical sectioning of soft tissue resulting in tissue deformation. Micro-CTCT) can provide deformation free tomographic image of the whole tissue volume before sectioning. Even though, the spatial resolution of μCT is around 5 μm and its contrast resolution is poor, it could provide information on external and internal interfaces of the investigated volume and therefore could be used as a template in the volume reconstruction from a very large number of LSM images. Here we present a method for accurate 3D reconstruction of the murine heart from large number of images obtained using confocal LSM. The volume is reconstructed in the following steps: (i) Montage synthesis of individual LSM images to form a set of aligned optical planes within given physical section; (ii) Image enhancement and segmentation to correct for non-uniform illumination and noise; (iii) Volume matching of a synthesized physical section to a corresponding sub-volume of μCT (iv) Affine registration of the physical section to the selected μCT sub-volume. We observe correct gross alignment of the physical sections. However, many sections still exhibit local misalignment that could be only corrected via local nonrigid registration to μCT template and we plan to do it in the future.

  4. Experimental validation of a rapid Monte Carlo based micro-CT simulator

    NASA Astrophysics Data System (ADS)

    Colijn, A. P.; Zbijewski, W.; Sasov, A.; Beekman, F. J.

    2004-09-01

    We describe a newly developed, accelerated Monte Carlo simulator of a small animal micro-CT scanner. Transmission measurements using aluminium slabs are employed to estimate the spectrum of the x-ray source. The simulator incorporating this spectrum is validated with micro-CT scans of physical water phantoms of various diameters, some containing stainless steel and Teflon rods. Good agreement is found between simulated and real data: normalized error of simulated projections, as compared to the real ones, is typically smaller than 0.05. Also the reconstructions obtained from simulated and real data are found to be similar. Thereafter, effects of scatter are studied using a voxelized software phantom representing a rat body. It is shown that the scatter fraction can reach tens of per cents in specific areas of the body and therefore scatter can significantly affect quantitative accuracy in small animal CT imaging.

  5. Micro-taper as focusing or scattering optical element

    SciTech Connect

    Degtyarev, S. A. Ustinov, A. V. Khonina, S. N.

    2016-04-13

    We consider micro-taper (narrow refractive axicon) as optical element which is focusing or scattering in dependence on axicon’s cone angle. The diffraction of laser beam by micro-taper is simulated by two methods: multiply internal ray reflections using geometrical approach and Helmholtz equation solving using finite elements method. Based on ray optics we derive analytic formulas for conical angles values which provide focusing or scattering features of micro-taper. Numerical simulation by finite elements method verifies theoretical results.

  6. 4D micro-CT for cardiac and perfusion applications with view under sampling

    NASA Astrophysics Data System (ADS)

    Badea, Cristian T.; Johnston, Samuel M.; Qi, Yi; Johnson, G. Allan

    2011-06-01

    Micro-CT is commonly used in preclinical studies to provide anatomical information. There is growing interest in obtaining functional measurements from 4D micro-CT. We report here strategies for 4D micro-CT with a focus on two applications: (i) cardiac imaging based on retrospective gating and (ii) pulmonary perfusion using multiple contrast injections/rotations paradigm. A dual source micro-CT system is used for image acquisition with a sampling rate of 20 projections per second. The cardiac micro-CT protocol involves the use of a liposomal blood pool contrast agent. Fast scanning of free breathing mice is achieved using retrospective gating. The ECG and respiratory signals are used to sort projections into ten cardiac phases. The pulmonary perfusion protocol uses a conventional contrast agent (Isovue 370) delivered by a micro-injector in four injections separated by 2 min intervals to allow for clearance. Each injection is synchronized with the rotation of the animal, and each of the four rotations is started with an angular offset of 22.5 from the starting angle of the previous rotation. Both cardiac and perfusion protocols result in an irregular angular distribution of projections that causes significant streaking artifacts in reconstructions when using traditional filtered backprojection (FBP) algorithms. The reconstruction involves the use of the point spread function of the micro-CT system for each time point, and the analysis of the distribution of the reconstructed data in the Fourier domain. This enables us to correct for angular inconsistencies via deconvolution and identify regions where data is missing. The missing regions are filled with data from a high quality but temporally averaged prior image reconstructed with all available projections. Simulations indicate that deconvolution successfully removes the streaking artifacts while preserving temporal information. 4D cardiac micro-CT in a mouse was performed with adequate image quality at isotropic

  7. Selective deblurring for improved calcification visualization and quantification in carotid CT angiography: validation using micro-CT.

    PubMed

    Rollano-Hijarrubia, Empar; Manniesing, Rashindra; Niessen, Wiro J

    2009-03-01

    Visualization and quantification of small structures with computed tomography (CT) is hampered by the limited spatial resolution of the system. Histogram-based selective deblurring (HiSD) is a deconvolution method that restores small high-density structures, i.e., calcifications, of a CT image, using the high-intensity voxel information of the deconvolved image, while preserving the original hounsfield Units (HUs) in the remaining tissues. In this study, high resolution micro-CT data are used to validate the potential of HiSD to improve calcium visualization and quantification in the carotid arteries on in vivo contrast-enhanced CTA data. The evaluation is performed qualitatively and quantitatively on 15 atherosclerotic plaques obtained from ten different patients. HiSD in combination with vessel segmentation significantly improves calcification visualization and quantification on in vivo contrast-enhanced CT images. Calcification blur is reduced, while avoiding noise amplification and edge-ringing artifacts in the surrounding tissues. Calcification quantification errors are reduced by 23.5% on average.

  8. MicroPET/CT Colonoscopy in long-lived Min mouse using NM404

    NASA Astrophysics Data System (ADS)

    Christensen, Matthew B.; Halberg, Richard B.; Schutten, Melissa M.; Weichert, Jamey P.

    2009-02-01

    Colon cancer is a leading cause of death in the US, even though many cases are preventable if tumors are detected early. One technique to promote screening is Computed Tomography Colonography (CTC). NM404 is a second generation phospholipid ether analogue which has demonstrated selective uptake and prolonged retention in 43/43 types of malignant tumors but not inflammatory sites or premalignant lesions. The purpose of this experiment was to evaluate (SWR x B6 )F1.Min mice as a preclinical model to test MicroPET/CT dual modality virtual colonoscopy. Each animal was given an IV injection of 124I-NM404 (100 uCi) 24, 48 and 96 hours prior to scanning on a dedicated microPET/CT system. Forty million counts were histogrammed in 3D and reconstructed using an OSEM 2D algorithm. Immediately after PET acquisition, a 93 m volumetric CT was acquired at 80 kVp, 800 uA and 350 ms exposures. Following CT, the mouse was sacrificed. The entire intestinal tract was excised, washed, insufflated, and scanned ex vivo A total of eight tissue samples from the small intestine were harvested: 5 were benign adenomas, 2 were malignant adenocarcinomas, and 1 was a Peyer's patch (lymph tissue) . The sites of these samples were positioned on CT and PET images based on morphological cues and the distance from the anus. Only 1/8 samples showed tracer uptake. several hot spots in the microPET image were not chosen for histology. (SWR x B6)F1.Min mice develop benign and malignant tumors, making this animal model a strong candidate for future dual modality microPET/CT virtual colonography studies.

  9. High-resolution imaging of murine myocardial infarction with delayed-enhancement cine micro-CT.

    PubMed

    Nahrendorf, Matthias; Badea, Cristian; Hedlund, Laurence W; Figueiredo, Jose-Luiz; Sosnovik, David E; Johnson, G Allan; Weissleder, Ralph

    2007-06-01

    The objective of this study was to determine the feasibility of delayed-enhancement micro-computed tomography (microCT) imaging to quantify myocardial infarct size in experimental mouse models. A total of 20 mice were imaged 5 or 35 days after surgical ligation of the left coronary artery or sham surgery (n=6 or 7 per group). We utilized a prototype microCT that covers a three-dimensional (3D) volume with an isotropic spatial resolution of 100 microm. A series of image acquisitions were started after a 200 microl bolus of a high-molecular-weight blood pool CT agent to outline the ventricles. CT imaging was continuously performed over 60 min, while an intravenous constant infusion with iopamidol 370 was started at a dosage of 1 ml/h. Thirty minutes after the initiation of this infusion, signal intensity in Hounsfield units was significantly higher in the infarct than in the remote, uninjured myocardium. Cardiac morphology and motion were visualized with excellent contrast and in fine detail. In vivo CT determination of infarct size at the midventricular level was in good agreement with ex vivo staining with triphenyltetrazolium chloride [5 days post-myocardial infarction (MI): r(2)=0.86, P<0.01; 35 days post-MI: r(2)=0.92, P<0.01]. In addition, we detected significant left ventricular remodeling consisting of left ventricular dilation and decreased ejection fraction. 3D cine microCT reliably and rapidly quantifies infarct size and assesses murine anatomy and physiology after coronary ligation, despite the small size and fast movement of the mouse heart. This efficient imaging tool is a valuable addition to the current phenotyping armamentarium and will allow rapid testing of novel drugs and cell-based interventions in murine models.

  10. Micro-assembly using optically controlled bubble microrobots

    NASA Astrophysics Data System (ADS)

    Hu, Wenqi; Ishii, Kelly S.; Ohta, Aaron T.

    2011-08-01

    Bubbles controlled by optically induced heating were made to function as novel microrobots for micromanipulation and micro-assembly. Using light patterns generated by a commercial computer projector, bubble microrobots were controlled and used to manipulate glass microbeads and perform the micro-assembly of micro-blocks and cell-encapsulating hydrogel beads. Two manipulation modes, pulling and pushing, were used to move micro-objects into place and manipulate glass beads with a velocity of up to 350 μm/s. The simultaneous independent control of three bubble robots was also demonstrated.

  11. Micro-CT of Carotid Arteries: A Tool for Experimental Studies

    SciTech Connect

    Mohr, Andreas; Wenke, Ruediger; Roemer, Frank W.; Lynch, John A.; Gatzka, Christian; Priebe, Markus; Guermazi, Ali; Grigorian, Mikayel; Heller, Martin; Mueller-Huelsbeck, Stefan

    2004-11-15

    Micro-computed tomography (micro-CT) is a high-resolution, nondestructive tool for two- and three-dimensional imaging and quantification. The ability of this technique to assess atherosclerosis of the carotid artery was evaluated in three human cadaver samples based on the original axial acquisitions, multiplanar reconstructions and volume rendering techniques. Quantitative analysis included the calculation of: (1) the original lumen perimeter, original lumen area, plaque area, residual lumen area, calcified area and gross sectional area reduction of the vascular lumen from two-dimensional slices; (2) the total tissue volume, soft tissue volume and calcified tissue volume from the three-dimensional data set. This preliminary study demonstrates the potential of micro-CT as a supplementary method for the two- and three-dimensional ex vivo evaluation of carotid atherosclerosis.

  12. Scanning multiple samples simultaneously in tube-based microCT systems

    NASA Astrophysics Data System (ADS)

    Stock, S. R.; Rajamannan, N. M.; Spelsberg, T. C.; Malayannan, S.; Riaz, R.; Polavarapu, M.; Hsu, E. L.; Hsu, W., K.; Chen, Yan; Zhang, Ming

    2010-09-01

    The world-wide explosion of commercial microComputed Tomography (microCT) system emplacement has led to dayin, day-out access to laboratory scanners. Most biologically-oriented microCT facilities must characterize large numbers of samples rapidly at moderate spatial resolution (e.g., 10-20 μm isotropic volume elements, voxels). Scanning multiple specimens simultaneously is one efficient solution. Sample positioning is critical if the region of interest of each specimen is to be imaged without increasing the number of slices recorded (i.e., data acquisition and reconstruction times). Three very different, multiple sample data acquisitions are reported: mouse heart tissue calcification, rat spinal fusion and mouse tibial bone cancer models

  13. Processing of microCT implant-bone systems images using Fuzzy Mathematical Morphology

    NASA Astrophysics Data System (ADS)

    Bouchet, A.; Colabella, L.; Omar, S.; Ballarre, J.; Pastore, J.

    2016-04-01

    The relationship between a metallic implant and the existing bone in a surgical permanent prosthesis is of great importance since the fixation and osseointegration of the system leads to the failure or success of the surgery. Micro Computed Tomography is a technique that helps to visualize the structure of the bone. In this study, the microCT is used to analyze implant-bone systems images. However, one of the problems presented in the reconstruction of these images is the effect of the iron based implants, with a halo or fluorescence scattering distorting the micro CT image and leading to bad 3D reconstructions. In this work we introduce an automatic method for eliminate the effect of AISI 316L iron materials in the implant-bone system based on the application of Compensatory Fuzzy Mathematical Morphology for future investigate about the structural and mechanical properties of bone and cancellous materials.

  14. A material decomposition method for dual energy micro-CT

    NASA Astrophysics Data System (ADS)

    Johnston, S. M.; Johnson, G. A.; Badea, C. T.

    2009-02-01

    The attenuation of x-rays in matter is dependent on the energy of the x-rays and the atomic composition of the matter. Attenuation measurements at multiple x-ray energies can be used to improve the identification of materials. We present a method to estimate the fractional composition of three materials in an object from x-ray CT measurements at two different energies. The energies can be collected from measurements from a single source-detector system at two points in time, or from a dual source-detector system at one point in time. This method sets up a linear system of equations from the measurements and finds the solution through a geometric construction of the inverse matrix equation. This method enables the estimation of the blood fraction within a region of living tissue in which blood containing an iodinated contrast agent is mixed with two other materials. We verified this method using x-ray CT simulations implemented in MATLAB, investigated the parameters needed to optimize the estimation, and then applied the method to a mouse model of lung cancer. A direct application of this method is the estimation of blood fraction in lung tumors in preclinical studies. This work was performed at the Duke Center for In Vivo Microscopy, an NCRR/NCI National Resource (P41 RR005959/U24 CA092656), and also supported by NCI R21 CA124584.

  15. Verification of computed tomographic estimates of cochlear implant array position: a micro-CT and histologic analysis.

    PubMed

    Teymouri, Jessica; Hullar, Timothy E; Holden, Timothy A; Chole, Richard A

    2011-08-01

    To determine the efficacy of clinical computed tomographic (CT) imaging to verify postoperative electrode array placement in cochlear implant (CI) patients. Nine fresh cadaver heads underwent clinical CT scanning, followed by bilateral CI insertion and postoperative clinical CT scanning. Temporal bones were removed, trimmed, and scanned using micro-CT. Specimens were then dehydrated, embedded in either methyl methacrylate or LR White resin, and sectioned with a diamond wafering saw. Histology sections were examined by 3 blinded observers to determine the position of individual electrodes relative to soft tissue structures within the cochlea. Electrodes were judged to be within the scala tympani, scala vestibuli, or in an intermediate position between scalae. The position of the array could be estimated accurately from clinical CT scans in all specimens using micro-CT and histology as a criterion standard. Verification using micro-CT yielded 97% agreement, and histologic analysis revealed 95% agreement with clinical CT results. A composite, 3-dimensional image derived from a patient's preoperative and postoperative CT images using a clinical scanner accurately estimates the position of the electrode array as determined by micro-CT imaging and histologic analyses. Information obtained using the CT method provides valuable insight into numerous variables of interest to patient performance such as surgical technique, array design, and processor programming and troubleshooting.

  16. Verification of Computed Tomographic Estimates of Cochlear Implant Array Position: A Micro-CT and Histological Analysis

    PubMed Central

    Teymouri, Jessica; Hullar, Timothy E.; Holden, Timothy A.; Chole, Richard A.

    2011-01-01

    Objective To determine the efficacy of clinical computed tomography (CT) imaging to verify post-operative electrode array placement in cochlear implant (CI) patients. Study Design Nine fresh cadaver heads underwent clinical CT scanning, followed by bilateral cochlear implant insertion and post-operative clinical CT scanning. Temporal bones were removed, trimmed, and scanned using microCT. Specimens were then dehydrated, embedded in either methyl methacrylate or LR White resin, and sectioned with a diamond wafering saw. Histology sections were examined by three blinded observers to determine the position of individual electrodes relative to soft tissue structures within the cochlea. Electrodes were judged to be within the scala tympani, scala vestibuli, or in an intermediate position between scalae. Results The position of the array could be estimated accurately from clinical CT scans in all specimens using microCT and histology as a gold standard. Verification utilizing microCT yielded 97% agreement, and histological analysis revealed 95% agreement with clinical CT results. Conclusions A composite, three-dimensional image derived from a patient’s pre- and post-operative CT images using a clinical scanner accurately estimates the position of the electrode array as determined by microCT imaging and histological analyses. Information obtained using the CT method provides valuable insight into numerous variables of interest to patient performance such as surgical technique, array design, and processor programming and trouble-shooting. PMID:21725264

  17. Identification of New Lithic Clasts in Lunar Breccia 14305 by Micro-CT and Micro-XRF Analysis

    NASA Technical Reports Server (NTRS)

    Zeigler, Ryan A.; Carpenter, Paul K.; Jolliff, Bradley L.

    2014-01-01

    From 1969 to 1972, Apollo astronauts collected 382 kg of rocks, soils, and core samples from six locations on the surface of the Moon. The samples were initially characterized, largely by binocular examination, in a custom-built facility at Johnson Space Center (JSC), and the samples have been curated at JSC ever since. Despite over 40 years of study, demand for samples remains high (500 subsamples per year are allocated to scientists around the world), particularly for plutonic (e.g., anorthosites, norites, etc.) and evolved (e.g., granites, KREEP basalts) lithologies. The reason for the prolonged interest is that as new scientists and new techniques examine the samples, our understanding of how the Moon, Earth, and other inner Solar System bodies formed and evolved continues to grow. Scientists continually clamor for new samples to test their emerging hypotheses. Although all of the large Apollo samples that are igneous rocks have been classified, many Apollo samples are complex polymict breccias that have previously yielded large (cm-sized) igneous clasts. In this work we present the initial efforts to use the non-destructive techniques of micro-computed tomography (micro-CT) and micro x-ray fluorescence (micro-XRF) to identify large lithic clasts in Apollo 14 polymict breccia sample 14305. The sample in this study is 14305,483, a 150 g slab of regolith breccia 14305 measuring 10x6x2 cm (Figure 1a). The sample was scanned at the University of Texas High-Resolution X-ray CT Facility on an Xradia MicroXCT scanner. Two adjacent overlapping volumes were acquired at 49.2 micrometer resolution and stitched together, resulting in 1766 slices. Each volume was acquired at 100 kV accelerating voltage and 98 mA beam current with a 1 mm CaF2 filter, with 2161 views gathered over 360deg at 3 seconds acquisition time per view. Micro-XRF analyses were done at Washington University in St. Louis, Missouri on an EDAX Orbis PC micro-XRF instrument. Multiple scans were made at 40 k

  18. MEMS: A new approach to micro-optics

    SciTech Connect

    Sniegowski, J.J.

    1997-12-31

    MicroElectroMechanical Systems (MEMS) and their fabrication technologies provide great opportunities for application to micro-optical systems (MOEMS). Implementing MOEMS technology ranges from simple, passive components to complicated, active systems. Here, an overview of polysilicon surface micromachining MEMS combined with optics is presented. Recent advancements to the technology, which may enhance its appeal for micro-optics applications are emphasized. Of all the MEMS fabrication technologies, polysilicon surface micromachining technology has the greatest basis in and leverages the most the infrastructure for silicon integrated circuit fabrication. In that respect, it provides the potential for very large volume, inexpensive production of MOEMS. This paper highlights polysilicon surface micromachining technology in regards to its capability to provide both passive and active mechanical elements with quality optical elements.

  19. Challenging micro-optical applications demand diverse manufacturing solutions

    NASA Astrophysics Data System (ADS)

    Borek, Gregg; Weissbrodt, Peter; Schrenk, Manfred; Cumme, Matthias

    2007-02-01

    Many manufacturing techniques have been developed and implemented to fabricate a wide range of micro-optical products. The challenges of the micro-optics business are diverse and tend to resist a widely accepted manufacturing process such as has been implemented for CMOS fabrication. Many of the challenges that have been addressed with various solutions include optical waveband of operation from DUV through LWIR, material systems, cost of manufacturing for the intended application space, feature sizes based on device functionality, and fabrication technology based on the manufacturing volume. Some of the technologies to be discussed include device patterning by e-beam lithography, optical lithography, direct CNC machining and micro-polishing, and plastic replication.

  20. MicroCT and microMRI imaging of a prenatal mouse model of increased brain size

    NASA Astrophysics Data System (ADS)

    López, Elisabeth K. N.; Stock, Stuart R.; Taketo, Makoto M.; Chenn, Anjen; Ravosa, Matthew J.

    2008-08-01

    There are surprisingly few experimental models of neural growth and cranial integration. This and the dearth of information regarding fetal brain development detract from a mechanistic understanding of cranial integration and its relevance to the patterning of skull form, specifically the role of encephalization on basicranial flexion. To address this shortcoming, our research uses transgenic mice expressing a stabilized form of β-catenin to isolate the effects of relative brain size on craniofacial development. These mice develop highly enlarged brains due to an increase in neural precursors, and differences between transgenic and wild-type mice are predicted to result solely from variation in brain size. Comparisons of wild-type and transgenic mice at several prenatal ages were performed using microCT (Scanco Medical MicroCT 40) and microMRI (Avance 600 WB MR spectrometer). Statistical analyses show that the larger brain of the transgenic mice is associated with a larger neurocranium and an altered basicranial morphology. However, body size and postcranial ossification do not seem to be affected by the transgene. Comparisons of the rate of postcranial and cranial ossification using microCT also point to an unexpected effect of neural growth on skull development: increased fetal encephalization may result in a compensatory decrease in the level of cranial ossification. Therefore, if other life history factors are held constant, the ontogeny of a metabolically costly structure such as a brain may occur at the expense of other cranial structures. These analyses indicate the benefits of a multifactorial approach to cranial integration using a mouse model.

  1. Micro- and Nanotechnologies for Optical Neural Interfaces

    PubMed Central

    Pisanello, Ferruccio; Sileo, Leonardo; De Vittorio, Massimo

    2016-01-01

    In last decade, the possibility to optically interface with the mammalian brain in vivo has allowed unprecedented investigation of functional connectivity of neural circuitry. Together with new genetic and molecular techniques to optically trigger and monitor neural activity, a new generation of optical neural interfaces is being developed, mainly thanks to the exploitation of both bottom-up and top-down nanofabrication approaches. This review highlights the role of nanotechnologies for optical neural interfaces, with particular emphasis on new devices and methodologies for optogenetic control of neural activity and unconventional methods for detection and triggering of action potentials using optically-active colloidal nanoparticles. PMID:27013939

  2. Grinding aspheric and freeform micro-optical molds

    NASA Astrophysics Data System (ADS)

    Tohme, Yazid E.

    2007-02-01

    Fueled by the need for better performing optics, glass optics are now replacing plastic optics in many industrial and consumer electronic devices. One of these devices is the mobile phone camera. The optical sub-assembly in a mobile phone includes several micro lenses that are spherical and/or aspherical in shape and require form tolerances in the submicron range. These micro glass lenses are mass produced by a replication process known as glass press molding. The process entails the compression of a glass gob between two precise optical quality molds at an elevated temperature, usually near the transition temperature of the glass material. The elevated forces and temperatures required in the glass molding process limits the materials of the molds to very tough materials such as tungsten carbide or silicon carbide. These materials can withstand large pressing forces at high temperatures without any significant deformation. These materials offer great mechanical properties for glass press molding but they are also a challenge to machine to submicron accuracy. The work in this paper discusses a deterministic micro grinding manufacturing process referred to as wheel normal grinding, which is utilized to produce these optical quality molds. Wheel normal grinding is more accurate and more deterministic than most other grinding techniques and can produce molds to the form and finish tolerances required for optical molding. This method relies on the ability to recognize and compensate for grinding wheel wear and machine repeatable errors. Results will be presented to illustrate the accuracy of this micro grinding technique.

  3. Improved Hyperthermia Treatment of Tumors Under Consideration of Magnetic Nanoparticle Distribution Using Micro-CT Imaging.

    PubMed

    Dähring, H; Grandke, J; Teichgräber, U; Hilger, I

    2015-12-01

    Heterogeneous magnetic nanoparticle (MNP) distributions within tumors can cause regions of temperature under dosage and reduce the therapeutic efficiency. Here, micro-computed tomography (CT) imaging was used as a tool to determine the MNP distribution in vivo. The therapeutic success was evaluated based on tumor volume and temperature distribution. Tumor-bearing mice were intratumorally injected with iron oxide particles. MNP distribution was assessed by micro-CT with a low radiation dose protocol. MNPs were clearly visible, and the exact distribution to nontumor structures was detected by micro-CT. Knowledge of the intratumoral MNP distribution allowed the generation of higher temperatures within the tumor and led to higher temperature values after exposure to an alternating magnetic field (AMF). Consequently, the tumor size after 28 days was reduced to 14 and 73 % of the initial tumor volume for the MNP/AMF/CT and MNP/AMF groups, respectively. The MNP distribution pattern mainly governed the generated temperature spots in the tumor. Knowing the MNP distribution enabled individualized hyperthermia treatment and improved the overall therapeutic efficiency.

  4. Optical assembly of bio-hybrid micro-robots.

    PubMed

    Barroso, Álvaro; Landwerth, Shirin; Woerdemann, Mike; Alpmann, Christina; Buscher, Tim; Becker, Maike; Studer, Armido; Denz, Cornelia

    2015-04-01

    The combination of micro synthetic structures with bacterial flagella motors represents an actual trend for the construction of self-propelled micro-robots. The development of methods for fabrication of these bacteria-based robots is a first crucial step towards the realization of functional miniature and autonomous moving robots. We present a novel scheme based on optical trapping to fabricate living micro-robots. By using holographic optical tweezers that allow three-dimensional manipulation in real time, we are able to arrange the building blocks that constitute the micro-robot in a defined way. We demonstrate exemplarily that our method enables the controlled assembly of living micro-robots consisting of a rod-shaped prokaryotic bacterium and a single elongated zeolite L crystal, which are used as model of the biological and abiotic components, respectively. We present different proof-of-principle approaches for the site-selective attachment of the bacteria on the particle surface. The propulsion of the optically assembled micro-robot demonstrates the potential of the proposed method as a powerful strategy for the fabrication of bio-hybrid micro-robots.

  5. Eye vision system using programmable micro-optics and micro-electronics

    NASA Astrophysics Data System (ADS)

    Riza, Nabeel A.; Amin, M. Junaid; Riza, Mehdi N.

    2014-02-01

    Proposed is a novel eye vision system that combines the use of advanced micro-optic and microelectronic technologies that includes programmable micro-optic devices, pico-projectors, Radio Frequency (RF) and optical wireless communication and control links, energy harvesting and storage devices and remote wireless energy transfer capabilities. This portable light weight system can measure eye refractive powers, optimize light conditions for the eye under test, conduct color-blindness tests, and implement eye strain relief and eye muscle exercises via time sequenced imaging. Described is the basic design of the proposed system and its first stage system experimental results for vision spherical lens refractive error correction.

  6. Soft Tissue Morphometry of the Malleus–Incus Complex from Micro-CT Imaging

    PubMed Central

    Sim, Jae Hoon

    2008-01-01

    The malleus–incus complex (MIC) is unique to mammalian hearing. To develop a comprehensive biomechanical MIC model for the human middle ear, measurements regarding its anatomical features are a necessity. Micro-scale X-ray computed tomography (micro-CT) imaging, which is known to be a suitable method for imaging high-density tissue such as middle-ear ossicles and surrounding bones, is used in this study to determine the three-dimensional (3-D) morphometry of the soft tissue attachments of the MIC. The MIC morphometry is based on their 3-D reconstruction from micro-CT image slices with resolutions ranging from 10 to 20 μm. The suspensory ligament and tendon attachments of the malleus and the incus as well as the incudomalleal joint (IMJ), are quantified in terms of dimensions, positions, and orientations for four human cadaver temporal bones. The malleus principal frame, the incus principal frame, and the MIC principle frame are calculated and the morphometry is reported in relation to each of these frames for the first time. The resulting values show significant variation across ear samples, suggesting that models of the MIC should be based on individual anatomy. The IMJ morphometry dimensions appear to be proportional to the ossicular mass. The micro-CT imaging modality is a nondestructive and relatively fast method for obtaining soft tissue morphometry and provides accurate anatomical features in relation to the principal axes of bones. PMID:18311579

  7. 4D micro-CT-based perfusion imaging in small animals

    NASA Astrophysics Data System (ADS)

    Badea, C. T.; Johnston, S. M.; Lin, M.; Hedlund, L. W.; Johnson, G. A.

    2009-02-01

    Quantitative in-vivo imaging of lung perfusion in rodents can provide critical information for preclinical studies. However, the combined challenges of high temporal and spatial resolution have made routine quantitative perfusion imaging difficult in rodents. We have recently developed a dual tube/detector micro-CT scanner that is well suited to capture first-pass kinetics of a bolus of contrast agent used to compute perfusion information. Our approach is based on the paradigm that the same time density curves can be reproduced in a number of consecutive, small (i.e. 50μL) injections of iodinated contrast agent at a series of different angles. This reproducibility is ensured by the high-level integration of the imaging components of our system, with a micro-injector, a mechanical ventilator, and monitoring applications. Sampling is controlled through a biological pulse sequence implemented in LabVIEW. Image reconstruction is based on a simultaneous algebraic reconstruction technique implemented on a GPU. The capabilities of 4D micro-CT imaging are demonstrated in studies on lung perfusion in rats. We report 4D micro-CT imaging in the rat lung with a heartbeat temporal resolution of 140 ms and reconstructed voxels of 88 μm. The approach can be readily extended to a wide range of important preclinical models, such as tumor perfusion and angiogenesis, and renal function.

  8. Quantitative topographic anatomy of the femoral ACL footprint: a micro-CT analysis.

    PubMed

    Norman, Daniel G; Getgood, Alan; Thornby, John; Bird, Jonathan; Turley, Glen A; Spalding, Tim; Williams, Mark A

    2014-11-01

    The femoral footprint of the anterior cruciate ligament (ACL) is a much-studied anatomic structure, predominantly due to its importance during ACL reconstruction surgery. A new technique utilising high-resolution micro-computed tomography (micro-CT) is described, allowing detailed three-dimensional (3D) quantitative analysis of this structure. Seven cadaveric knees were scanned using micro-CT, yielding 3D data with a reconstructed voxel size of 60 μm. A novel method of 3D surface extraction was developed and validated, facilitating both qualitative observation of surface details and quantitative topographic assessment using colour-coded relief maps. Images were displayed on an immersive 3D visualisation wall, and ten experienced ACL clinicians were surveyed as to the presence and morphology of osseous landmarks, providing qualitative assessment of whether such features can be reliably identified for navigation during surgery. Both quantitative analysis and qualitative assessment of the footprints in this study showed significant variability in the presence and morphology of osseous landmarks, with the lateral intercondylar ridge being objectively present in four out of seven relief maps, although reportedly seen in six out of seven cases in the qualitative study, suggesting an element of subjectivity and interpretation. This is the first study to utilise micro-CT in the study of ACL anatomy.

  9. Interpreting pathologies in extant and extinct archosaurs using micro-CT

    PubMed Central

    Garwood, Russell J.; Lowe, Tristan; Withers, Philip J.; Manning, Phillip L.

    2015-01-01

    Palaeopathology offers unique insight to the healing strategies of extinct organisms, permitting questions concerning bone physiology to be answered in greater depth. Unfortunately, most palaeopathological studies are confined to external morphological interpretations due to the destructive nature of traditional methods of study. This limits the degree of reliable diagnosis and interpretation possible. X-ray MicroTomography (micro-CT, XMT) provides a non-destructive means of analysing the internal three-dimensional structure of pathologies in both extant and extinct individuals, at higher resolutions than possible with medical scanners. In this study, we present external and internal descriptions of pathologies in extant and extinct archosaurs using XMT. This work demonstrates that the combination of external/internal diagnosis that X-ray microtomography facilitates is crucial when differentiating between pathological conditions. Furthermore, we show that the use of comparative species, both through direct analysis and from the literature, provides key information for diagnosing between vertebrate groups in the typical pathological conditions and physiological processes. Micro-CT imaging, combined with comparative observations of extant species, provides more detailed and reliable interpretation of palaeopathologies. Micro-CT is an increasingly accessible tool, which will provide key insights for correctly interpreting vertebrate pathologies in the future. PMID:26246971

  10. Low-dose 4D myocardial perfusion with x-ray micro-CT

    NASA Astrophysics Data System (ADS)

    Clark, D. P.; Badea, C. T.

    2017-03-01

    X-ray CT is widely used, both clinically and pre-clinically, for fast, high-resolution, anatomic imaging; however, compelling opportunities exist to expand its use in functional imaging applications. For instance, temporally-resolved CT data can detail cardiac motion and blood flow dynamics for one-stop cardiovascular CT imaging procedures. In previous work, we demonstrated efficient, low-dose projection acquisition and reconstruction strategies for cardiac micro-CT imaging and for multiple-injection micro-CT perfusion imaging. Here, we extend this previous work with regularization based on rank-sparse kernel regression and on filtration with the Karhunen-Loeve transform. Using a dual source, prospectively gated sampling strategy which produces an approximately uniform distribution of projections, we apply this revised algorithm to the assessment of both myocardial perfusion and cardiac functional metrics from the same set of projection data. We test the algorithm in simulations using a modified version of the MOBY mouse phantom which contains realistic perfusion and cardiac dynamics. The proposed algorithm reduces the reconstruction error by 81% relative to unregularized, algebraic reconstruction. The results confirm our ability to simultaneously solve for cardiac temporal motion and perfusion dynamics. In future work, we will apply the algorithm and sampling protocol to small animal cardiac studies.

  11. Region-of-interest image reconstruction in circular cone-beam microCT

    SciTech Connect

    Cho, Seungryong; Bian, Junguo; Pelizzari, Charles A.; Chen, C.-T.; He, T.-C.; Pan Xiaochuan

    2007-12-15

    Cone-beam microcomputed tomography (microCT) is one of the most popular choices for small animal imaging which is becoming an important tool for studying animal models with transplanted diseases. Region-of-interest (ROI) imaging techniques in CT, which can reconstruct an ROI image from the projection data set of the ROI, can be used not only for reducing imaging-radiation exposure to the subject and scatters to the detector but also for potentially increasing spatial resolution of the reconstructed images. Increasing spatial resolution in microCT images can facilitate improved accuracy in many assessment tasks. A method proposed previously for increasing CT image spatial resolution entails the exploitation of the geometric magnification in cone-beam CT. Due to finite detector size, however, this method can lead to data truncation for a large geometric magnification. The Feldkamp-Davis-Kress (FDK) algorithm yields images with artifacts when truncated data are used, whereas the recently developed backprojection filtration (BPF) algorithm is capable of reconstructing ROI images without truncation artifacts from truncated cone-beam data. We apply the BPF algorithm to reconstructing ROI images from truncated data of three different objects acquired by our circular cone-beam microCT system. Reconstructed images by use of the FDK and BPF algorithms from both truncated and nontruncated cone-beam data are compared. The results of the experimental studies demonstrate that, from certain truncated data, the BPF algorithm can reconstruct ROI images with quality comparable to that reconstructed from nontruncated data. In contrast, the FDK algorithm yields ROI images with truncation artifacts. Therefore, an implication of the studies is that, when truncated data are acquired with a configuration of a large geometric magnification, the BPF algorithm can be used for effective enhancement of the spatial resolution of a ROI image.

  12. Stress and strain distribution in demineralized enamel: A micro-CT based finite element study.

    PubMed

    Neves, Aline Almeida; Coutinho, Eduardo; Alves, Haimon Diniz Lopes; de Assis, Joaquim Teixeira

    2015-10-01

    Physiological oral mechanical forces may play a role on the progression of enamel carious lesions to cavitation. Thus, the aim of this study was to describe, by 3D finite element analysis, stress, and strain patterns in sound and carious enamel after a simulated occlusal load. Micro-CT based models were created and meshed with tetrahedral elements (based on an extracted third molar), namely: a sound (ST) and a carious tooth (CT). For the CT, enamel material properties were assigned according to the micro-CT gray values. Below the threshold corresponding to the enamel lesion (2.5 g/cm(3) ) lower and isotropic elastic modulus was assigned (E = 18 GPa against E1  = 80 GPa, E2  = E3  = 20 GPa for sound enamel). Both models were imported into a FE solver where boundary conditions were assigned and a pressure load (500 MPa) was applied at the occlusal surface. A linear static analysis was performed, considering anisotropy in sound enamel. ST showed a more efficient transfer of maximum principal stress from enamel to the dentin layer, while for the CT, enamel layer was subjected to higher and concentrated loads. Maximum principal strain distributions were seen at the carious enamel surface, especially at the central fossa, correlating to the enamel cavity seen at the original micro-CT model. It is possible to conclude that demineralized enamel compromises appropriate stress transfer from enamel to dentin, contributing to the odds of fracture and cavitation. Enamel fracture over a dentin lesion may happen as one of the normal pathways to caries progression and may act as a confounding factor during clinical diagnostic decisions. © 2015 Wiley Periodicals, Inc.

  13. Parallel approach to MEMS and micro-optics interferometric testing

    NASA Astrophysics Data System (ADS)

    Kujawińska, M.; Beer, S.; Gastinger, K.; Gorecki, C.; Haugholt, K. H.; Józwik, M.; Lambelet, P.; Paris, R.; Styk, A.; Zeitner, U.

    2011-08-01

    The paper presents the novel approach to an interferometric, quantitative, massive parallel inspection of MicroElectroMechanicalSystems (MEMS), MicroOptoElectroMechanical Systems (MOEMS) and microoptics arrays. The basic idea is to adapt a micro-optical probing wafer to the M(O)EMS wafer under test. The probing wafer is exchangeable and contains one of the micro-optical interferometer arrays based on: (1) a low coherent interferometer array based on a Mirau configuration or (2) a laser interferometer array based on a Twyman-Green configuration. The optical, mechanical, and electro-optical design of the system and data analysis concept based on this approach is presented. The interferometer arrays are developed and integrated at a standard test station for micro-fabrication together with the illumination and imaging modules and special mechanics which includes scanning and electrostatic excitation systems. The smart-pixel approach is applied for massive parallel electro-optical detection and data reduction. The first results of functional tests of the system are presented. The concept is discussed in reference to the future M(O)EMS and microoptics manufacturers needs and requirements.

  14. Experimental Rock Deformation under micro-CT: ERDμ

    NASA Astrophysics Data System (ADS)

    Tisato, Nicola; Zhao, Qi; Biryukov, Anton; Grasselli, Giovanni

    2015-04-01

    sequestration it would be extremely useful understanding the impact of the gas-water-rock reactions on the rock elastic properties. Potentially, the imaging of the internal structure and fluid distribution in the sample, combined with the measurement of 1/Q, could serve to this goal helping subsurface monitoring and surveying. This is the primary purpose of our research: uncovering the relationships between i) saturation and dissolution-precipitation, and ii) the elastic properties of a rock. The present contribution reports the design of a new high-pressure X-Ray transparent vessel which can fit and perform measurements inside the X-Ray computed tomography apparatus (μCT) installed at the University of Toronto. Hence, the scientist can measure changes in 1/Q in the sample and, simultaneously, link them to saturation variations, or precipitation-dissolution of minerals. We discuss how the use of the μCT will allow shedding light on the physics of 1/Q, and present the preliminary results obtained with the new vessel in the μCT. This technological development, together with the results already obtained, will enrich the knowledge of seismic wave attenuation mechanisms for partially saturated rocks to aid geophysical methods.

  15. Micro-CT vs. Whole Body Multirow Detector CT for Analysing Bone Regeneration in an Animal Model

    PubMed Central

    Bissinger, Oliver; Kirschke, Jan S.; Probst, Florian Andreas; Stauber, Martin; Wolff, Klaus-Dietrich; Haller, Bernhard; Götz, Carolin; Plank, Christian; Kolk, Andreas

    2016-01-01

    Objectives Compared with multirow detector CT (MDCT), specimen (ex vivo) micro-CTCT) has a significantly higher (~ 30 x) spatial resolution and is considered the gold standard for assessing bone above the cellular level. However, it is expensive and time-consuming, and when applied in vivo, the radiation dose accumulates considerably. The aim of this study was to examine whether the lower resolution of the widely used MDCT is sufficient to qualitatively and quantitatively evaluate bone regeneration in rats. Methods Forty critical-size defects (5mm) were placed in the mandibular angle of rats and covered with coated bioactive titanium implants to promote bone healing. Five time points were selected (7, 14, 28, 56 and 112 days). μCT and MDCT were used to evaluate the defect region to determine the bone volume (BV), tissue mineral density (TMD) and bone mineral content (BMC). Results MDCT constantly achieved higher BV values than μCT (10.73±7.84 mm3 vs. 6.62±4.96 mm3, p<0.0001) and consistently lower TMD values (547.68±163.83 mm3 vs. 876.18±121.21 mm3, p<0.0001). No relevant difference was obtained for BMC (6.48±5.71 mm3 vs. 6.15±5.21 mm3, p = 0.40). BV and BMC showed very strong correlations between both methods, whereas TMD was only moderately correlated (r = 0.87, r = 0.90, r = 0.68, p < 0.0001). Conclusions Due to partial volume effects, MDCT overestimated BV and underestimated TMD but accurately determined BMC, even in small volumes, compared with μCT. Therefore, if bone quantity is a sufficient end point, a considerable number of animals and costs can be saved, and compared with in vivo μCT, the required dose of radiation can be reduced. PMID:27880788

  16. Optical-CT gel-dosimetry II: Optical artifacts and geometrical distortion

    PubMed Central

    Oldham, Mark; Kim, Leonard

    2006-01-01

    There is a clear need for technology that enables accurate, high-resolution, three-dimensional (3D) measurement of intricate dose distributions associated with modern radiation treatments. A potential candidate has emerged in the form of water-equivalent “3D gel dosimetry” utilizing optical-computed- tomography (optical-CT). In a previous paper we presented basic physical characterization of an in-house prototype optical-CT scanning system. The present paper builds on that work by investigating sources of optical artifacts and geometric distortion in optical-CT scanning. Improvements in scanner design are described. Correction strategies were developed to compensate for reflection and refraction, imperfections in the water-bath, signal drift, and other effects. Refraction and reflection were identified as the principal factors causing inaccurate reconstruction of absolute attenuation coefficients. A correction specific to a given flask was developed utilizing prescans of the flask when filled with water-bath fluid, thereby isolating the refractive and reflective components for that flask. Residual artifacts were corrected by fitting a theoretical model to the well-behaved portion of these prescans and extrapolating to regions of lost data, enabling reconstruction of absolute optical-CT attenuation coefficients to within 4% of corresponding spectrophotometer values. Needle phantoms are introduced to quantify geometric distortion under a range of conditions. Radial distortion of reconstructed needle positions was reduced to <0.3 mm (0.27% of the field of view) through adjustment of the water-bath refractive index. Geometric distortion in polymer gel due to radiation-induced refractive index changes was found to be negligible under the conditions examined. The influence of scattered light on reconstructed attenuation coefficients was investigated by repeat optical-CT scans while varying the aperture of a scatter-rejecting collimator. Significant depression of

  17. Efficient 3D rigid-body registration of micro-MR and micro-CT trabecular bone images

    NASA Astrophysics Data System (ADS)

    Rajapakse, C. S.; Magland, J.; Wehrli, S. L.; Zhang, X. H.; Liu, X. S.; Guo, X. E.; Wehrli, F. W.

    2008-03-01

    Registration of 3D images acquired from different imaging modalities such as micro-magnetic resonance imaging (µMRI) and micro-computed tomography (µCT) are of interest in a number of medical imaging applications. Most general-purpose multimodality registration algorithms tend to be computationally intensive and do not take advantage of the shape of the imaging volume. Multimodality trabecular bone (TB) images of cylindrical cores, for example, tend to be misaligned along and around the axial direction more than that around other directions. Additionally, TB images acquired by µMRI can differ substantially from those acquired by µCT due to apparent trabecular thickening from magnetic susceptibility boundary effects and non-linear intensity correspondence. However, they share very similar contrast characteristics since the images essentially represent a binary tomographic system. The directional misalignment and the fundamental similarities of the two types of images can be exploited to achieve fast 3D registration. Here we present an intensity cross-correlation based 3D registration algorithm for registering 3D specimen images from cylindrical cores of cadaveric TB acquired by µMRI and µCT in the context of finite-element modeling to assess the bone's mechanical constants. The algorithm achieves the desired registration by first coarsely approximating the three translational and three rotational parameters required to align the µMR images to the µCT scan coordinate frame and fine-tuning the parameters in the neighborhood of the approximate solution. The algorithm described here is suitable for 3D rigid-body image registration applications where through-plane rotations are known to be relatively small. The accuracy of the technique is constrained by the image resolution and in-plane angular increments used.

  18. Body fat of rats of different age-groups and nutritional states: assessment by micro-CT and skinfold thickness.

    PubMed

    Tekus, Eva; Miko, Alexandra; Furedi, Nora; Rostas, Ildiko; Tenk, Judit; Kiss, Tamas; Szitter, István; Balasko, Marta; Helyes, Zsuzsanna; Wilhelm, Marta; Petervari, Erika

    2017-07-20

    Obesity presents a growing public health problem. Therefore, the analysis of body composition is important in clinical practice as well as in animal research models of obesity, hence precise methods for the assessment of body fat would be essential. We aimed to evaluate in vivo abdominal micro-computed tomography scan restricted to the L1-L3 region (micro-CT(L1-L3)), a skinfold thickness-based method (STM) and post mortem body composition analysis (PMA) with regard to whole-body micro-CT scan in rats. Male Wistar rats of different age-groups (from 3 to 24 months) and nutritional states (normally fed, high-fat diet-induced obese, calorie-restricted) were used. The fat percentage was determined with micro-CT(L1-L3) and whole-body scan in anesthesized rats. Their skinfold thickness was measured in five locations with Lange caliper. Wet weights of epididymal and retroperitoneal fat pads were determined via PMA. With regard to fat mass, the strongest correlation was observed between abdominal and whole-body micro-CT. The other methods showed weaker associations with whole-body micro-CT and with each other. Micro-CT(L1-L3) and PMA showed similar age-associated increase in fat mass between 3-18 months. Micro-CT(L1-L3), STM and PMA were efficient to detect differences in fat mass values in groups of different nutritional states. Micro-CT(L1-L3) appears to be a useful method for body fat assessment in rats with reduced scanning time. In rats STM may also be a useful, low-priced, non-invasive and simple in vivo technique to assess obesity. Copyright © 2016, Journal of Applied Physiology.

  19. Micro-CT technique for three-dimensional visualization of human stem cells.

    PubMed

    Farini, Andrea; Villa, Chiara; Belicchi, Marzia; Meregalli, Mirella; Torrente, Yvan

    2013-01-01

    Micro-CT offers high spatial resolution of the distribution of stem cells and provides rapid reconstruction of 3D images and quantitative volumetric analysis. Together with real-time PCR analysis, micro-CT offers the possibility to obtain a quantification of the number of cells that are able to migrate from the bloodstream inside the muscular tissues. Here, we studied for the first time the kinetics of the human cells injected into the femoral artery of DMD animal model. It is fundamental to determine whether the cells disseminate and entrap only within the capillary system of downstream muscles and/or they are able to reach the non-injected muscles and other organs through blood flow. The efficient transplantation of stem cells to dystrophic-deficient muscle reinforced the utility of intra-arterial delivery of cells as a viable approach for cell-based clinical therapies of neuromuscular diseases.

  20. MicroCT Imaging on Living Alligator Teeth Reveals Natural Tooth Cycling.

    PubMed

    Widelitz, Randall B; Abdelhamid, Alaa; Khalil Khan, M; Elkarargy, Amr; Chuong, Cheng-Ming; Wu, Ping

    2017-01-01

    To study tooth cycling in polyphyodont animals, we chose to work on alligators. Alligators have teeth in three phases of development at each tooth location. This assembly of three teeth is called a tooth family unit. As part of the study, in order to study tooth cycling in alligators, we wanted to know the configuration of the tooth family unit in every tooth position. From the surface of the mouth, this is difficult to assess. Therefore, we decided to use MicroCT which can image X-ray dense materials providing a three-dimensional view. MicroCT provided us with valuable information for this study. The method described below can be applied to study tooth cycling in other vertebrate species.

  1. A Correlative Method for Imaging Identical Regions of Samples by Micro-CT, Light Microscopy, and Electron Microscopy

    PubMed Central

    Sengle, Gerhard; Tufa, Sara F.; Sakai, Lynn Y.; Zulliger, Martin A.

    2013-01-01

    We present a method in which a precise region of interest within an intact organism is spatially mapped in three dimensions by non-invasive micro-computed X-ray tomography (micro-CT), then further evaluated by light microscopy (LM) and transmission electron microscopy (TEM). Tissues are prepared as if for TEM including osmium fixation, which imparts soft tissue contrast in the micro-CT due to its strong X-ray attenuation. This method may therefore be applied to embedded, archived TEM samples. Upon selection of a two-dimensional (2-D) projection from a region of interest (ROI) within the three-dimensional volume, the epoxy-embedded sample is oriented for microtomy so that the sectioning plane is aligned with the micro-CT projection. Registration is verified by overlaying LM images with 2-D micro-CT projections. Structures that are poorly resolved in the micro-CT may be evaluated at TEM resolution by observing the next serial ultrathin section, thereby accessing the same ROI by all three imaging techniques. We compare white adipose tissue within the forelimbs of mice harboring a lipid-altering mutation with their littermate controls. We demonstrate that individual osmium-stained lipid droplets as small as 15 µm and separated by as little as 35 µm may be discerned as separate entities in the micro-CT, validating this to be a high-resolution, non-destructive technique for evaluation of fat content. PMID:23264636

  2. Molecular imaging in small animals--roles for micro-CT.

    PubMed

    Ritman, Erik L

    2002-01-01

    X-ray micro-CT is currently used primarily to generate 3D images of micro-architecture (and the function that can be deduced from it) and the regional distribution of administered radiopaque indicators, within intact rodent organs or biopsies from large animals and humans. Current use of X-ray micro-CT can be extended in three ways to increase the quantitative imaging of molecular transport and accumulation within such specimens. (1) By use of heavy elements, other than the usual iodine, attached to molecules of interest or to surrogates for those molecules. The accumulation of the indicator in the physiological compartments, and the transport to and from such compartments, can be quantitated from the imaged spatial distribution of these contrast agents. (2) The high spatial resolution of conventional X-ray attenuation-based CT images can be used to improve the quantitative nature of radionuclide-based tomographic images (SPECT & PET) by providing correction for attenuation of the emitted gamma rays and the accurate delineation of physiological spaces known to selectively accumulate those indicators. Similarly, other imaging modalities which also localize functions in 2D images (such as histological sections subsequently obtained from the same specimen), can provide a synergistic combination with CT-based 3D microstructure. (3) By increasing the sensitivity and specificity of X-ray CT image contrast by use of methods such as: K-edge subtraction imaging, X-ray fluorescence imaging, imaging of the various types of scattered X-ray and the consequences of the change in the speed of X-rays through different tissues, such as refraction and phase shift. These other methods of X-ray imaging can increase contrast by more than an order of magnitude over that due to conventionally-used attenuation of X-ray. To fully exploit their potentials, much development of radiopaque indicators, scanner hardware and image reconstruction and analysis software will be needed. Copyright

  3. Micro-optical-mechanical system photoacoustic spectrometer

    DOEpatents

    Kotovsky, Jack; Benett, William J.; Tooker, Angela C.; Alameda, Jennifer B.

    2013-01-01

    All-optical photoacoustic spectrometer sensing systems (PASS system) and methods include all the hardware needed to analyze the presence of a large variety of materials (solid, liquid and gas). Some of the all-optical PASS systems require only two optical-fibers to communicate with the opto-electronic power and readout systems that exist outside of the material environment. Methods for improving the signal-to-noise are provided and enable mirco-scale systems and methods for operating such systems.

  4. Development of a combined microSPECT/CT system for small animal imaging

    NASA Astrophysics Data System (ADS)

    Sun, Mingshan

    Modern advances in the biomedical sciences have placed increased attention on small animals such as mice and rats as models of human biology and disease in biological research and pharmaceutical development. Their small size and fast breeding rate, their physiologic similarity to human, and, more importantly, the availability of sophisticated genetic manipulations, all have made mice and rats the laboratory mammals of choice in these experimental studies. However, the increased use of small animals in biomedical research also calls for new instruments that can measure the anatomic and metabolic information noninvasively with adequate spatial resolution and measurement sensitivity to facilitate these studies. This dissertation describes the engineering development of a combined single photon emission computed tomography (SPECT) and X-ray computed tomography (CT) system dedicated for small animals imaging. The system aims to obtain both the anatomic and metabolic images with submillimeter spatial resolution in a way that the data can be correlated to provide improved image quality and to offer more complete biological evaluation for biomedical studies involving small animals. The project requires development of complete microSPECT and microCT subsystems. Both subsystems are configured with a shared gantry and animal bed with integrated instrumentation for data acquisition and system control. The microCT employs a microfocus X-ray tube and a CCD-based detector for low noise, high resolution imaging. The microSPECT utilizes three semiconductor detectors coupled with pinhole collimators. A significant contribution of this dissertation project is the development of iterative algorithms with geometrical compensation that allows radionuclide images to be reconstructed at submillimeter spatial resolution, but with significantly higher detection efficiency than conventional methods. Both subsystems are capable of helical scans, offering lengthened field of view and improved

  5. Recent Progress Validating the HADES Model of LLNL's HEAF MicroCT Measurements

    SciTech Connect

    White, W. T.; Bond, K. C.; Lennox, K. P.; Aufderheide, M. B.; Seetho, I. M.; Roberson, G. P.

    2014-07-17

    This report compares recent HADES calculations of x-ray linear attenuation coefficients to previous MicroCT measurements made at Lawrence Livermore National Laboratory’s High Energy Applications Facility (HEAF). The chief objective is to investigate what impact recent changes in HADES modeling have on validation results. We find that these changes have no obvious effect on the overall accuracy of the model. Detailed comparisons between recent and previous results are presented.

  6. Full supervised learning for osteoporosis diagnosis using micro-CT images.

    PubMed

    Xu, Yan; Li, Dianshi; Chen, Qinlang; Fan, Yubo

    2013-04-01

    Early osteoporosis diagnosis is of important significance for reducing fracture risk. Image analysis provides a new perspective for noninvasive diagnosis in recent years. In this article, we propose a novel method based on machine-learning method performed on micro-CT images to diagnose osteoporosis. The aim of this work is to find a way to more effectively and accurately diagnose osteoporosis on which many methods have been proposed and practiced. In this method, in contrast to the previously proposed methods in which features are analyzed individually, several features are combined to build a classifier for distinguishing osteoporosis group and normal group. Twelve features consisting of two groups are involved in our research, including bone volume/total volume (BV/TV), bone surface/bone volume (BS/BV), trabecular number (Tb.N), obtained from the software of micro-CT, and other four features from volumetric topological analysis (VTA). Support vector machine (SVM) method and k-nearest neighbor (kNN) method are introduced to create classifiers with these features due to their excellent performances on classification. In the experiment, 200 micro-CT images are used in which half are from osteoporosis patients and the rest are from normal people. The performance of the obtained classifiers is evaluated by precision, recall, and F-measure. The best performance with precision of 100%, recall of 100%, and F-measure of 100% is acquired when all the features are included. The satisfying result demonstrates that SVM and kNN are effective for diagnosing osteoporosis with micro-CT images.

  7. Automated segmentation of murine lung tumors in x-ray micro-CT images

    NASA Astrophysics Data System (ADS)

    Swee, Joshua K. Y.; Sheridan, Clare; de Bruin, Elza; Downward, Julian; Lassailly, Francois; Pizarro, Luis

    2014-03-01

    Recent years have seen micro-CT emerge as a means of providing imaging analysis in pre-clinical study, with in-vivo micro-CT having been shown to be particularly applicable to the examination of murine lung tumors. Despite this, existing studies have involved substantial human intervention during the image analysis process, with the use of fully-automated aids found to be almost non-existent. We present a new approach to automate the segmentation of murine lung tumors designed specifically for in-vivo micro-CT-based pre-clinical lung cancer studies that addresses the specific requirements of such study, as well as the limitations human-centric segmentation approaches experience when applied to such micro-CT data. Our approach consists of three distinct stages, and begins by utilizing edge enhancing and vessel enhancing non-linear anisotropic diffusion filters to extract anatomy masks (lung/vessel structure) in a pre-processing stage. Initial candidate detection is then performed through ROI reduction utilizing obtained masks and a two-step automated segmentation approach that aims to extract all disconnected objects within the ROI, and consists of Otsu thresholding, mathematical morphology and marker-driven watershed. False positive reduction is finally performed on initial candidates through random-forest-driven classification using the shape, intensity, and spatial features of candidates. We provide validation of our approach using data from an associated lung cancer study, showing favorable results both in terms of detection (sensitivity=86%, specificity=89%) and structural recovery (Dice Similarity=0.88) when compared against manual specialist annotation.

  8. The Extensor Carpi Ulnaris pseudolesion: evaluation with microCT, histology, and MRI

    PubMed Central

    Ali, S; Cunningham, R; Amin, M; Popoff, SN; Mohamed, F; Barbe, MF

    2015-01-01

    Objective To determine if magic angle plays a role in apparent central increased signal intensity of the distal extensor carpi ulnaris tendon (ECU) on MR imaging, to see if histologic findings of tendon degeneration are associated with increased T1 or T2 tendon signal on MR imaging, and to determine the prevalence of the ECU “pseudolesion”. Materials and Methods A standard 3 Tesla protocol was utilized to scan ten cadaveric wrists. A 40 mm length of 10 ECU and 4 extensor carpi radialis brevis (ECRB) tendons was immersion fixed before microCT scanning. Staining with Alcian blue, Masson’s trichrome and Safranin O was performed before light microscopy. Fifty clinical wrist MRI’s were also reviewed for the presence of increased T1 and/or T2 signal. Results Central increased T1 and/or T2 signal was observed in 9 of 10 cadaveric ECU tendons, but not in ECRB tendons. MicroCT and histology showed inter-tendinous matrix between the two distal heads of the ECU. Increased mucoid degeneration correlated with increased MRI signal intensity. The tendon fibers were at a maximum of 8.39 degrees to the longitudinal axis on microCT. Clinical MRI’s showed increased T1 signal in 6 %, increased T2 signal in 8 %, increased T1 and T2 signal in 80%, and 6 % showing no increased signal. Conclusion Central increased T1 and/or T2 signal in the ECU tendon indicates the presence of normal inter-tendinous ground substance, with increased proteoglycan content (mucoid degeneration) responsible for increased signal intensity. None of the fibers were shown on microCT to approach the magic angle. PMID:26245773

  9. Micro-Computed tomography (CT) based assessment of dental regenerative therapy in the canine mandible model

    PubMed Central

    Khobragade, P.; Jain, A.; Setlur Nagesh, S. V.; Andreana, S.; Dziak, R.; Sunkara, S. K.; Sunkara, S.; Bednarek, D. R.; Rudin, S.; Ionita, C. N.

    2015-01-01

    High-resolution 3D bone-tissue structure measurements may provide information critical to the understanding of the bone regeneration processes and to the bone strength assessment. Tissue engineering studies rely on such nondestructive measurements to monitor bone graft regeneration area. In this study, we measured bone yield, fractal dimension and trabecular thickness through micro-CT slices for different grafts and controls. Eight canines underwent surgery to remove a bone volume (defect) in the canine’s jaw at a total of 44 different locations. We kept 11 defects empty for control and filled the remaining ones with three regenerative materials; NanoGen (NG), a FDA-approved material (n=11), a novel NanoCalcium Sulfate (NCS) material (n=11) and NCS alginate (NCS+alg) material (n=11). After a minimum of four and eight weeks, the canines were sacrificed and the jaw samples were extracted. We used a custom-built micro-CT system to acquire the data volume and developed software to measure the bone yield, fractal dimension and trabecular thickness. The software used a segmentation algorithm based on histograms derived from volumes of interest indicated by the operator. Using bone yield and fractal dimension as indices we are able to differentiate between the control and regenerative material (p<0.005). Regenerative material NCS showed an average 63.15% bone yield improvement over the control sample, NCS+alg showed 55.55% and NanoGen showed 37.5%. The bone regeneration process and quality of bone were dependent upon the position of defect and time period of healing. This study presents one of the first quantitative comparisons using non-destructive Micro-CT analysis for bone regenerative material in a large animal with a critical defect model. Our results indicate that Micro-CT measurement could be used to monitor in-vivo bone regeneration studies for greater regenerative process understanding. PMID:26869742

  10. Increased Echogenicity and Radiodense Foci on Echocardiogram and MicroCT in Murine Myocarditis.

    PubMed

    Peter, Angela K; Bradford, William H; Dalton, Nancy D; Gu, Yusu; Chao, Chieh-Ju; Peterson, Kirk L; Knowlton, Kirk U

    2016-01-01

    To address the question as to whether echocardiographic and/or microcomputed tomography (microCT) analysis can be utilized to assess the extent of Coxsackie B virus (CVB) induced myocarditis in the absence of left ventricular dysfunction in the mouse. Viral myocarditis is a significant clinical problem with associated inflammation of the myocardium and myocardial injury. Murine models of myocarditis are commonly used to study the pathophysiology of the disease, but methods for imaging the mouse myocardium have been limited to echocardiographic assessment of ventricular dysfunction and, to a lesser extent, MRI imaging. Using a murine model of myocarditis, we used both echocardiography and microCT to assess the extent of myocardial involvement in murine myocarditis using both wild-type mice and CVB cleavage-resistant dystrophin knock-in mice. Areas of increased echogenicity were only observed in the myocardium of Coxsackie B virus infected mice. These echocardiographic abnormalities correlated with the extent of von Kossa staining (a marker of membrane permeability), inflammation, and fibrosis. Given that calcium phosphate uptake as imaged by von Kossa staining might also be visualized using microCT, we utilized microCT imaging which allowed for high-resolution, 3-dimensional images of radiodensities that likely represent calcium phosphate uptake. As with echocardiography, only mice infected with Coxsackie B virus displayed abnormal accumulation of calcium within individual myocytes indicating increased membrane permeability only upon exposure to virus. These studies demonstrate new, quantitative, and semi-quantitative imaging approaches for the assessment of myocardial involvement in the setting of viral myocarditis in the commonly utilized mouse model of viral myocarditis.

  11. Development of a MicroCT-Based Image-Guided Conformal Radiotherapy System for Small Animals

    PubMed Central

    Zhou, Hu; Rodriguez, Manuel; van den Haak, Fred; Nelson, Geoffrey; Jogani, Rahil; Xu, Jiali; Zhu, Xinzhi; Xian, Yongjiang; Tran, Phuoc T.; Felsher, Dean W.; Keall, Paul J.; Graves, Edward E.

    2009-01-01

    Purpose The need for clinically-relevant radiation therapy technology for the treatment of preclinical models of disease has spurred the development of a variety of dedicated platforms for small animal irradiation. Our group has taken the approach of adding the ability to deliver conformal radiotherapy to an existing 120 kVp micro-computed tomography (microCT) scanner. Methods A GE eXplore RS120 microCT scanner was modified by the addition of a two-dimensional subject translation stage and a variable aperture collimator. Quality assurance protocols for these devices, including measurement of translation stage positioning accuracy, collimator aperture accuracy, and collimator alignment with the x-ray beam, were devised. Use of this system for image-guided radiotherapy was assessed by irradiation of a solid water phantom as well as of two mice bearing spontaneous MYC-induced lung tumors. Radiation damage was assessed ex vivo by immunohistochemical detection of γH2AX foci. Results The positioning error of the translation stage was found to be less than 0.05 mm, while after alignment of the collimator with the x-ray axis through adjustment of its displacement and rotation, the collimator aperture error was less than 0.1 mm measured at isocenter. CT image-guided treatment of a solid water phantom demonstrated target localization accuracy to within 0.1 mm. γH2AX foci were detected within irradiated lung tumors in mice, with contralateral lung tissue displaying background staining. Conclusions Addition of radiotherapy functionality to a microCT scanner is an effective means of introducing image-guided radiation treatments into the preclinical setting. This approach has been shown to facilitate small animal conformal radiotherapy while leveraging existing technology. PMID:20395069

  12. A method to quantify and visualize femoral head intraosseous arteries by micro-CT.

    PubMed

    Qiu, Xing; Shi, Xiaotian; Ouyang, Jun; Xu, Dachuan; Zhao, Dewei

    2016-08-01

    We describe a technique for perfusing a barium sulphate suspension into the intraosseous artery. Following the perfusion of abarium sulphate suspension into 14 fresh lower limbs of Chinese cadavers, micro-CT scanning was applied to digitize, quantify and visualize the intraosseous arteries in the human femoral heads. Then, the femoral heads were removed and subjected to micro-CT scanning. The data were imported into the amira and mimics programs to reconstruct and quantify the intraosseous arteries. The femoral head intraosseous artery lengths, areas, volumes, and femoral head bone volumes were quantified. The artery densities and artery ratios were calculated and analysed with independent-samples t-tests. The intraosseous vasculature volume renderings were displayed as screenshots and videos made with amira. Many intraosseous artery study technologies were compared. The barium sulphate suspension was milky white in colour. The perfusion of the barium sulphate suspension followed by micro-CT scanning provided a good representation of the intraosseous artery. The femoral head intraosseous artery lengths, areas and volumes, and the femoral head bone volumes were displayed as the X¯±S . No differences were observed between the left and right femoral head intraosseous arteries in terms of the artery densities or artery ratios. The volume renderings and 3-D orthogonal projections displayed the overall distributions of the intraosseous arteries. The videos clearly demonstrated the entry sites of the nutrition-carrying arteries, their courses and branches, and the intraosseous arterial anastomoses. Our technique is the simplest and least time-consuming method of producing accurate vascular three-dimensional reconstructions. The perfusion of a barium sulphate suspension into intraosseous arteries combined with micro-CT scanning can deliver high-resolution 3-D digitized data and images of intraosseous arteries. This technique does not require bone decalcification or bone

  13. Increased Echogenicity and Radiodense Foci on Echocardiogram and MicroCT in Murine Myocarditis

    PubMed Central

    Dalton, Nancy D.; Gu, Yusu; Chao, Chieh-Ju; Peterson, Kirk L.; Knowlton, Kirk U.

    2016-01-01

    Objectives To address the question as to whether echocardiographic and/or microcomputed tomography (microCT) analysis can be utilized to assess the extent of Coxsackie B virus (CVB) induced myocarditis in the absence of left ventricular dysfunction in the mouse. Background Viral myocarditis is a significant clinical problem with associated inflammation of the myocardium and myocardial injury. Murine models of myocarditis are commonly used to study the pathophysiology of the disease, but methods for imaging the mouse myocardium have been limited to echocardiographic assessment of ventricular dysfunction and, to a lesser extent, MRI imaging. Methods Using a murine model of myocarditis, we used both echocardiography and microCT to assess the extent of myocardial involvement in murine myocarditis using both wild-type mice and CVB cleavage-resistant dystrophin knock-in mice. Results Areas of increased echogenicity were only observed in the myocardium of Coxsackie B virus infected mice. These echocardiographic abnormalities correlated with the extent of von Kossa staining (a marker of membrane permeability), inflammation, and fibrosis. Given that calcium phosphate uptake as imaged by von Kossa staining might also be visualized using microCT, we utilized microCT imaging which allowed for high-resolution, 3-dimensional images of radiodensities that likely represent calcium phosphate uptake. As with echocardiography, only mice infected with Coxsackie B virus displayed abnormal accumulation of calcium within individual myocytes indicating increased membrane permeability only upon exposure to virus. Conclusions These studies demonstrate new, quantitative, and semi-quantitative imaging approaches for the assessment of myocardial involvement in the setting of viral myocarditis in the commonly utilized mouse model of viral myocarditis. PMID:27486657

  14. Micro-Computed tomography (CT) based assessment of dental regenerative therapy in the canine mandible model.

    PubMed

    Khobragade, P; Jain, A; Setlur Nagesh, S V; Andreana, S; Dziak, R; Sunkara, S K; Sunkara, S; Bednarek, D R; Rudin, S; Ionita, C N

    2015-03-17

    High-resolution 3D bone-tissue structure measurements may provide information critical to the understanding of the bone regeneration processes and to the bone strength assessment. Tissue engineering studies rely on such nondestructive measurements to monitor bone graft regeneration area. In this study, we measured bone yield, fractal dimension and trabecular thickness through micro-CT slices for different grafts and controls. Eight canines underwent surgery to remove a bone volume (defect) in the canine's jaw at a total of 44 different locations. We kept 11 defects empty for control and filled the remaining ones with three regenerative materials; NanoGen (NG), a FDA-approved material (n=11), a novel NanoCalcium Sulfate (NCS) material (n=11) and NCS alginate (NCS+alg) material (n=11). After a minimum of four and eight weeks, the canines were sacrificed and the jaw samples were extracted. We used a custom-built micro-CT system to acquire the data volume and developed software to measure the bone yield, fractal dimension and trabecular thickness. The software used a segmentation algorithm based on histograms derived from volumes of interest indicated by the operator. Using bone yield and fractal dimension as indices we are able to differentiate between the control and regenerative material (p<0.005). Regenerative material NCS showed an average 63.15% bone yield improvement over the control sample, NCS+alg showed 55.55% and NanoGen showed 37.5%. The bone regeneration process and quality of bone were dependent upon the position of defect and time period of healing. This study presents one of the first quantitative comparisons using non-destructive Micro-CT analysis for bone regenerative material in a large animal with a critical defect model. Our results indicate that Micro-CT measurement could be used to monitor in-vivo bone regeneration studies for greater regenerative process understanding.

  15. Micro-computed tomography (CT) based assessment of dental regenerative therapy in the canine mandible model

    NASA Astrophysics Data System (ADS)

    Khobragade, P.; Jain, A.; Setlur Nagesh, S. V.; Andreana, S.; Dziak, R.; Sunkara, S. K.; Sunkara, S.; Bednarek, D. R.; Rudin, S.; Ionita, C. N.

    2015-03-01

    High-resolution 3D bone-tissue structure measurements may provide information critical to the understanding of the bone regeneration processes and to the bone strength assessment. Tissue engineering studies rely on such nondestructive measurements to monitor bone graft regeneration area. In this study, we measured bone yield, fractal dimension and trabecular thickness through micro-CT slices for different grafts and controls. Eight canines underwent surgery to remove a bone volume (defect) in the canine's jaw at a total of 44 different locations. We kept 11 defects empty for control and filled the remaining ones with three regenerative materials; NanoGen (NG), a FDA-approved material (n=11), a novel NanoCalcium Sulfate (NCS) material (n=11) and NCS alginate (NCS+alg) material (n=11). After a minimum of four and eight weeks, the canines were sacrificed and the jaw samples were extracted. We used a custombuilt micro-CT system to acquire the data volume and developed software to measure the bone yield, fractal dimension and trabecular thickness. The software used a segmentation algorithm based on histograms derived from volumes of interest indicated by the operator. Using bone yield and fractal dimension as indices we are able to differentiate between the control and regenerative material (p<0.005). Regenerative material NCS showed an average 63.15% bone yield improvement over the control sample, NCS+alg showed 55.55% and NanoGen showed 37.5%. The bone regeneration process and quality of bone were dependent upon the position of defect and time period of healing. This study presents one of the first quantitative comparisons using non-destructive Micro-CT analysis for bone regenerative material in a large animal with a critical defect model. Our results indicate that Micro-CT measurement could be used to monitor invivo bone regeneration studies for greater regenerative process understanding.

  16. Diamond machining of micro-optical components and structures

    NASA Astrophysics Data System (ADS)

    Gläbe, Ralf; Riemer, Oltmann

    2010-05-01

    Diamond machining originates from the 1950s to 1970s in the USA. This technology was originally designed for machining of metal optics at macroscopic dimensions with so far unreached tolerances. During the following decades the machine tools, the monocrystalline diamond cutting tools, the workpiece materials and the machining processes advanced to even higher precision and flexibility. For this reason also the fabrication of small functional components like micro optics at a large spectrum of geometries became technologically and economically feasible. Today, several kinds of fast tool machining and multi axis machining operations can be applied for diamond machining of micro optical components as well as diffractive optical elements. These parts can either be machined directly as single or individual component or as mold insert for mass production by plastic replication. Examples are multi lens arrays, micro mirror arrays and fiber coupling lenses. This paper will give an overview about the potentials and limits of the current diamond machining technology with respect to micro optical components.

  17. Bone micro-architectural analysis of mandible and tibia in ovariectomised rats: A quantitative structural comparison between undecalcified histological sections and micro-CT.

    PubMed

    Liu, H; Li, W; Liu, Y S; Zhou, Y S

    2016-06-01

    This study aims to evaluate if micro-CT can work as a method for the 3D assessment and analysis of cancellous bone by comparing micro-CT with undecalcified histological sections in OVX rats. The mandible and tibia of sham, ovariectomised (OVX) and zoledronate-injected ovariectomised (OVX-ZOL) rats were assessed morphometrically. Specimens were scanned by micro-CT. Undecalcified histological sections were manufactured from the specimen scanned by micro-CT and stained with haematoxylin and eosin. Bivariate linear regressions and one-way analysis of variance were undertaken for statistics using SPSS 16.0.1 software. There were highly significant correlations between undecalcified histological sections and micro-CT for all parameters (bone volume density (BV/TV), bone surface density (BS/BV), trabecular thickness (Tb.Th), trabecular number (Tb.N), and trabecular separation (Tb.Sp))in the mandible and tibia. Bone histomorphometric parameters analysed by both methods exhibited significant differences among sham, OVX, and OVX-ZOL groups. There were significant correlations between mandible and tibia in BV/TV, BS/BV, and Tb.Sp. Micro-CT is a complementary tool to histological sections in basic research that could improve our understanding of bone histomorphometry. The mandible can be used as an effective site to assess bone morphometry of OVX or metabolic bone disease rat models.Cite this article: H. Liu, W. Li, Y. S. Liu, Y. S. Zhou. Bone micro-architectural analysis of mandible and tibia in ovariectomised rats: A quantitative structural comparison between undecalcified histological sections and micro-CT. Bone Joint Res 2016;5:253-262. © 2016 Liu et al.

  18. MicroCT detection of gunshot residue in fresh and decomposed firearm wounds.

    PubMed

    Cecchetto, Giovanni; Amagliani, Alessandro; Giraudo, Chiara; Fais, Paolo; Cavarzeran, Fabiano; Montisci, Massimo; Feltrin, Giampietro; Viel, Guido; Ferrara, Santo Davide

    2012-05-01

    Gunshot residue (GSR) evidence may be altered or obscured by after-death events such as putrefaction, autolysis, and/or damage by animals. The present study aimed at evaluating and comparing the amount and differential distribution of GSR utilizing microcomputed tomography (microCT) analysis of fresh and decomposed gunshot wounds. A total of 60 experimental shootings at three different firing distances (5, 15, and 30 cm) were performed on human calves surgically amputated for medical reasons. Thirty specimens (10 for each tested distance) were immediately formalin-fixed, while the other 30 specimens were enclosed in a cowshed for 15 days, before formalin fixation (air temperature ranging from 11°C to 38°C). MicroCT analysis with three-dimensional image reconstruction detected GSR particles in all the investigated entrance wounds. In fresh specimens, GSR was concentrated on the skin surface around the entrance hole and in the epidermis and dermis layers around the cavity, while in decomposed specimens, the high density particles were detected only in the dermis layer. No GSR was detected in exit wounds of both fresh and decomposed specimens regardless of the tested firing distance. Statistical analysis demonstrated that also in decomposed wounds the amount of GSR roughly correlated with the distance from which the gun was fired, exhibiting, however, a higher variability than in fresh samples. The obtained results suggest that microCT analysis can be a valid screening tool for differentiating decomposed entrance and exit gunshot wounds.

  19. A multi-resolution approach to retrospectively-gated cardiac micro-CT reconstruction

    NASA Astrophysics Data System (ADS)

    Clark, D. P.; Johnson, G. A.; Badea, C. T.

    2014-03-01

    In preclinical research, micro-CT is commonly used to provide anatomical information; however, there is significant interest in using this technology to obtain functional information in cardiac studies. The fastest acquisition in 4D cardiac micro-CT imaging is achieved via retrospective gating, resulting in irregular angular projections after binning the projections into phases of the cardiac cycle. Under these conditions, analytical reconstruction algorithms, such as filtered back projection, suffer from streaking artifacts. Here, we propose a novel, multi-resolution, iterative reconstruction algorithm inspired by robust principal component analysis which prevents the introduction of streaking artifacts, while attempting to recover the highest temporal resolution supported by the projection data. The algorithm achieves these results through a unique combination of the split Bregman method and joint bilateral filtration. We illustrate the algorithm's performance using a contrast-enhanced, 2D slice through the MOBY mouse phantom and realistic projection acquisition and reconstruction parameters. Our results indicate that the algorithm is robust to under sampling levels of only 34 projections per cardiac phase and, therefore, has high potential in reducing both acquisition times and radiation dose. Another potential advantage of the multi-resolution scheme is the natural division of the reconstruction problem into a large number of independent sub-problems which can be solved in parallel. In future work, we will investigate the performance of this algorithm with retrospectively-gated, cardiac micro-CT data.

  20. Implementation of material decomposition using an EMCCD and CMOS-based micro-CT system

    NASA Astrophysics Data System (ADS)

    Podgorsak, Alexander R.; Nagesh, S. V. Setlur; Bednarek, Daniel R.; Rudin, Stephen; Ionita, Ciprian N.

    2017-03-01

    This project assessed the effectiveness of using two different detectors to obtain dual-energy (DE) micro-CT data for the carrying out of material decomposition. A micro-CT coupled to either a complementary metal-oxide semiconductor (CMOS) or an electron multiplying CCD (EMCCD) detector was used to acquire image data of a 3D-printed phantom with channels filled with different materials. At any instance, materials such as iohexol contrast agent, water, and platinum were selected to make up the scanned object. DE micro-CT data was acquired, and slices of the scanned object were differentiated by material makeup. The success of the decomposition was assessed quantitatively through the computation of percentage normalized root-mean-square error (%NRMSE). Our results indicate a successful decomposition of iohexol for both detectors (%NRMSE values of 1.8 for EMCCD, 2.4 for CMOS), as well as platinum (%NRMSE value of 4.7). The CMOS detector performed material decomposition on air and water on average with 7 times more %NRMSE, possibly due to the decreased sensitivity of the CMOS system. Material decomposition showed the potential to differentiate between materials such as the iohexol and platinum, perhaps opening the door for its use in the neurovascular anatomical region. Work supported by Toshiba America Medical Systems, and partially supported by NIH grant 2R01EB002873.

  1. Implementation of material decomposition using an EMCCD and CMOS-based micro-CT system.

    PubMed

    Podgorsak, Alexander R; Nagesh, Sv Setlur; Bednarek, Daniel R; Rudin, Stephen; Ionita, Ciprian N

    2017-02-11

    This project assessed the effectiveness of using two different detectors to obtain dual-energy (DE) micro-CT data for the carrying out of material decomposition. A micro-CT coupled to either a complementary metal-oxide semiconductor (CMOS) or an electron multiplying CCD (EMCCD) detector was used to acquire image data of a 3D-printed phantom with channels filled with different materials. At any instance, materials such as iohexol contrast agent, water, and platinum were selected to make up the scanned object. DE micro-CT data was acquired, and slices of the scanned object were differentiated by material makeup. The success of the decomposition was assessed quantitatively through the computation of percentage normalized root-mean-square error (%NRMSE). Our results indicate a successful decomposition of iohexol for both detectors (%NRMSE values of 1.8 for EMCCD, 2.4 for CMOS), as well as platinum (%NRMSE value of 4.7). The CMOS detector performed material decomposition on air and water on average with 7 times more %NRMSE, possibly due to the decreased sensitivity of the CMOS system. Material decomposition showed the potential to differentiate between materials such as the iohexol and platinum, perhaps opening the door for its use in the neurovascular anatomical region. Work supported by Toshiba America Medical Systems, and partially supported by NIH grant 2R01EB002873.

  2. Vascular contrast enhanced micro-CT imaging of "radiators" in the Brazilian free-tailed bat (Tadarida brasiliensis).

    PubMed

    Reichard, Jonathan D; Kunz, Thomas H; Keller, Charles; Prajapati, Suresh I

    2012-04-01

    The Brazilian free-tailed bat (Tadarida brasiliensis) exhibits a highly vascularized, hairless thermal window (or "radiator") on the proximal ventral surfaces of extended wings and body. We identified this character using thermal infrared imaging and investigated the vasculature using barium sulfate enhanced microcomputed tomography (micro-CT). Micro-CT images revealed unique arrangements of arteries and veins in the region of the radiator positioned perpendicular to the axis of the body. Coupling micro-CT imaging with analysis of surface temperature profiles, we concluded that radiators aid in thermoregulation during flight in variable environments. This study represents the first application of contrast enhanced micro-CT to visualize vasculature of bats and thus exhibits a promising technique for further investigations of cardiovascular function and anatomy in bats.

  3. Image quality assessment of a pre-clinical flat-panel volumetric micro-CT scanner

    NASA Astrophysics Data System (ADS)

    Du, Louise Y.; Lee, Ting-Yim; Holdsworth, David W.

    2006-03-01

    Small animal imaging has recently become an area of increased interest because more human diseases can be modeled in transgenic and knockout rodents. Current micro-CT systems are capable of achieving spatial resolution on the order of 10 μm, giving highly detailed anatomical information. However, the speed of data acquisition of these systems is relatively slow, when compared with clinical CT systems. Dynamic CT perfusion imaging has proven to be a powerful tool clinically in detecting and diagnosing cancer, stroke, pulmonary and ischemic heart diseases. In order to perform this technique in mice and rats, quantitative CT images must be acquired at a rate of at least 1 Hz. Recently, a research pre-clinical CT scanner (eXplore Ultra, GE Healthcare) has been designed specifically for dynamic perfusion imaging in small animals. Using an amorphous silicon flat-panel detector and a clinical slip-ring gantry, this system is capable of acquiring volumetric image data at a rate of 1 Hz, with in-plane resolution of 150 μm, while covering the entire thoracic region of a mouse or whole organs of a rat. The purpose of this study was to evaluate the principal imaging performance of the micro-CT system, in terms of spatial resolution, image uniformity, linearity, dose and voxel noise for the feasibility of imaging mice and rats. Our investigations show that 3D images can be obtained with a limiting spatial resolution of 2.7 line pairs per mm and noise of 42 HU, using an acquisition interval of 8 seconds at an entrance dose of 6.4 cGy.

  4. Bone vascularization and bone micro-architecture characterizations according to the μCT resolution

    NASA Astrophysics Data System (ADS)

    Crauste, E.; Autrusseau, F.; Guédon, Jp.; Pilet, P.; Amouriq, Y.; Weiss, P.; Giumelli, B.

    2015-03-01

    Trabecular bone and its micro-architecture are of prime importance for health. Changes of bone micro-architecture are linked to different pathological situations like osteoporosis and begin now to be understood. In a previous paper [12], we started to investigate the relationships between bone and vessels and proposed some indices of characterization for the vessels issued from those used for the bone. Our main objective in this paper is to qualify the classical values used for bone as well as those we proposed for vessels according to different acquisition parameters and for several thresholding methods used to separate bone vessels and background. This study is also based on vessels perfusion by a contrast agent (barium sulfate mixed with gelatin) before euthanasia on rats. Femurs and tibias as well as mandibles were removed after rat's death and were imaged by microCT (Skyscan 1272, Bruker, Belgium) with a resolution ranging from 18 to 3μm. The so obtained images were analyzed with various softwares (NRecon Reconstruction, CtAn, and CtVox from Bruker) in order to calculate bone and vessels micro-architecture parameters (density of bone/blood within the volume), and to know if the results both for bone and vascular micro-architecture are constant along the chosen pixel resolution. The result is clearly negative. We found a very different characterization both for bone and vessels with the 3μm acquisition. Tibia and mandibles bones were also used to show results that can be visually assessed. The largest portions of the vascular tree are orthogonal to the obtained slices of the bone. Therefore, the contrast agent appears as cylinders of various sizes.

  5. Biopatterning of Silk Proteins for Soft Micro-optics.

    PubMed

    Pal, Ramendra K; Kurland, Nicholas E; Wang, Congzhou; Kundu, Subhas C; Yadavalli, Vamsi K

    2015-04-29

    Silk proteins from spiders and silkworms have been proposed as outstanding candidates for soft micro-optic and photonic applications because of their optical transparency, unique biological properties, and mechanical robustness. Here, we present a method to form microstructures of the two constituent silk proteins, fibroin and sericin for use as an optical biomaterial. Using photolithography, chemically modified silk protein photoresists are patterned in 2D arrays of periodic patterns and Fresnel zone plates. Angle-dependent iridescent colors are produced in these periodic micropatterns because of the Bragg diffraction. Silk protein photolithography can used to form patterns on different substrates including flexible sheets with features of any shape with high fidelity and resolution over large areas. Finally, we show that these mechanically stable and transparent iridescent architectures are also completely biodegradable. This versatile and scalable technique can therefore be used to develop biocompatible, soft micro-optic devices that can be degraded in a controlled manner.

  6. Multi-institutional MicroCT image comparison of image-guided small animal irradiators

    NASA Astrophysics Data System (ADS)

    Johnstone, Chris D.; Lindsay, Patricia; E Graves, Edward; Wong, Eugene; Perez, Jessica R.; Poirier, Yannick; Ben-Bouchta, Youssef; Kanesalingam, Thilakshan; Chen, Haijian; E Rubinstein, Ashley; Sheng, Ke; Bazalova-Carter, Magdalena

    2017-07-01

    To recommend imaging protocols and establish tolerance levels for microCT image quality assurance (QA) performed on conformal image-guided small animal irradiators. A fully automated QA software SAPA (small animal phantom analyzer) for image analysis of the commercial Shelley micro-CT MCTP 610 phantom was developed, in which quantitative analyses of CT number linearity, signal-to-noise ratio (SNR), uniformity and noise, geometric accuracy, spatial resolution by means of modulation transfer function (MTF), and CT contrast were performed. Phantom microCT scans from eleven institutions acquired with four image-guided small animal irradiator units (including the commercial PXi X-RAD SmART and Xstrahl SARRP systems) with varying parameters used for routine small animal imaging were analyzed. Multi-institutional data sets were compared using SAPA, based on which tolerance levels for each QA test were established and imaging protocols for QA were recommended. By analyzing microCT data from 11 institutions, we established image QA tolerance levels for all image quality tests. CT number linearity set to R 2  >  0.990 was acceptable in microCT data acquired at all but three institutions. Acceptable SNR  >  36 and noise levels  <55 HU were obtained at five of the eleven institutions, where failing scans were acquired with current-exposure time of less than 120 mAs. Acceptable spatial resolution (>1.5 lp mm-1 for MTF  =  0.2) was obtained at all but four institutions due to their large image voxel size used (>0.275 mm). Ten of the eleven institutions passed the set QA tolerance for geometric accuracy (<1.5%) and nine of the eleven institutions passed the QA tolerance for contrast (>2000 HU for 30 mgI ml-1). We recommend performing imaging QA with 70 kVp, 1.5 mA, 120 s imaging time, 0.20 mm voxel size, and a frame rate of 5 fps for the PXi X-RAD SmART. For the Xstrahl SARRP, we recommend using 60 kVp, 1.0 mA, 240 s imaging time, 0.20

  7. Multi-institutional MicroCT image comparison of image-guided small animal irradiators.

    PubMed

    Johnstone, Chris D; Lindsay, Patricia; Graves, Edward E; Wong, Eugene; Perez, Jessica R; Poirier, Yannick; Ben-Bouchta, Youssef; Kanesalingam, Thilakshan; Chen, Haijian; Rubinstein, Ashley E; Sheng, Ke; Bazalova-Carter, Magdalena

    2017-06-26

    To recommend imaging protocols and establish tolerance levels for microCT image quality assurance (QA) performed on conformal image-guided small animal irradiators. A fully automated QA software SAPA (small animal phantom analyzer) for image analysis of the commercial Shelley micro-CT MCTP 610 phantom was developed, in which quantitative analyses of CT number linearity, signal-to-noise ratio (SNR), uniformity and noise, geometric accuracy, spatial resolution by means of modulation transfer function (MTF), and CT contrast were performed. Phantom microCT scans from eleven institutions acquired with four image-guided small animal irradiator units (including the commercial PXi X-RAD SmART and Xstrahl SARRP systems) with varying parameters used for routine small animal imaging were analyzed. Multi-institutional data sets were compared using SAPA, based on which tolerance levels for each QA test were established and imaging protocols for QA were recommended. By analyzing microCT data from 11 institutions, we established image QA tolerance levels for all image quality tests. CT number linearity set to R (2)  >  0.990 was acceptable in microCT data acquired at all but three institutions. Acceptable SNR  >  36 and noise levels  <55 HU were obtained at five of the eleven institutions, where failing scans were acquired with current-exposure time of less than 120 mAs. Acceptable spatial resolution (>1.5 lp mm(-1) for MTF  =  0.2) was obtained at all but four institutions due to their large image voxel size used (>0.275 mm). Ten of the eleven institutions passed the set QA tolerance for geometric accuracy (<1.5%) and nine of the eleven institutions passed the QA tolerance for contrast (>2000 HU for 30 mgI ml(-1)). We recommend performing imaging QA with 70 kVp, 1.5 mA, 120 s imaging time, 0.20 mm voxel size, and a frame rate of 5 fps for the PXi X-RAD SmART. For the Xstrahl SARRP, we recommend using 60 kVp, 1.0 mA, 240 s imaging time, 0.20

  8. Nano-stepper-driven optical shutter for applications in free-space micro-optics

    NASA Astrophysics Data System (ADS)

    Zawadzka, Justyna; Li, Lijie; Unamuno, Anartz; Uttamchandani, Deepak G.

    2002-09-01

    In this paper we report a simple design of a micro-optical shutter/attenuator. The standard MUMPS process was used to fabricate the device. A vertically erected, gold-coated, 200x300 mm side length micro-mirror was precisely placed between the end faces of two closely spaced optical fibers. The position of the micro-mirror with respect to the optical fiber end face was controlled by a nano-stepping motor array. Optical and mechanical tests were performed on the device. A 1.55 mm laser beam was sent along the optical fiber. When the micro-mirror was removed from the front of the fiber, the coupling efficiency between two fibers was -10 dBm. Once the micro-mirror was placed in the optical path the coupling efficiency dropped to -51.5 dBm. The best attenuation was obtained when the micro-mirror blocked the whole cross-section of the laser beam diameter. It is evident that the device can operate as a high precision fiber optic attenuator or shutter.

  9. Deriving tissue density and elastic modulus from microCT bone scans.

    PubMed

    Wagner, David W; Lindsey, Derek P; Beaupre, Gary S

    2011-11-01

    Tissue level density and elastic modulus are intrinsic properties that can be used to quantify bone material and analyses incorporating those quantities have been used to evaluate bone on a macroscopic scale. Micro-computed tomography (microCT) technology has been used to construct tissue level finite element models to simulate macroscopic fracture strength, however, a single method for assigning voxel-specific tissue density and elastic modulus based on those data has not been universally accepted. One method prevalent in the literature utilizes an empirical relationship that derives tissue stiffness as a function of bone calcium content weight fraction. To derive calcium content weight fraction from microCT scans, a measure of tissue density is required and a constant value is traditionally used. However, experimental data suggest a non-trivial amount of tissue heterogeneity suggesting a constant tissue density may not be appropriate. A theoretical derivation for determining the relationship between voxel-specific tissue density and microCT scan data (i.e., microCT derived tissue mineral density (TMD), mgHA/cm(3)) and bone constituent properties is proposed. Constant model parameters used in the derivation include the density of water, ash, and organics (i.e., bone constituents) and the volume fraction of the organics constituent. The effect of incorporating the theoretically derived tissue density (instead of a constant value) in determining voxel-specific elastic modulus resulted in a maximum observed increase of 12GPa (5.9GPa versus 17.9GPa, for the constant value and derived tissue density formulations, respectively) for a measured TMD of 1.02gHA/cm(3). Average and bounding quantities for the four constant model parameters were defined from the literature and the influence of those values on the derived tissue density and elastic modulus relationships were also evaluated. The theoretical relationships of tissue density and elastic modulus, with the average

  10. Micro fibre optic flow checker for the medical analysis application.

    PubMed

    Wang, Danping

    2007-01-01

    Two micro fibre optic flow checkers are presented in this paper. They are used for a medical analysis to control a solvent flow up to 1microl/min resolution. A fibre optic sensor as well as a hydraulic system are the principle components of these flow checkers. This paper describes the principle and the experiment setup. It gives the linearity, the repeatability and the stability results.

  11. Practical implementation of a planar micro-optic solar concentrator

    NASA Astrophysics Data System (ADS)

    Baker, Katherine; Karp, Jason; Hallas, Justin; Ford, Joseph

    2012-10-01

    CPV optics typically have multiple discrete apertures which each focus sunlight directly onto an associated PV cell. Waveguide based CPV systems instead couple light from multiple small apertures through a shared slab waveguide, avoiding individual optical alignment and electrical connection of multiple PV cells. We previously demonstrated the design and fabrication of a planar micro-optic waveguide concentrator, where incoming sunlight is focused through millimeter pitch lenslets onto mirrored micro-prisms which couple light into a slab waveguide toward common PV cells. This enables an efficient high concentrator system with a compact geometry. However, this design has the typical CPV limitation of low angular acceptance, requiring precise two-axis large-scale mechanical tracking. Here, we present the results of a design study to adapt the planar micro-optic design for use in combination with a one-dimensional mechanical tracker, tilted at latitude, to provide azimuthal alignment and altitude bias. Lateral mechanical micro-tracking can accommodate the residual altitude misalignment. The design shows that this relatively simple system can still provide over 72% annual optical efficiency for a 50x concentrator. Replacing the micro-tracking with passive optical altitude alignment further reduces system complexity, but also reduces efficiency. These waveguide based concentrators have primarily been designed for use with photovoltaic cells, which are index matched onto the waveguide either directly, or through output couplers. For concentrating solar power systems, sunlight is focused onto thermally isolated devices which can not be in direct contact. We will also present alternative output coupler designs, which allow extraction of light from the waveguide to an air or vacuum isolated coupler. The loss associated with these couplers is substantially identical to the reflection losses of one additional mirror.

  12. Integrated optical interrogation of micro-structures

    DOEpatents

    Evans, III, Boyd M.; Datskos, Panagiotis G.; Rajic, Slobodan

    2003-01-01

    The invention is an integrated optical sensing element for detecting and measuring changes in position or deflection. A deflectable member, such as a microcantilever, is configured to receive a light beam. A waveguide, such as an optical waveguide or an optical fiber, is positioned to redirect light towards the deflectable member. The waveguide can be incorporated into the deflectable member or disposed adjacent to the deflectable member. Means for measuring the extent of position change or deflection of the deflectable member by receiving the light beam from the deflectable member, such as a photodetector or interferometer, receives the reflected light beam from the deflectable member. Changes in the light beam are correlated to the changes in position or deflection of the deflectable member. A plurality of deflectable members can be arranged in a matrix or an array to provide one or two-dimensional imaging or sensing capabilities.

  13. In vivo micro-CT imaging of rat brain glioma: a comparison with 3T MRI and histology.

    PubMed

    Engelhorn, Tobias; Eyupoglu, Ilker Y; Schwarz, Marc A; Karolczak, Marek; Bruenner, Holger; Struffert, Tobias; Kalender, Willi; Doerfler, Arnd

    2009-07-10

    The aim of this study was to evaluate the potential of a novel micro-CT system to image in vivo the extent of tumor in a rat model of malignant glioma compared to 3T magnetic resonance imaging (MRI) and histology. Fourteen animals underwent double dose contrast-enhanced imaging with micro-CT and 3T MRI using a clinical machine at day 10 after stereotactic F98 glioma cell implantation. Calculation of the volume of the contrast-uptaking part of the tumor was done by manually outlining the tumor contours by two experienced neuroradiologists. The micro-CT- and MRI-derived tumor volumes were compared to histology as gold standard (hematoxylin and eosin staining and fluorescence staining). There was high interobserver reability regarding the tumor volumes (Crombach's alpha>0.81). Also, there was good correlation of micro-CT- and high-field MRI-derived tumor volumes compared to histology: 72+/-21 mm3 and 69+/-23 mm3 compared to 81+/-14 mm3, respectively (r>0.76). Both the micro-CT- and MRI-derived tumor volumes were not significantly smaller compared to histology (P>0.14). In conclusion, micro-CT allows in vivo imaging of the contrast-enhancing part of experimental gliomas with an accuracy comparable to high-field MRI.

  14. Hybrid micro-/nanogels for optical sensing and intracellular imaging

    PubMed Central

    Wu, Weitai; Zhou, Shuiqin

    2010-01-01

    Hybrid micro-/nanogels are playing an increasing important part in a diverse range of applications, due to their tunable dimensions, large surface area, stable interior network structure, and a very short response time. We review recent advances and challenges in the developments of hybrid micro-/nanogels toward applications for optical sensing of pH, temperature, glucose, ions, and other species as well as for intracellular imaging. Due to their unique advantages, hybrid micro-/nanogels as optical probes are attracting substantial interests for continuous monitoring of chemical parameters in complex samples such as blood and bioreactor fluids, in chemical research and industry, and in food quality control. In particular, their intracellular probing ability enables the monitoring of the biochemistry and biophysics of live cells over time and space, thus contributing to the explanation of intricate biological processes and the development of novel diagnoses. Unlike most other probes, hybrid micro-/nanogels could also combine other multiple functions into a single probe. The rational design of hybrid micro-/nanogels will not only improve the probing applications as desirable, but also implement their applications in new arenas. With ongoing rapid advances in bionanotechnology, the well-designed hybrid micro-/nanogel probes will be able to provide simultaneous sensing, imaging diagnosis, and therapy toward clinical applications. PMID:22110866

  15. Micro-optic lens for data storage

    NASA Technical Reports Server (NTRS)

    Milster, T. D.; Trusty, R. M.; Wang, M. S.; Froehlich, F. F.; Erwin, J. Kevin

    1991-01-01

    A new type of microlens for data storage applications that has improved off-axis performance is described. The lens consists of a micro Fresnel pattern on a curved substrate. The radius of the substrate is equal to the focal length of the lens. If the pattern and substrate are thin, the combination satisfies the Abbe sine condition. Therefore, the lens is free of coma. We analyze a 0.5 numerical aperture, 0.50 mm focal length lens in detail. A 0.16 numerical aperture lens was fabricated holographically, and results are presented.

  16. [Optical detection system for micro biochemical analyses].

    PubMed

    Li, Feng; Wu, Yi-hui; Zhao, Hua-bing; Ju, Hui

    2005-04-01

    For the need of biochemical chip, which consumes fewer specimens and is easy to integrate with micro-fluid chip, two kinds of spectrophotometric analysis methods are described in the present paper. Both the direct detection method and evanescent wave detection method are used in the experiments with visible light (460-800 nm). The experimental results proved that the direct detection is simple and evident; on the other hand the evanescent wave detection method consumes much less reagent and is easy to integrate with microchips.

  17. A quantitative comparison of micro-CT preparations in Dipteran flies

    PubMed Central

    Swart, Peter; Wicklein, Martina; Sykes, Dan; Ahmed, Farah; Krapp, Holger G.

    2016-01-01

    X-ray-based 3D-imaging techniques have gained fundamental significance in research areas ranging from taxonomy to bioengineering. There is demand for the characterisation of species-specific morphological adaptations, micro-CTCT) being the method of choice in small-scale animals. This has driven the development of suitable staining techniques to improve absorption-based tissue contrast. A quantitative account on the limits of current staining protocols for preparing μCT specimen, however, is still missing. Here we present a study that quantifies results obtained by combining a variety of different contrast agents and fixative treatments that provides general guidance for μCT applications, particularly suitable for insect species. Using a blowfly model system (Calliphora), we enhanced effective spatial resolution and, in particular, optimised tissue contrast enabling semi-automated segmentation of soft and hard tissue from μCT data. We introduce a novel probabilistic measure of the contrast between tissues: PTC. Our results show that a strong iodine solution provides the greatest overall increase in tissue contrast, however phosphotungstic acid offers better inter-tissue discriminability. We further show that using paraformaldehyde as a fixative as opposed to ethanol, slows down the uptake of a staining solution by approximately a factor of two. PMID:28000717

  18. A quantitative comparison of micro-CT preparations in Dipteran flies.

    PubMed

    Swart, Peter; Wicklein, Martina; Sykes, Dan; Ahmed, Farah; Krapp, Holger G

    2016-12-21

    X-ray-based 3D-imaging techniques have gained fundamental significance in research areas ranging from taxonomy to bioengineering. There is demand for the characterisation of species-specific morphological adaptations, micro-CTCT) being the method of choice in small-scale animals. This has driven the development of suitable staining techniques to improve absorption-based tissue contrast. A quantitative account on the limits of current staining protocols for preparing μCT specimen, however, is still missing. Here we present a study that quantifies results obtained by combining a variety of different contrast agents and fixative treatments that provides general guidance for μCT applications, particularly suitable for insect species. Using a blowfly model system (Calliphora), we enhanced effective spatial resolution and, in particular, optimised tissue contrast enabling semi-automated segmentation of soft and hard tissue from μCT data. We introduce a novel probabilistic measure of the contrast between tissues: PTC. Our results show that a strong iodine solution provides the greatest overall increase in tissue contrast, however phosphotungstic acid offers better inter-tissue discriminability. We further show that using paraformaldehyde as a fixative as opposed to ethanol, slows down the uptake of a staining solution by approximately a factor of two.

  19. Micro-CT Analysis of Radiation-Induced Osteopenia and Bone Hypovascularization in Rat.

    PubMed

    Michel, Guillaume; Blery, Pauline; Pilet, Paul; Guicheux, Jérôme; Weiss, Pierre; Malard, Olivier; Espitalier, Florent

    2015-07-01

    Treatment of carcinomas of the upper aerodigestive tract often requires external radiation therapy. However, radiation affects all the components of bone, with different degrees of sensitivity, and may produce severe side effects such as mandibular osteoradionecrosis (ORN). Intraosseous vascularization is thought to be decreased after irradiation, but its impact on total bone volume is still controversial. The aim of this study was to compare intraosseous vascularization, cortical bone thickness, and total bone volume in a rat model of ORN versus nonirradiated rats, using a micro-computed tomography (micro-CT) analysis after intracardiac injection of a contrast agent. The study was performed on 8-week-old Lewis 1A rats (n = 14). Eleven rats underwent external irradiation on the hind limbs by a single 80-Gy dose. Three rats did not receive irradiation and served as controls for statistical analysis. Eight weeks after the external irradiation, all the animals received a barium sulfate intracardiac injection under general anesthesia. All samples were analyzed with the micro-computed tomography system at a resolution of 5.5 μm. The images were later processed to create 3D reconstructions and study vascularization, bone volume, and cortical thickness. Data from irradiated and nonirradiated rats were compared using the Kruskal-Wallis test. No animal died after irradiation. Nineteen irradiated tibias and six nonirradiated tibias were included for micro-CT analysis. The vessel percentage was significantly lower in irradiated bones (p = 0.0001). The distance between the vessels, a marker of vascular destruction, was higher after irradiation (p = 0.001). The vessels were also more altered distally after irradiation (p = 0.028). Cortical thickness was severely decreased after irradiation, sometimes even reduced to zero. Both trabecular and cortical structures were destroyed after irradiation, with wide bone gaps. Finally, both total bone volume (p = 0.0001) and cortical

  20. Micro-CT assessment of dentinal micro-cracks after root canal filling procedures.

    PubMed

    De-Deus, G; Belladonna, F G; Silva, E J N L; Souza, E M; Carvalhal, J C A; Perez, R; Lopes, R T; Versiani, M A

    2017-09-01

    To evaluate the frequency of dentinal micro-cracks after root canal filling procedures with GuttaCore (GC), cold lateral compaction (CLC) and warm vertical compaction (WVC) techniques in mandibular molars using micro-computed tomographic analysis. Thirty mesial roots of mandibular molars, with a type II Vertucci's canal configuration, were prepared to working length with a Reciproc R40 instrument and randomly assigned to one of the three experimental groups (n = 10), according to the technique used for root filling: GC, CLC or WVC. The GC group was filled with a size 40 GC obturator, whilst CLC and WVC groups used conventional gutta-percha cones. AH Plus sealer was used in all groups. The specimens were scanned at an isotropic resolution of 14.25 μm before and after root canal preparation and after root filling. Then, all pre- and postoperative cross-sectional images of the roots (n = 41 660) were screened to identify the presence of dentinal defects. Overall, 30.75% (n = 12 810) of the pre- + post-filling images displayed dentinal defects. In the GC, CLC and WVC groups, dentinal micro-cracks were observed in 18.68% (n = 2510), 15.99% (n = 2389) and 11.34% (n = 1506) of the cross-sectional images, respectively. All micro-cracks identified in the post-filling scans were also observed in the corresponding post-preparation images. Root fillings in all techniques did not induce the development of new dentinal micro-cracks. © 2016 International Endodontic Journal. Published by John Wiley & Sons Ltd.

  1. A dynamic micro-CT scanner based on a carbon nanotube field emission x-ray source

    NASA Astrophysics Data System (ADS)

    Cao, G.; Lee, Y. Z.; Peng, R.; Liu, Z.; Rajaram, R.; Calderon-Colon, X.; An, L.; Wang, P.; Phan, T.; Sultana, S.; Lalush, D. S.; Lu, J. P.; Zhou, O.

    2009-04-01

    Current commercial micro-CT scanners have the capability of imaging objects ex vivo with high spatial resolution, but performing in vivo micro-CT on free-breathing small animals is still challenging because their physiological motions are non-periodic and much faster than those of humans. In this paper, we present a prototype physiologically gated micro-computed tomography (micro-CT) scanner based on a carbon nanotube field emission micro-focus x-ray source. The novel x-ray source allows x-ray pulses and imaging sequences to be readily synchronized and gated to non-periodic physiological signals from small animals. The system performance is evaluated using phantoms and sacrificed and anesthetized mice. Prospective respiratory-gated micro-CT images of anesthetized free-breathing mice were collected using this scanner at 50 ms temporal resolution and 6.2 lp mm-1 at 10% system MTF. The high spatial and temporal resolutions of the micro-CT scanner make it well suited for high-resolution imaging of free-breathing small animals.

  2. A dynamic micro-CT scanner based on a carbon nanotube field emission x-ray source.

    PubMed

    Cao, G; Lee, Y Z; Peng, R; Liu, Z; Rajaram, R; Calderon-Colon, X; An, L; Wang, P; Phan, T; Sultana, S; Lalush, D S; Lu, J P; Zhou, O

    2009-04-21

    Current commercial micro-CT scanners have the capability of imaging objects ex vivo with high spatial resolution, but performing in vivo micro-CT on free-breathing small animals is still challenging because their physiological motions are non-periodic and much faster than those of humans. In this paper, we present a prototype physiologically gated micro-computed tomography (micro-CT) scanner based on a carbon nanotube field emission micro-focus x-ray source. The novel x-ray source allows x-ray pulses and imaging sequences to be readily synchronized and gated to non-periodic physiological signals from small animals. The system performance is evaluated using phantoms and sacrificed and anesthetized mice. Prospective respiratory-gated micro-CT images of anesthetized free-breathing mice were collected using this scanner at 50 ms temporal resolution and 6.2 lp mm(-1) at 10% system MTF. The high spatial and temporal resolutions of the micro-CT scanner make it well suited for high-resolution imaging of free-breathing small animals.

  3. Fully automated segmentation of callus by micro-CT compared to biomechanics.

    PubMed

    Bissinger, Oliver; Götz, Carolin; Wolff, Klaus-Dietrich; Hapfelmeier, Alexander; Prodinger, Peter Michael; Tischer, Thomas

    2017-07-11

    A high percentage of closed femur fractures have slight comminution. Using micro-CTCT), multiple fragment segmentation is much more difficult than segmentation of unfractured or osteotomied bone. Manual or semi-automated segmentation has been performed to date. However, such segmentation is extremely laborious, time-consuming and error-prone. Our aim was to therefore apply a fully automated segmentation algorithm to determine μCT parameters and examine their association with biomechanics. The femura of 64 rats taken after randomised inhibitory or neutral medication, in terms of the effect on fracture healing, and controls were closed fractured after a Kirschner wire was inserted. After 21 days, μCT and biomechanical parameters were determined by a fully automated method and correlated (Pearson's correlation). The fully automated segmentation algorithm automatically detected bone and simultaneously separated cortical bone from callus without requiring ROI selection for each single bony structure. We found an association of structural callus parameters obtained by μCT to the biomechanical properties. However, results were only explicable by additionally considering the callus location. A large number of slightly comminuted fractures in combination with therapies that influence the callus qualitatively and/or quantitatively considerably affects the association between μCT and biomechanics. In the future, contrast-enhanced μCT imaging of the callus cartilage might provide more information to improve the non-destructive and non-invasive prediction of callus mechanical properties. As studies evaluating such important drugs increase, fully automated segmentation appears to be clinically important.

  4. Enamel lesion parameter correlations between polychromatic micro-CT and TMR.

    PubMed

    Hamba, H; Nikaido, T; Sadr, A; Nakashima, S; Tagami, J

    2012-06-01

    Transverse microradiography (TMR) is considered as the gold standard technique for the evaluation of enamel lesions. Micro-computed tomography (µCT) has the advantage of non-destructive measurements, but the beam-hardening effect with polychromatic x-rays is a major drawback. To date, no study has validated µCT against TMR. The objective of this study was to validate µCT measurements of enamel lesions under various x-ray conditions and software beam-hardening correction (BHC) against TMR. Human molars with natural white-spot lesions were scanned for 5 min by µCT at 100 kV in different conditions: 50 µA (0.5-mm Al filter), 165 µA (0.5-mm Al/0.3-mm Cu), and 200 µA (0.5-mm Al/0.4-mm Cu), with or without BHC. Grayscale values were converted into mineral density values using phantoms. Thin sections at the same positions were then prepared for TMR. Lesion depth (LD; µm) and mineral loss (ΔZ; vol%µm) were compared between µCT and TMR by Pearson's correlations. µCT measurements correlated well with TMR under all conditions (p < 0.001, r > 0.86 for LD and ΔZ), except for 0.5-mm Al without BHC (p > 0.05). Even without BHC, combined Al/Cu filters successfully reduced the beam-hardening effect. µCT can be used as a non-destructive alternative to TMR with comparable parameters for the study of enamel lesions.

  5. Simultaneous imaging of multiple contrast agents using full-spectrum micro-CT

    NASA Astrophysics Data System (ADS)

    Clark, D. P.; Touch, M.; Barber, W.; Badea, C. T.

    2015-03-01

    One of the major challenges for in vivo, micro-computed tomography (CT) imaging is poor soft tissue contrast. To increase contrast, exogenous contrast agents can be used as imaging probes. Combining these probes with a photon counting x-ray detector (PCXD) allows energy-sensitive CT and probe material decomposition from a series of images associated with different x-ray energies. We have implemented full-spectrum micro-CT using a PCXD and 2 keV energy sampling. We then decomposed multiple k-edge contrast materials present in an object (iodine, barium, and gadolinium) from water. Since the energy bins were quite narrow, the projection data was very noisy. This noise and further spectral distortions amplify errors in post-reconstruction material decompositions. Here, we propose and demonstrate a novel post-reconstruction denoising scheme which jointly enforces local and global gradient sparsity constraints, improving the contrast-to-noise ratio in full-spectrum micro-CT data and resultant material decompositions. We performed experiments using both calibration phantoms and ex vivo mouse data. Denoising increased the material contrast-to-noise ratio by an average of 13 times relative to filtered backprojection reconstructions. The relative decomposition error after denoising was 21%. To further improve material decomposition accuracy in future work, we also developed a model of the spectral distortions caused by PCXD imaging using known spectra from radioactive isotopes (109Cd, 133Ba). In future work, we plan to combine this model with the proposed denoising algorithm, enabling material decomposition with higher sensitivity and accuracy.

  6. Topographic optical profilometry of steep slope micro-optical transparent surfaces.

    PubMed

    Antón, Juan Carlos Martínez; Alonso, Jose; Pedrero, Jose Antonio Gómez

    2015-04-06

    Optical profilometers based on light reflection may fail at surfaces presenting steep slopes and highly curved features. Missed light, interference and diffraction at steps, peaks and valleys are some of the reasons. Consequently, blind areas or profile artifacts may be observed when using common reflection micro-optical profilometers (confocal, scanning interferometers, etc…). The Topographic Optical Profilometry by Absorption in Fluids (TOPAF) essentially avoids these limitations. In this technique an absorbing fluid fills the gap between a reference surface and the surface to profile. By comparing transmission images at two different spectral bands we obtain a reliable topographic map of the surface. In this contribution we develop a model to obtain the profile under micro-optical observation, where high numerical aperture (NA) objectives are mandatory. We present several analytical and experimental results, validating the technique's capabilities for profiling steep slopes and highly curved micro-optical surfaces with nanometric height resolution.

  7. Micro-optical Distributed Sensors for Aero Propulsion Applications

    NASA Technical Reports Server (NTRS)

    Arnold, S.; Otugen, V.; Seasholtz, Richard G. (Technical Monitor)

    2003-01-01

    The objective of this research is to develop micro-opto-mechanical system (MOMS)-based sensors for time- and space-resolved measurements of flow properties in aerodynamics applications. The measurement technique we propose uses optical resonances in dielectric micro-spheres that can be excited by radiation tunneling from optical fibers. It exploits the tunneling-induced and morphology-dependent shifts in the resonant frequencies. The shift in the resonant frequency is dependent on the size, shape, and index of refraction of the micro-sphere. A physical change in the environment surrounding a micro-bead can change one or more of these properties of the sphere thereby causing a shift in frequency of resonance. The change of the resonance frequency can be detected with high resolution by scanning a frequency-tunable laser that is coupled into the fiber and observing the transmission spectrum at the output of the fiber. It is expected that, in the future, the measurement concept will lead to a system of distributed micro-sensors providing spatial data resolved in time and space. The present project focuses on the development and demonstration of temperature sensors using the morphology-dependent optical resonances although in the latter part of the work, we will also develop a pressure sensor. During the period covered in this report, the optical and electronic equipment necessary for the experimental work was assembled and the experimental setup was designed for the single sensor temperature measurements. Software was developed for real-time tracking of the optical resonance shifts. Some preliminary experiments were also carried out to detect temperature using a single bead in a water bath.

  8. Imaging birefringent crystals using micro optical coherence tomography (Conference Presentation)

    NASA Astrophysics Data System (ADS)

    Sharma, Gargi; Singh, Kanwarpal; Gardecki, Joseph A.; Tearney, Guillermo J.

    2017-02-01

    Background: Uric acid crystals have recently been identified as a possible therapeutic target for coronary artery disease. Being subcellular in size, it is difficult to identify these crystals in situ. Micro optical coherence tomography (Micro-OCT) allows one to image subcellular structures with 1-micron resolution. Even though Micro-OCT should be capable of resolving urate crystals, it's difficult to differentiate these structures from other scattering particles within tissue. In this work we developed a novel polarization sensitive micro OCT (ps-Micro-OCT) system for identification of uric acid crystals. Methods: A spectrometer based ps-Micro-OCT system was developed using a broadband light source. The broadband input light was divided into reference and sample signals using a beam splitter. The reference signal was further divided into two polarized signals with different polarization states. Reflected reference and sample signals were combined and sent to a spectrometer that recorded the interference signal. Results: To test the performance of system, a mirror was used as sample and a quarter wave-plate was placed in the sample path. The measured quarter wave-plate angle values matched closely to actual angle values. Next we prepared uric acid crystals in our lab and imaged them using this system.We were able to image and identify these crystals based on polarization measurements. Conclusion: In this work we imaged and identified uric acid crystals using a newly developed ps-Micro-OCT system. The proposed technique will enable imaging uric acid crystals in coronary artery.

  9. Micro-CT features of intermediate gunshot wounds severely damaged by fire.

    PubMed

    Fais, Paolo; Giraudo, Chiara; Boscolo-Berto, Rafael; Amagliani, Alessandro; Miotto, Diego; Feltrin, Giampietro; Viel, Guido; Ferrara, S Davide; Cecchetto, Giovanni

    2013-03-01

    Incineration or extensive burning of the body, causing changes in the content and distribution of fluids, fixation and shrinking processes of tissues, can alter the typical macroscopic and microscopic characteristics of firearm wounds, hampering or at least complicating the reconstruction of gunshot fatalities. The present study aims at evaluating the potential role of micro-computed tomography (micro-CT) for detecting and quantifying gunshot residue (GSR) particles in experimentally produced intermediate-range gunshot wounds severely damaged by fire. Eighteen experimental shootings were performed on 18 sections of human calves surgically amputated for medical reasons at three different firing distances (5, 15 and 30 cm). Six stab wounds produced with an ice pick were used as controls. Each calf section underwent a charring cycle, being placed in a wood-burning stove for 4 min at a temperature of 400 °C. At visual inspection, the charred entrance wounds could not be differentiated from the exit lesions and the stab wounds. On the contrary, micro-CT analysis showed the presence of GSR particles in all burnt entrance gunshot wounds, while GSR was absent in the exit and stab wounds. The GSR deposits of the firearm lesions inflicted at very close distance (5 cm) were mainly constituted of huge particles (diameter >150 μm) with an irregular shape and well-delineated edges; at greater distances (15 and 30 cm), agglomerates of tiny radiopaque particles scattered in the epidermis and dermis layers were evident. Statistical analysis demonstrated that also in charred firearm wounds the amount of GSR roughly correlates with the distance from which the gun was fired. The obtained results suggest that micro-CT analysis can be a valid screening tool for identifying entrance gunshot wounds and for differentiating firearm wounds from sharp-force injuries in bodies severely damaged by fire.

  10. Micro-CT features of intermediate gunshot wounds covered by textiles.

    PubMed

    Giraudo, Chiara; Fais, Paolo; Pelletti, Guido; Viero, Alessia; Miotto, Diego; Boscolo-Berto, Rafael; Viel, Guido; Montisci, Massimo; Cecchetto, Giovanni; Ferrara, Santo Davide

    2016-09-01

    The analysis of gunshot residue (GSR) on the clothing and the underlying skin of the victim may play an important role in the reconstruction of the shooting incident. The aim of the present study was to test micro-computed tomography (micro-CT) for the analysis of firearm wounds experimentally produced on human skin covered by textiles. Firing trials were performed on 60 sections of human calves enveloped by a single layer of fabric (cotton or jeans or leather or nylon) and 15 controls consisting of bare calves. Experimental firings were conducted in a ballistic laboratory at three different muzzle-to-target distances (5, 15, and 30 cm), using a .32 ACP pistol (Beretta Mod. 81) loaded with full-jacketed bullets coming from the same production lot (7.65 × 17 mm, Browning SR). The visual inspection revealed the classic pattern of GSR distribution on the fabrics and the skin of control samples, while only a dark ring around the entrance lesion was identified on the skin beneath the fabrics. Micro-CT analysis showed the presence of radiopaque material on all entrance wounds, with a statistically significant difference between cases and controls. No differences were found among specimens covered by fabrics, with regard to the firing distance and the type of clothing. No GSR-like deposits were detected in exit wounds. Our results suggest that micro-CT analysis may be a useful screening tool for differentiating entry from exit gunshot wounds when the covering textiles are contaminated, damaged, or missing.

  11. Commissioning of a novel microCT/RT system for small animal conformal radiotherapy

    PubMed Central

    Rodriguez, Manuel; Zhou, Hu; Keall, Paul; Graves, Edward

    2010-01-01

    The purpose of this work was to commission a 120 kVp photon beam produced by a micro-computed tomography (microCT) scanner for use in irradiating mice to therapeutic doses. A variable-aperture collimator has been integrated with a microCT scanner to allow the delivery of beams with pseudocircular profiles of arbitrary width between 0.1 and 6.0 cm. The dose rate at the isocenter of the system was measured using ion chamber and gafchromic EBT film as 1.56–2.13 Gy min−1 at the water surface for field diameters between 0.2 and 6.0 cm. The dose rate decreases approximately 10% per every 5 mm depth in water for field diameters between 0.5 and 1.0 cm. The flatness, symmetry and penumbra of the beam are 3.6%, 1.0% and 0.5 mm, respectively. These parameters are sufficient to accurately conform the radiation dose delivered to target organs on mice. The irradiated field size is affected principally by the divergence of the beam. In general, the beam has appropriate dosimetric characteristics to accurately deliver the dose to organs inside the mice’s bodies. Using multiple beams delivered from a variety of angular directions, targets as small as 2 mm may be irradiated while sparing surrounding tissue. This microCT/RT system is a feasible tool to irradiate mice using treatment planning and delivery methods analogous to those applied to humans. PMID:19478377

  12. The Use of Micro-CT with Image Segmentation to Quantify Leakage in Dental Restorations

    PubMed Central

    Carrera, Carola A.; Lan, Caixia; Escobar-Sanabria, David; Li, Yuping; Rudney, Joel; Aparicio, Conrado; Fok, Alex

    2015-01-01

    Objective To develop a method for quantifying leakage in composite resin restorations after curing, using non-destructive X-ray micro-computed tomography (micro-CT) and image segmentation. Methods Class-I cavity preparations were made in 20 human third molars, which were divided into 2 groups. Group I was restored with Z100 and Group II with Filtek LS. Micro-CT scans were taken for both groups before and after they were submerged in silver nitrate solution (AgNO3 50%) to reveal any interfacial gap and leakage at the tooth restoration interface. Image segmentation was carried out by first performing image correlation to align the before- and after-treatment images and then by image subtraction to isolate the silver nitrate penetrant for precise volume calculation. Two-tailed Student’s t-test was used to analyze the results, with the level of significance set at p<0.05. Results All samples from Group I showed silver nitrate penetration with a mean volume of 1.3 ± 0.7 mm3. In Group II, only 2 out of the 10 restorations displayed infiltration along the interface, giving a mean volume of 0.3 ± 0.3 mm3. The difference between the two groups was statistically significant (p < 0.05). The infiltration showed non-uniform patterns within the interface. Significance We have developed a method to quantify the volume of leakage using non-destructive micro-CT, silver nitrate infiltration and image segmentation. Our results confirmed that substantial leakage could occur in composite restorations that have imperfections in the adhesive layer or interfacial debonding through polymerization shrinkage. For the restorative systems investigated in this study, this occurred mostly at the interface between the adhesive system and the tooth structure. PMID:25649496

  13. A robust geometry estimation method for spiral, sequential and circular cone-beam micro-CT

    SciTech Connect

    Sawall, Stefan; Knaup, Michael; Kachelriess, Marc

    2012-09-15

    Purpose: The authors propose a novel method for misalignment estimation of micro-CT scanners using an adaptive genetic algorithm. Methods: The proposed algorithm is able to estimate the rotational geometry, the direction vector of table movement and the displacement between different imaging threads of a dual source or even multisource scanner. The calibration procedure does not rely on dedicated calibration phantoms and a sequence scan of a single metal bead is sufficient to geometrically calibrate the whole imaging system for spiral, sequential, and circular scan protocols. Dual source spiral and sequential scan protocols in micro-computed tomography result in projection data that-besides the source and detector positions and orientations-also require a precise knowledge of the table direction vector to be reconstructed properly. If those geometric parameters are not known accurately severe artifacts and a loss in spatial resolution appear in the reconstructed images as long as no geometry calibration is performed. The table direction vector is further required to ensure that consecutive volumes of a sequence scan can be stitched together and to allow the reconstruction of spiral data at all. Results: The algorithm's performance is evaluated using simulations of a micro-CT system with known geometry and misalignment. To assess the quality of the algorithm in a real world scenario the calibration of a micro-CT scanner is performed and several reconstructions with and without geometry estimation are presented. Conclusions: The results indicate that the algorithm successfully estimates all geometry parameters, misalignment artifacts in the reconstructed volumes vanish, and the spatial resolution is increased as can be shown by the evaluation of modulation transfer function measurements.

  14. A micro-CT analysis of murine lung recruitment in bleomycin-induced lung injury

    PubMed Central

    Shofer, Scott; Badea, Cristian; Qi, Yi; Potts, Erin; Foster, W. Michael; Johnson, G. Allan

    2008-01-01

    The effects of lung injury on pulmonary recruitment are incompletely understood. X-ray computed tomography (CT) has been a valuable tool in assessing changes in recruitment during lung injury. With the development of preclinical CT scanners designed for thoracic imaging in rodents, it is possible to acquire high-resolution images during the evolution of a pulmonary injury in living mice. We quantitatively assessed changes in recruitment caused by intratracheal bleomycin at 1 and 3 wk after administration using micro-CT in 129S6/SvEvTac mice. Twenty female mice were administered 2.5 U of bleomycin or saline and imaged with micro-CT at end inspiration and end expiration. Mice were extubated and allowed to recover from anesthesia and then reevaluated in vivo for quasi-static compliance measurements, followed by harvesting of the lungs for collagen analysis and histology. CT images were converted to histograms and analyzed for mean lung attenuation (MLA). MLA was significantly greater for bleomycin-exposed mice at week 1 for both inspiration (P < 0.0047) and exhalation (P < 0.0377) but was not significantly different for week 3 bleomycin-exposed mice. However, week 3 bleomycin-exposed mice did display significant increases in MLA shift from expiration to inspiration compared with either group of control mice (P < 0.005), suggesting increased lung recruitment at this time point. Week 1 bleomycin-exposed mice displayed normal shifts in MLA with inspiration, suggesting normal lung recruitment despite significant radiographic and histological changes. Lung alveolar recruitment is preserved in a mouse model of bleomycin-induced parenchymal injury despite significant changes in radiographic and physiological parameters. PMID:18566189

  15. Characterization of operating parameters of an in vivo micro CT system

    NASA Astrophysics Data System (ADS)

    Ghani, Muhammad U.; Ren, Liqiang; Yang, Kai; Chen, Wei R.; Wu, Xizeng; Liu, Hong

    2016-03-01

    The objective of this study was to characterize the operating parameters of an in-vivo micro CT system. In-plane spatial resolution, noise, geometric accuracy, CT number uniformity and linearity, and phase effects were evaluated using various phantoms. The system employs a flat panel detector with a 127 μm pixel pitch, and a micro focus x-ray tube with a focal spot size ranging from 5-30 μm. The system accommodates three magnification sets of 1.72, 2.54 and 5.10. The in-plane cutoff frequencies (10% MTF) ranged from 2.31 lp/mm (60 mm FOV, M=1.72, 2×2 binning) to 13 lp/mm (10 mm FOV, M=5.10, 1×1 binning). The results were qualitatively validated by a resolution bar pattern phantom and the smallest visible lines were in 30-40 μm range. Noise power spectrum (NPS) curves revealed that the noise peaks exponentially increased as the geometric magnification (M) increased. True in-plane pixel spacing and slice thickness were within 2% of the system's specifications. The CT numbers in cone beam modality are greatly affected by scattering and thus they do not remain the same in the three magnifications. A high linear relationship (R2 > 0.999) was found between the measured CT numbers and Hydroxyapatite (HA) loadings of the rods of a water filled mouse phantom. Projection images of a laser cut acrylic edge acquired at a small focal spot size of 5 μm with 1.5 fps revealed that noticeable phase effects occur at M=5.10 in the form of overshooting at the boundary of air and acrylic. In order to make the CT numbers consistent across all the scan settings, scatter correction methods may be a valuable improvement for this system.

  16. Virtual commissioning of automated micro-optical assembly

    NASA Astrophysics Data System (ADS)

    Schlette, Christian; Losch, Daniel; Haag, Sebastian; Zontar, Daniel; Roßmann, Jürgen; Brecher, Christian

    2015-02-01

    In this contribution, we present a novel approach to enable virtual commissioning for process developers in micro-optical assembly. Our approach aims at supporting micro-optics experts to effectively develop assisted or fully automated assembly solutions without detailed prior experience in programming while at the same time enabling them to easily implement their own libraries of expert schemes and algorithms for handling optical components. Virtual commissioning is enabled by a 3D simulation and visualization system in which the functionalities and properties of automated systems are modeled, simulated and controlled based on multi-agent systems. For process development, our approach supports event-, state- and time-based visual programming techniques for the agents and allows for their kinematic motion simulation in combination with looped-in simulation results for the optical components. First results have been achieved for simply switching the agents to command the real hardware setup after successful process implementation and validation in the virtual environment. We evaluated and adapted our system to meet the requirements set by industrial partners-- laser manufacturers as well as hardware suppliers of assembly platforms. The concept is applied to the automated assembly of optical components for optically pumped semiconductor lasers and positioning of optical components for beam-shaping

  17. Micro CT characterization of a coastal mine tailings deposit, Portmán Bay, SE Spain

    NASA Astrophysics Data System (ADS)

    Frigola, Jaime; Cerdà-Domènech, Marc; Barriuso, Eduardo; Sanchez-Vidal, Anna; Amblas, David; Canals, Miquel

    2017-04-01

    Scanning of sediment cores by means of high-resolution non-destructive techniques provides researchers with huge amounts of highly valuable data allowing fast and detailed characterization of the materials. In the last decades several devoted instruments have been developed and applied to the study of sedimentary sequences, mainly multi-sensor core loggers (MSCL) for the physical properties and XRF core scanners for the chemical elemental composition. The geoscientific community started using computed tomography (CT) systems about two decades ago. These were mainly medical systems as dedicated instruments were essentially lacking by that time. The resolution of those medical systems was limited to several hundreds of micrometres voxel size. Micro computed tomography (micro-CT) systems have also spread into geoscientific research, although their limited workspace dimensions prevents their use for large objects, such as long sediment cores. Recently, a new micro-CT system, the MultiTom Core X-ray CT, conceived by University of Barcelona (UB) researchers and developed by X-ray Engineering, became operational. It is able of scanning sediment cores up to 1.5 m long, and allows adjustable resolutions from 300 microns down to 3-4 microns. The system is now installed at UB's CORELAB Laboratory for non-destructive analyses of geological materials. Here we present, as an example, the results of MultiTom scans of a set of sediment cores recovered offshore Portmán Bay, SE Spain, in order to characterize at very high-resolution the metal-enriched deposit generated after 33 years of direct discharge into the sea of mine tailings resulting from the exploitation of Pb and Zn ores. In total 52 short cores and 6 long gravity cores from the mine tailings infilled bay were scanned with the MultiTom system at a mean voxel resolution of 125 microns. The integrated study of micro-CT data allowed differentiating the main tailings units from deposits formed after disposal cessation

  18. Integrated-optic and micro-optic based miniature optical spectrometers

    NASA Astrophysics Data System (ADS)

    Chaganti, Kalyani

    Optical spectrometers have a wide variety of applications some of them being bio/chemical sensors, space applications, fluorescence spectroscopy, absorption and emission spectroscopy, environmental monitoring, military applications, remote sensing, medical diagnosis, diamond grading etc. Compact, light-weight, rigid miniature spectrometers with no moving parts are needed for a wide variety of applications including bio-sensors and space applications where every inch of payload counts. Miniaturization increases portability and paves way for making in-situ measurements. There is an increasing need today not only for compact, hand-held miniature designs but also for ones with high resolution. The performance of a spectrometer is better if its resolution is higher. In biosensors and chemical sensors, the sensitivity of the device is higher if the spectrometer has a higher resolution. We have proposed to achieve a better resolution than the existing designs in a wider spectral range while still retaining the compactness by introducing a novel concept which is a combination of 2-D geometry and 3-D geometry---a combination of integrated optics and micro-optics. We have successfully demonstrated two prototypes---one in a size of a cubic cm and the other, a cubic mm. We have demonstrated a resolution of 0.3 nm to 4.6 nm in a spectral range of 194 nm with a spectrometer optical part size of below 0.2 cubic cm and a 2 nm FWHM for the size of the spectrometer optical part below 0.01 cubic mm.

  19. Yeast metabolic state identification using micro-fiber optics spectroscopy

    NASA Astrophysics Data System (ADS)

    Silva, J. S.; Castro, C. C.; Vicente, A. A.; Tafulo, P.; Jorge, P. A. S.; Martins, R. C.

    2011-05-01

    Saccharomyces cerevisiae morphology is known to be dependent on the cell physiological state and environmental conditions. On their environment, wild yeasts tend to form complex colonies architectures, such as stress response and pseudohyphal filaments morphologies, far away from the ones found inside bioreactors, where the regular cell cycle is observed under controlled conditions (e.g. budding and flocculating colonies). In this work we explore the feasibility of using micro-fiber optics spectroscopy to classify Saccharomyces cerevisiae S288C colony structures in YPD media, under different growth conditions, such as: i) no alcohol; ii) 1 % (v/v) Ethanol; iii) 1 % (v/v) 1-butanol; iv) 1 % (v/v) Isopropanol; v) 1 % (v/v) Tert-Amyl alcohol (2 Methyl-2-butanol); vi) 0,2 % (v/v) 2-Furaldehyde; vii) 5 % (w/v) 5 (Hydroxymethyl)-furfural; and viii) 1 % (w/v) (-)-Adenosine3', 5'cyclic monophosphate. The microscopy system includes a hyperspectral camera apparatus and a micro fiber (sustained by micro manipulator) optics system for spectroscopy. Results show that micro fiber optics system spectroscopy has the potential for yeasts metabolic state identification once the spectral signatures of colonies differs from each others. This technique associated with others physico-chemical information can benefit the creation of an information system capable of providing extremely detailed information about yeast metabolic state that will aid both scientists and engineers to study and develop new biotechnological products.

  20. A Concept for Zero-Alignment Micro Optical Systems

    SciTech Connect

    DESCOUR, MICHAEL R.; KOLOLUOMA,TERHO; LEVEY,RAVIV; RANTALA,JUHA T.; SHUL,RANDY J.; WARREN,MIAL E.; WILLISON,CHRISTI LEE

    1999-09-16

    We are developing a method of constructing compact, three-dimensional photonics systems consisting of optical elements, e.g., lenses and mirrors, photo-detectors, and light sources, e.g., VCSELS or circular-grating lasers. These optical components, both active and passive, are mounted on a lithographically prepared silicon substrate. We refer to the substrate as a micro-optical table (MOT) in analogy with the macroscopic version routinely used in optics laboratories. The MOT is a zero-alignment, microscopic optical-system concept. The position of each optical element relative to other optical elements on the MOT is determined in the layout of the MOT photomask. Each optical element fits into a slot etched in the silicon MOT. The slots are etched using a high-aspect-ratio silicon etching (HARSE) process. Additional positioning features in each slot's cross-section and complementary features on each optical element permit accurate placement of that element's aperture relative to the MOT substrate. In this paper we present the results of the first fabrication and micro-assembly experiments of a silicon-wafer based MOT. Based on these experiments, estimates of position accuracy are reported. We also report on progress in fabrication of lens elements in a hybrid sol-gel material (HSGM). Diffractive optical elements have been patterned in a 13-micron thick HSGM layer on a 150-micron thick soda-lime glass substrate. The measured ms surface roughness was 20 nm. Finally, we describe modeling of MOT systems using non-sequential ray tracing (NSRT).

  1. Estimation of the firing distance through micro-CT analysis of gunshot wounds.

    PubMed

    Cecchetto, Giovanni; Giraudo, Chiara; Amagliani, Alessandro; Viel, Guido; Fais, Paolo; Cavarzeran, Fabiano; Feltrin, Giampietro; Ferrara, Santo Davide; Montisci, Massimo

    2011-03-01

    Estimation of the firing range is often critical for reconstructing gunshot fatalities, where the main measurable evidence is the gunshot residue (GSR). In the present study intermediate-range gunshot wounds have been analysed by means of a micro-computed tomography (micro-CT) coupled to an image analysis software in order to quantify the powder particles and to determine the firing distance. A total of 50 shootings were performed on skin sections obtained from human legs surgically amputated for medical reasons. For each tested distance (5, 15, 23, 30 and 40 cm), firing was carried out perpendicularly at the samples using a 7.65-mm pistol loaded with jacketed bullets. Uninjured skin sections were used as controls. By increasing the firing distance, micro-CT analysis demonstrated a clear decreasing trend in the mean GSR percentage, particularly for shots fired from more than 15 cm. For distances under 23 cm, the powder particles were concentrated on the epidermis and dermis around the hole, and inside the cavity; while, at greater distances, they were deposited only on the skin surface. Statistical analysis showed a nonlinear relationship between the amount of GSR deposits and the firing range, well explained by a Gaussian-like function. The proposed method allowed a good discrimination for all the tested distances, proving to be an objective, rapid and inexpensive tool for estimating the firing range in intermediate-range gunshot wounds.

  2. MicroCT angiography detects vascular formation and regression in skin wound healing.

    PubMed

    Urao, Norifumi; Okonkwo, Uzoagu A; Fang, Milie M; Zhuang, Zhen W; Koh, Timothy J; DiPietro, Luisa A

    2016-07-01

    Properly regulated angiogenesis and arteriogenesis are essential for effective wound healing. Tissue injury induces robust new vessel formation and subsequent vessel maturation, which involves vessel regression and remodeling. Although formation of functional vasculature is essential for healing, alterations in vascular structure over the time course of skin wound healing are not well understood. Here, using high-resolution ex vivo X-ray micro-computed tomography (microCT), we describe the vascular network during healing of skin excisional wounds with highly detailed three-dimensional (3D) reconstructed images and associated quantitative analysis. We found that relative vessel volume, surface area and branching number are significantly decreased in wounds from day 7 to days 14 and 21. Segmentation and skeletonization analysis of selected branches from high-resolution images as small as 2.5μm voxel size show that branching orders are decreased in the wound vessels during healing. In histological analysis, we found that the contrast agent fills mainly arterioles, but not small capillaries nor large veins. In summary, high-resolution microCT revealed dynamic alterations of vessel structures during wound healing. This technique may be useful as a key tool in the study of the formation and regression of wound vessels. Copyright © 2016 Elsevier Inc. All rights reserved.

  3. In vivo micro-CT analysis of bone remodeling in a rat calvarial defect model

    NASA Astrophysics Data System (ADS)

    Umoh, Joseph U.; Sampaio, Arthur V.; Welch, Ian; Pitelka, Vasek; Goldberg, Harvey A.; Underhill, T. Michael; Holdsworth, David W.

    2009-04-01

    The rodent calvarial defect model is commonly used to investigate bone regeneration and wound healing. This study presents a micro-computed tomography (micro-CT) methodology for measuring the bone mineral content (BMC) in a rat calvarial defect and validates it by estimating its precision error. Two defect models were implemented. A single 6 mm diameter defect was created in 20 rats, which were imaged in vivo for longitudinal experiments. Three 5 mm diameter defects were created in three additional rats, which were repeatedly imaged ex vivo to determine precision. Four control rats and four rats treated with bone morphogenetic protein were imaged at 3, 6, 9 and 12 weeks post-surgery. Scan parameters were 80 kVp, 0.45 mA and 180 mAs. Images were reconstructed with an isotropic resolution of 45 µm. At 6 weeks, the BMC in control animals (4.37 ± 0.66 mg) was significantly lower (p < 0.05) than that in treated rats (11.29 ± 1.01 mg). Linear regression between the BMC and bone fractional area, from 20 rats, showed a strong correlation (r2 = 0.70, p < 0.0001), indicating that the BMC can be used, in place of previous destructive analysis techniques, to characterize bone growth. The high precision (2.5%) of the micro-CT methodology indicates its utility in detecting small BMC changes in animals.

  4. A framework for modeling ocular drug transport and flow through the eye using micro-CT.

    PubMed

    Smith, Corey A; Newson, Timothy A; Leonard, Kevin C; Barfett, Joseph; Holdsworth, David W; Hutnik, Cindy M L; Hill, Kathleen A

    2012-10-07

    This study uses micro-computed tomography (micro-CT) imaging for assessment of concentration and transport mechanisms of ocular drug surrogates following intravitreal injection. Injections of an iodinated contrast agent were administered to enucleated porcine eyes prior to scanning over 192 min. Image analysis was performed using signal profiles and regions of interest that corresponded to specific iodine concentrations. Diffusion coefficients of the injected iodine solutions were calculated using nonlinear regression analysis with a diffusion model. There was a predominantly diffusive component in the movement of the contrast to the back of the eye in the horizontal (sagittal & coronal) directions, with ultimate retinal fate observed after 120 min. The diffusion coefficients were found to have a mean of 4.87 × 10(-4) mm(2) s(-1) and standard deviation of 8.39 × 10(-5) mm(2) s(-1) for 150 mg ml(-1) iodine concentration and 6.13 × 10(-4) ± 1.83 × 10(-4) mm(2) s(-1) for 37.5 mg ml(-1) concentration. However, it should be noted that these coefficients were time dependent and were found to decay as the diffusion front interacted with the retinal wall. A real-time, accurate, non-invasive method of tracking a bolus and its concentration is achieved using a high spatial resolution and fast scanning speed micro-CT system.

  5. Pore-Scale X-ray Micro-CT Imaging and Analysis of Oil Shales

    NASA Astrophysics Data System (ADS)

    Saif, T.

    2015-12-01

    The pore structure and the connectivity of the pore space during the pyrolysis of oil shales are important characteristics which determine hydrocarbon flow behaviour and ultimate recovery. We study the effect of temperature on the evolution of pore space and subsequent permeability on five oil shale samples: (1) Vernal Utah United States, (2) El Lajjun Al Karak Jordan, (3) Gladstone Queensland Australia (4) Fushun China and (5) Kimmerdige United Kingdom. Oil Shale cores of 5mm in diameter were pyrolized at 300, 400 and 500 °C. 3D imaging of 5mm diameter core samples was performed at 1μm voxel resolution using X-ray micro computed tomography (CT) and the evolution of the pore structures were characterized. The experimental results indicate that the thermal decomposition of kerogen at high temperatures is a major factor causing micro-scale changes in the internal structure of oil shales. At the early stage of pyrolysis, micron-scale heterogeneous pores were formed and with a further increase in temperature, the pores expanded and became interconnected by fractures. Permeability for each oil shale sample at each temperature was computed by simulation directly on the image voxels and by pore network extraction and simulation. Future work will investigate different samples and pursue insitu micro-CT imaging of oil shale pyrolysis to characterize the time evolution of the pore space.

  6. Micro-CT based finite element models for elastic properties of glass-ceramic scaffolds.

    PubMed

    Tagliabue, Stefano; Rossi, Erica; Baino, Francesco; Vitale-Brovarone, Chiara; Gastaldi, Dario; Vena, Pasquale

    2017-01-01

    In this study, the mechanical properties of porous glass-ceramic scaffolds are investigated by means of three-dimensional finite element models based on micro-computed tomography (micro-CT) scan data. In particular, the quantitative relationship between the morpho-architectural features of the obtained scaffolds, such as macroscopic porosity and strut thickness, and elastic properties, is sought. The macroscopic elastic properties of the scaffolds have been obtained through numerical homogenization approaches using the mechanical characteristics of the solid walls of the scaffolds (assessed through nanoindentation) as input parameters for the numerical simulations. Anisotropic mechanical properties of the produced scaffolds have also been investigated by defining a suitable anisotropy index. A comparison with morphological data obtained through the micro-CT scans is also presented. The proposed study shows that the produced glass-ceramic scaffolds exhibited a macroscopic porosity ranging between 29% and 97% which corresponds to an average stiffness ranging between 42.4GPa and 36MPa. A quantitative estimation of the isotropy of the macroscopic elastic properties has been performed showing that the samples with higher solid fractions were those closest to an isotropic material.

  7. Development of the 3D volumetric micro-CT scanner for preclinical animals

    NASA Astrophysics Data System (ADS)

    Kim, Kyong-Woo; Kim, Kyu-Gyeom; Kim, Jae-Hee; Min, Jong-Hwan; Lee, Hee-Sin; Lee, Joonwhoan

    2011-06-01

    A high resolution micro computed tomography (micro-CT) system for live small animal imaging has been developed. The system consists of an x-ray source with micro focus spot and high brightness, rotating gantry with a x-ray tube and flat panel detector pair and a stationary and a horizontally positioned small animal bed to achieve a conebeam mode scan. The system is optimized for in vivo small animal imaging and the capability of administering respiratory anesthesia during scanning. The Feldkamp algorithm was adopted in image reconstruction with graphic processing unit (GPU). We evaluated the spatial resolution, image contrast, and uniformity of system using phantom. As the result, the spatial resolution of the system was the 56lp/mm at 10% of the MTF curve, and the radiation dose to the sample was 98mGy. The minimal resolving contrast was found to be less than 46 CT numbers on low-contrast phantom. We present the image test results of the bone and lung, and heart of the live mice. [Figure not available: see fulltext.

  8. Induction and Micro-CT Imaging of Cerebral Cavernous Malformations in Mouse Model.

    PubMed

    Choi, Jaesung P; Yang, Xi; Foley, Matthew; Wang, Xian; Zheng, Xiangjian

    2017-09-04

    Mutations in the CCM1 (aka KRIT1), CCM2, or CCM3 (aka PDCD10) gene cause cerebral cavernous malformation (CCM) in humans. Mouse models of CCM disease have been established by tamoxifen induced deletion of Ccm genes in postnatal animals. These mouse models provide invaluable tools to investigate molecular mechanism and therapeutic approaches for CCM disease. An accurate and quantitative method to assess lesion burden and progression is essential to harness the full value of these animal models. Here, we demonstrate the induction of CCM disease in a mouse model and the use of the contrast enhanced X-ray micro computed tomography (micro-CT) method to measure CCM lesion burden in mouse brains. At postnatal day 1 (P1), we used 4-hydroxytamoxifen (4HT) to activate Cre recombinase activity from the Cdh5-CreErt2 transgene to cleave the floxed allele of Ccm2. CCM lesions in mouse brains were analyzed at P8. For micro-CT, iodine based Lugol's solution was used to enhance contrast in brain tissue. We have optimized the scan parameters and utilized a voxel dimension of 9.5 µm, which lead to a minimum feature size of approximately 25 µm. This resolution is sufficient to measure CCM lesion volume and number globally and accurately, and provide high-quality 3-D mapping of CCM lesions in mouse brains. This method enhances the value of the established mouse models to study the molecular basis and potential therapies for CCM and other cerebrovascular diseases.

  9. Whole-body imaging of a hypercholesterolemic female zebrafish by using synchrotron X-ray micro-CT.

    PubMed

    Seo, Eunseok; Lim, Jae-Hong; Seo, Seung Jun; Lee, Sang Joon

    2015-02-01

    Zebrafish has been used as a powerful model system in biological and biomedical studies studying development and diseases. Comparative, functional, and developmental studies on zebrafish morphology require precise visualization of 3D morphological structures. Few methods that can visualize whole-volume of zebrafish tissues are available because optical bio-imaging methods are limited by pigmentation and hard tissues. To overcome these limitations, the 3D microstructures of a hypercholesterolemic zebrafish model are visualized using synchrotron X-ray micro-computed tomography (SR-μCT). The model spatial resolution ranged from sub- to several microns. The microstructures of various zebrafish organs are observed by combining high-contrast staining (osmium tetroxide and uranyl acetate) and embedding a protocol to enhance the image contrast of soft tissues. Furthermore, blood vessels are identified using a barium sulfate injection technique. The internal organs and cells, such as liver, intestine, oocytes, and adipocytes, of a hypercholesterolemic zebrafish are compared with those of normal organs and cells. The SR-μCT is useful for understanding the pathogenesis of circulatory vascular diseases by detecting the modifications in the 3D morphological structures of the whole body of the zebrafish. This bio-imaging technique can be readily used to study other disease models.

  10. Whole-Body Imaging of a Hypercholesterolemic Female Zebrafish by Using Synchrotron X-Ray Micro-CT

    PubMed Central

    Seo, Eunseok; Lim, Jae-Hong; Seo, Seung Jun

    2015-01-01

    Abstract Zebrafish has been used as a powerful model system in biological and biomedical studies studying development and diseases. Comparative, functional, and developmental studies on zebrafish morphology require precise visualization of 3D morphological structures. Few methods that can visualize whole-volume of zebrafish tissues are available because optical bio-imaging methods are limited by pigmentation and hard tissues. To overcome these limitations, the 3D microstructures of a hypercholesterolemic zebrafish model are visualized using synchrotron X-ray micro-computed tomography (SR-μCT). The model spatial resolution ranged from sub- to several microns. The microstructures of various zebrafish organs are observed by combining high-contrast staining (osmium tetroxide and uranyl acetate) and embedding a protocol to enhance the image contrast of soft tissues. Furthermore, blood vessels are identified using a barium sulfate injection technique. The internal organs and cells, such as liver, intestine, oocytes, and adipocytes, of a hypercholesterolemic zebrafish are compared with those of normal organs and cells. The SR-μCT is useful for understanding the pathogenesis of circulatory vascular diseases by detecting the modifications in the 3D morphological structures of the whole body of the zebrafish. This bio-imaging technique can be readily used to study other disease models. PMID:25521241

  11. Detecting metastasis of gastric carcinoma using high-resolution micro-CT system: in vivo small animal study

    NASA Astrophysics Data System (ADS)

    Liu, Junting; Tian, Jie; Liang, Jimin; Li, Xiangsi; Yang, Xiang; Chen, Xiaofeng; Chen, Yi; Zhou, Yuanfang; Wang, Xiaorui

    2011-03-01

    Immunocytochemical and immunofluorescence staining are used for identifying the characteristics of metastasis in traditional ways. Micro-computed tomography (micro-CT) is a useful tool for monitoring and longitudinal imaging of tumor in small animal in vivo. In present study, we evaluated the feasibility of the detection for metastasis of gastric carcinoma by high-resolution micro-CT system with omnipaque accumulative enhancement method in the organs. Firstly, a high-resolution micro-CT ZKKS-MCT-sharp micro-CT was developed by our research group and Guangzhou Zhongke Kaisheng Medical Technology Co., Ltd. Secondly, several gastric carcinoma models were established through inoculating 2x106 BGC-823 gastric carcinoma cells subcutaneously. Thirdly, micro-CT scanning was performed after accumulative enhancement method of intraperitoneal injection of omnipaque contrast agent containing 360 mg iodine with a concentration of 350 mg I/ml. Finally, we obtained high-resolution anatomical information of the metastasis in vivo in a BALB/c NuNu nude mouse, the 3D tumor architecture is revealed in exquisite detail at about 35 μm spatial resolution. In addition, the accurate shape and volume of the micrometastasis as small as 0.78 mm3 can be calculated with our software. Overall, our data suggest that this imaging approach and system could be used to enhance the understanding of tumor proliferation, metastasis and could be the basis for evaluating anti-tumor therapies.

  12. Quantitative 3D micro-CT imaging of the human feto-placental vasculature in intrauterine growth restriction.

    PubMed

    Langheinrich, A C; Vorman, S; Seidenstücker, J; Kampschulte, M; Bohle, R M; Wienhard, J; Zygmunt, M

    2008-11-01

    Placental vascular development matches fetal growth and development. Quantification of the feto-placental vasculature in placentas from pregnancies is complicated by intrauterine growth restriction (IUGR) revealed confounding results. Therefore, the feto-placental vascular volume in IUGR placentas was assessed by 3D micro-computed tomography (micro-CT). Placental probes from IUGR (n=24) and healthy control placentas (n=40) were perfused in situ with Microfil or BaSO(4) and randomly chosen samples were scanned by micro-CT. Using 3D images, we quantitated the feto-placental vascular volume fraction (VVF). A subanalysis was performed at three different levels, reaching from the chorionic plate artery (level A), to intermediate arteries (level B) and capillary system (level C). Results were complemented by histology. The significance of differences in vascular volume measurements was tested with analysis of variance [ANOVA]. Microfil perfused placentas showed a total vascular volume fraction of 20.5+/-0.9% in healthy controls. In contrast, the VVF decreased to 7.9+/-0.9% (p<0.001) in IUGR placentas. Significant differences were found between Microfil and BaSO(4) perfused placentas in the vascular volume fraction using micro-CT and histology. Micro-CT demonstrated localized concentric luminal encroachments in the intermediate arteries in placentas complicated by IUGR. Micro-CT imaging is feasible for quantitative analysis of the feto-placental vascular tree in healthy controls and pregnancies complicated by IUGR.

  13. Estimating mineral changes in enamel formation by ashing/BSE and microCT.

    PubMed

    Schmitz, J E; Teepe, J D; Hu, Y; Smith, C E; Fajardo, R J; Chun, Y-H P

    2014-03-01

    Enamel formation produces the most highly mineralized tissue in the human body. The growth of enamel crystallites is assisted by enamel proteins and proteinases. As enamel formation progresses from secretory to maturation stages, the composition of the matrix with its mineral and non-mineral components dynamically changes in an inverse fashion. We hypothesized that appropriately calibrated micro-computed tomography (µCT) technology is suitable to estimate the mineral content (weight and/or density) and volume comparable in accuracy with that for directly weighed and sectioned enamel. Different sets of mouse mandibular incisors of C57BL/6 mice were used for dissections and µCT reconstructions. Calibration phantoms corresponding to the range of enamel mineral densities were used. Secretory-stage enamel contained little mineral and was consequently too poor in contrast for enamel volumes to be accurately estimated by µCT. Maturation-stage enamel, however, showed remarkable correspondence for total mineral content per volume where comparisons were possible between and among the different analytical techniques used. The main advantages of the µCT approach are that it is non-destructive, time-efficient, and can monitor changes in mineral content of the most mature enamel, which is too physically hard to dissect away from the tooth.

  14. Estimating Mineral Changes in Enamel Formation by Ashing/BSE and MicroCT

    PubMed Central

    Schmitz, J.E.; Teepe, J.D.; Hu, Y.; Smith, C.E.; Fajardo, R.J.; Chun, Y.-H.P.

    2014-01-01

    Enamel formation produces the most highly mineralized tissue in the human body. The growth of enamel crystallites is assisted by enamel proteins and proteinases. As enamel formation progresses from secretory to maturation stages, the composition of the matrix with its mineral and non-mineral components dynamically changes in an inverse fashion. We hypothesized that appropriately calibrated micro-computed tomography (µCT) technology is suitable to estimate the mineral content (weight and/or density) and volume comparable in accuracy with that for directly weighed and sectioned enamel. Different sets of mouse mandibular incisors of C57BL/6 mice were used for dissections and µCT reconstructions. Calibration phantoms corresponding to the range of enamel mineral densities were used. Secretory-stage enamel contained little mineral and was consequently too poor in contrast for enamel volumes to be accurately estimated by µCT. Maturation-stage enamel, however, showed remarkable correspondence for total mineral content per volume where comparisons were possible between and among the different analytical techniques used. The main advantages of the µCT approach are that it is non-destructive, time-efficient, and can monitor changes in mineral content of the most mature enamel, which is too physically hard to dissect away from the tooth. PMID:24470541

  15. Micro-CT Imaging of Tumor Angiogenesis: Quantitative Measures Describing Micromorphology and Vascularization

    PubMed Central

    Ehling, Josef; Theek, Benjamin; Gremse, Felix; Baetke, Sarah; Möckel, Diana; Maynard, Juliana; Ricketts, Sally-Ann; Grüll, Holger; Neeman, Michal; Knuechel, Ruth; Lederle, Wiltrud; Kiessling, Fabian; Lammers, Twan

    2014-01-01

    Angiogenesis is a hallmark of cancer, and its noninvasive visualization and quantification are key factors for facilitating translational anticancer research. Using four tumor models characterized by different degrees of aggressiveness and angiogenesis, we show that the combination of functional in vivo and anatomical ex vivo X-ray micro-computed tomography (μCT) allows highly accurate quantification of relative blood volume (rBV) and highly detailed three-dimensional analysis of the vascular network in tumors. Depending on the tumor model, rBV values determined using in vivo μCT ranged from 2.6% to 6.0%, and corresponds well with the values assessed using IHC. Using ultra-high-resolution ex vivo μCT, blood vessels as small as 3.4 mm and vessel branches up to the seventh order could be visualized, enabling a highly detailed and quantitative analysis of the three-dimensional micromorphology of tumor vessels. Microvascular parameters such as vessel size and vessel branching correlated very well with tumor aggressiveness and angiogenesis. In rapidly growing and highly angiogenic A431 tumors, the majority of vessels were small and branched only once or twice, whereas in slowly growing A549 tumors, the vessels were much larger and branched four to seven times. Thus, we consider that combining highly accurate functional with highly detailed anatomical μCT is a useful tool for facilitating high-throughput, quantitative, and translational (anti-) angiogenesis and antiangiogenesis research. PMID:24262753

  16. Compressive Sampling Based Interior Reconstruction for Dynamic Carbon Nanotube Micro-CT

    PubMed Central

    Yu, Hengyong; Cao, Guohua; Burk, Laurel; Lee, Yueh; Lu, Jianping; Santago, Pete; Zhou, Otto; Wang, Ge

    2010-01-01

    In the computed tomography (CT) field, one recent invention is the so-called carbon nanotube (CNT) based field emission x-ray technology. On the other hand, compressive sampling (CS) based interior tomography is a new innovation. Combining the strengths of these two novel subjects, we apply the interior tomography technique to local mouse cardiac imaging using respiration and cardiac gating with a CNT based micro-CT scanner. The major features of our method are: (1) it does not need exact prior knowledge inside an ROI; and (2) two orthogonal scout projections are employed to regularize the reconstruction. Both numerical simulations and in vivo mouse studies are performed to demonstrate the feasibility of our methodology. PMID:19923686

  17. Micro-CT evaluation of bone defects: applications to osteolytic bone metastases, bone cysts, and fracture.

    PubMed

    Buie, Helen R; Bosma, Nick A; Downey, Charlene M; Jirik, Frank R; Boyd, Steven K

    2013-11-01

    Bone defects can occur in various forms and present challenges to performing a standard micro-CT evaluation of bone quality because most measures are suited to homogeneous structures rather than ones with spatially focal abnormalities. Such defects are commonly associated with pain and fragility. Research involving bone defects requires quantitative approaches to be developed if micro-CT is to be employed. In this study, we demonstrate that measures of inter-microarchitectural bone spacing are sensitive to the presence of focal defects in the proximal tibia of two distinctly different mouse models: a burr-hole model for fracture healing research, and a model of osteolytic bone metastases. In these models, the cortical and trabecular bone compartments were both affected by the defect and were, therefore, evaluated as a single unit to avoid splitting the defects into multiple analysis regions. The burr-hole defect increased mean spacing (Sp) by 27.6%, spacing standard deviation (SpSD) by 113%, and maximum spacing (Spmax) by 72.8%. Regression modeling revealed SpSD (β=0.974, p<0.0001) to be a significant predictor of the defect volume (R(2)=0.949) and Spmax (β=0.712, p<0.0001) and SpSD (β=0.271, p=0.022) to be significant predictors of the defect diameter (R(2)=0.954). In the mice with osteolytic bone metastases, spacing parameters followed similar patterns of change as reflected by other imaging technologies, specifically bioluminescence data which is indicative of tumor burden. These data highlight the sensitivity of spacing measurements to bone architectural abnormalities from 3D micro-CT data and provide a tool for quantitative evaluation of defects within a bone.

  18. Registration-based segmentation of murine 4D cardiac micro-CT data using symmetric normalization

    PubMed Central

    Clark, Darin; Badea, Alexandra; Liu, Yilin; Johnson, G. Allan; Badea, Cristian T.

    2013-01-01

    Micro-CT can play an important role in preclinical studies of cardiovascular disease because of its high spatial and temporal resolution. Quantitative analysis of 4D cardiac images requires segmentation of the cardiac chambers at each time point, an extremely time consuming process if done manually. To improve throughput this study proposes a pipeline for registration-based segmentation and functional analysis of 4D cardiac micro-CT data in the mouse. Following optimization and validation using simulations, the pipeline was applied to in vivo cardiac micro-CT data corresponding to 10 cardiac phases acquired in C57BL/6 mice (n = 5). After edge-preserving smoothing with a novel adaptation of 4D bilateral filtration, one phase within each cardiac sequence was manually segmented. Deformable registration was used to propagate these labels to all other cardiac phases for segmentation. The volumes of each cardiac chamber were calculated and used to derive stroke volume, ejection fraction, cardiac output, and cardiac index. Dice coefficients and volume accuracies were used to compare manual segmentations of two additional phases with their corresponding propagated labels. Both measures were, on average, >0.90 for the left ventricle and >0.80 for the myocardium, the right ventricle, and the right atrium, consistent with trends in inter- and intra-segmenter variability. Segmentation of the left atrium was less reliable. On average, the functional metrics of interest were underestimated by 6.76% or more due to systematic label propagation errors around atrioventricular valves; however, execution of the pipeline was 80% faster than performing analogous manual segmentation of each phase. PMID:22971564

  19. Registration-based segmentation of murine 4D cardiac micro-CT data using symmetric normalization.

    PubMed

    Clark, Darin; Badea, Alexandra; Liu, Yilin; Johnson, G Allan; Badea, Cristian T

    2012-10-07

    Micro-CT can play an important role in preclinical studies of cardiovascular disease because of its high spatial and temporal resolution. Quantitative analysis of 4D cardiac images requires segmentation of the cardiac chambers at each time point, an extremely time consuming process if done manually. To improve throughput this study proposes a pipeline for registration-based segmentation and functional analysis of 4D cardiac micro-CT data in the mouse. Following optimization and validation using simulations, the pipeline was applied to in vivo cardiac micro-CT data corresponding to ten cardiac phases acquired in C57BL/6 mice (n = 5). After edge-preserving smoothing with a novel adaptation of 4D bilateral filtration, one phase within each cardiac sequence was manually segmented. Deformable registration was used to propagate these labels to all other cardiac phases for segmentation. The volumes of each cardiac chamber were calculated and used to derive stroke volume, ejection fraction, cardiac output, and cardiac index. Dice coefficients and volume accuracies were used to compare manual segmentations of two additional phases with their corresponding propagated labels. Both measures were, on average, >0.90 for the left ventricle and >0.80 for the myocardium, the right ventricle, and the right atrium, consistent with trends in inter- and intra-segmenter variability. Segmentation of the left atrium was less reliable. On average, the functional metrics of interest were underestimated by 6.76% or more due to systematic label propagation errors around atrioventricular valves; however, execution of the pipeline was 80% faster than performing analogous manual segmentation of each phase.

  20. Registration-based segmentation of murine 4D cardiac micro-CT data using symmetric normalization

    NASA Astrophysics Data System (ADS)

    Clark, Darin; Badea, Alexandra; Liu, Yilin; Johnson, G. Allan; Badea, Cristian T.

    2012-10-01

    Micro-CT can play an important role in preclinical studies of cardiovascular disease because of its high spatial and temporal resolution. Quantitative analysis of 4D cardiac images requires segmentation of the cardiac chambers at each time point, an extremely time consuming process if done manually. To improve throughput this study proposes a pipeline for registration-based segmentation and functional analysis of 4D cardiac micro-CT data in the mouse. Following optimization and validation using simulations, the pipeline was applied to in vivo cardiac micro-CT data corresponding to ten cardiac phases acquired in C57BL/6 mice (n = 5). After edge-preserving smoothing with a novel adaptation of 4D bilateral filtration, one phase within each cardiac sequence was manually segmented. Deformable registration was used to propagate these labels to all other cardiac phases for segmentation. The volumes of each cardiac chamber were calculated and used to derive stroke volume, ejection fraction, cardiac output, and cardiac index. Dice coefficients and volume accuracies were used to compare manual segmentations of two additional phases with their corresponding propagated labels. Both measures were, on average, >0.90 for the left ventricle and >0.80 for the myocardium, the right ventricle, and the right atrium, consistent with trends in inter- and intra-segmenter variability. Segmentation of the left atrium was less reliable. On average, the functional metrics of interest were underestimated by 6.76% or more due to systematic label propagation errors around atrioventricular valves; however, execution of the pipeline was 80% faster than performing analogous manual segmentation of each phase.

  1. Accuracy of cancellous bone volume fraction measured by micro-CT scanning.

    PubMed

    Ding, M; Odgaard, A; Hvid, I

    1999-03-01

    Volume fraction, the single most important parameter in describing trabecular microstructure, can easily be calculated from three-dimensional reconstructions of micro-CT images. This study sought to quantify the accuracy of this measurement. One hundred and sixty human cancellous bone specimens which covered a large range of volume fraction (9.8-39.8%) were produced. The specimens were micro-CT scanned, and the volume fraction based on Archimedes' principle was determined as a reference. After scanning, all micro-CT data were segmented using individual thresholds determined by the scanner supplied algorithm (method I). A significant deviation of volume fraction from method I was found: both the y-intercept and the slope of the regression line were significantly different from those of the Archimedes-based volume fraction (p < 0.001). New individual thresholds were determined based on a calibration of volume fraction to the Archimedes-based volume fractions (method II). The mean thresholds of the two methods were applied to segment 20 randomly selected specimens. The results showed that volume fraction using the mean threshold of method I was underestimated by 4% (p = 0.001), whereas the mean threshold of method II yielded accurate values. The precision of the measurement was excellent. Our data show that care must be taken when applying thresholds in generating 3-D data, and that a fixed threshold may be used to obtain reliable volume fraction data. This fixed threshold may be determined from the Archimedes-based volume fraction of a subgroup of specimens. The threshold may vary between different materials, and so it should be determined whenever a study series is performed.

  2. Influence of segmentation on micro-CT images of trabecular bone.

    PubMed

    Tassani, S; Korfiatis, V; Matsopoulos, G K

    2014-11-01

    Segmentation of biomedical images is of great importance in various studies aiming to both the identification of regions of interests within the image and the performance of quantified measurements. Nevertheless, the segmentation of the biomedical images represents a wide range of medical cases and there is not a unique technique applicable to all kinds of medical images. In this study, three popular techniques for segmenting micro-CT images of bone microstructures are evaluated. Fixed threshold, Otsu's algorithm and a modified version of the Chan-Vese segmentation technique have been applied on micro-CT images and have been compared to higher resolution golden standard, that is histological images. The modification of the Chan-Vese technique is based on the novel implementation of a new initialization process called the Branch Point Initialization. Stereological measurements were performed on all the segmented images and statistically compared to the golden standard. Fixed threshold and the modified Chan-Vese technique have shown comparable results, with a maximum significant error of about 10%. However, Chan-Vese showed an easier, faster and more reliable segmentation procedure for optimal settings identification. The Otsu's method showed a maximum error larger than 20%. Given the limits and advantages of the known segmentation techniques, the proposed modified Chan-Vese active contour technique shows high potential for use in the segmentation of micro-CT images as well as in other high-resolution X-ray images. This potential is augmented by the recent introduction of high-resolution clinical technologies for which standard techniques have already shown to be insufficient. © 2014 The Authors Journal of Microscopy © 2014 Royal Microscopical Society.

  3. Construct damage and loosening around glenoid implants: A longitudinal micro-CT study of five cadaver specimens.

    PubMed

    Lewis, Gregory S; Brenza, Jacob B; Paul, Emmanuel M; Armstrong, April D

    2016-06-01

    The evolution of failure of bone and cement leading to loosening of glenoid components following shoulder arthroplasty is not well understood. The purpose of this study was to identify and visualize potential mechanisms of mechanical failure within cadavers, cemented with two types of components, and subject to cyclic loading. Five glenoid cadaver bones were implanted with either a three-pegged polyethylene component, or prototype posteriorly augmented component which addresses posterior bone loss. Specimens were loaded by constant glenohumeral compression combined with cyclic anterior-posterior displacement of the humeral head relative to the glenoid. At six time points across 100,000 cycles, implant loosening micromotions were optically measured, and specimens were imaged by micro-computed tomography. Scans were 3D registered and inspected for crack initiation and progression, and micro-CT based time-lapse movies were created. Cement cracking initiated at stress concentrations and progressed with additional cyclic loading. Failure planes within trabecular bone and the bone-cement interface were identified in four of the five specimens. Implant subsidence increased to greater than 1.0 mm in two specimens. Cemented glenoid structural failure can occur within the cement, along planes of trabecular bone, or at the bone cement interface. © 2015 Orthopaedic Research Society. Published by Wiley Periodicals, Inc. J Orthop Res 34:1053-1060, 2016. © 2015 Orthopaedic Research Society. Published by Wiley Periodicals, Inc.

  4. MicroCT with energy-resolved photon-counting detectors.

    PubMed

    Wang, X; Meier, D; Mikkelsen, S; Maehlum, G E; Wagenaar, D J; Tsui, B M W; Patt, B E; Frey, E C

    2011-05-07

    The goal of this paper was to investigate the benefits that could be realistically achieved on a microCT imaging system with an energy-resolved photon-counting x-ray detector. To this end, we built and evaluated a prototype microCT system based on such a detector. The detector is based on cadmium telluride (CdTe) radiation sensors and application-specific integrated circuit (ASIC) readouts. Each detector pixel can simultaneously count x-ray photons above six energy thresholds, providing the capability for energy-selective x-ray imaging. We tested the spectroscopic performance of the system using polychromatic x-ray radiation and various filtering materials with K-absorption edges. Tomographic images were then acquired of a cylindrical PMMA phantom containing holes filled with various materials. Results were also compared with those acquired using an intensity-integrating x-ray detector and single-energy (i.e. non-energy-selective) CT. This paper describes the functionality and performance of the system, and presents preliminary spectroscopic and tomographic results. The spectroscopic experiments showed that the energy-resolved photon-counting detector was capable of measuring energy spectra from polychromatic sources like a standard x-ray tube, and resolving absorption edges present in the energy range used for imaging. However, the spectral quality was degraded by spectral distortions resulting from degrading factors, including finite energy resolution and charge sharing. We developed a simple charge-sharing model to reproduce these distortions. The tomographic experiments showed that the availability of multiple energy thresholds in the photon-counting detector allowed us to simultaneously measure target-to-background contrasts in different energy ranges. Compared with single-energy CT with an integrating detector, this feature was especially useful to improve differentiation of materials with different attenuation coefficient energy dependences.

  5. MicroCT with energy-resolved photon-counting detectors

    PubMed Central

    Wang, X; Meier, D; Mikkelsen, S; Maehlum, G E; Wagenaar, D J; Tsui, BMW; Patt, B E; Frey, E C

    2011-01-01

    The goal of this paper was to investigate the benefits that could be realistically achieved on a microCT imaging system with an energy-resolved photon-counting x-ray detector. To this end, we built and evaluated a prototype microCT system based on such a detector. The detector is based on cadmium telluride (CdTe) radiation sensors and application-specific integrated circuit (ASIC) readouts. Each detector pixel can simultaneously count x-ray photons above six energy thresholds, providing the capability for energy-selective x-ray imaging. We tested the spectroscopic performance of the system using polychromatic x-ray radiation and various filtering materials with Kabsorption edges. Tomographic images were then acquired of a cylindrical PMMA phantom containing holes filled with various materials. Results were also compared with those acquired using an intensity-integrating x-ray detector and single-energy (i.e. non-energy-selective) CT. This paper describes the functionality and performance of the system, and presents preliminary spectroscopic and tomographic results. The spectroscopic experiments showed that the energy-resolved photon-counting detector was capable of measuring energy spectra from polychromatic sources like a standard x-ray tube, and resolving absorption edges present in the energy range used for imaging. However, the spectral quality was degraded by spectral distortions resulting from degrading factors, including finite energy resolution and charge sharing. We developed a simple charge-sharing model to reproduce these distortions. The tomographic experiments showed that the availability of multiple energy thresholds in the photon-counting detector allowed us to simultaneously measure target-to-background contrasts in different energy ranges. Compared with single-energy CT with an integrating detector, this feature was especially useful to improve differentiation of materials with different attenuation coefficient energy dependences. PMID:21464527

  6. A Micro-Computed Tomography Technique to Study the Quality of Fibre Optics Embedded in Composite Materials

    PubMed Central

    Chiesura, Gabriele; Luyckx, Geert; Voet, Eli; Lammens, Nicolas; Van Paepegem, Wim; Degrieck, Joris; Dierick, Manuel; Van Hoorebeke, Luc; Vanderniepen, Pieter; Sulejmani, Sanne; Sonnenfeld, Camille; Geernaert, Thomas; Berghmans, Francis

    2015-01-01

    Quality of embedment of optical fibre sensors in carbon fibre-reinforced polymers plays an important role in the resultant properties of the composite, as well as for the correct monitoring of the structure. Therefore, availability of a tool able to check the optical fibre sensor-composite interaction becomes essential. High-resolution 3D X-ray Micro-Computed Tomography, or Micro-CT, is a relatively new non-destructive inspection technique which enables investigations of the internal structure of a sample without actually compromising its integrity. In this work the feasibility of inspecting the position, the orientation and, more generally, the quality of the embedment of an optical fibre sensor in a carbon fibre reinforced laminate at unit cell level have been proven. PMID:25961383

  7. First 3D reconstruction of the rhizocephalan root system using MicroCT

    NASA Astrophysics Data System (ADS)

    Noever, Christoph; Keiler, Jonas; Glenner, Henrik

    2016-07-01

    Parasitic barnacles (Cirripedia: Rhizocephala) are highly specialized parasites of crustaceans. Instead of an alimentary tract for feeding they utilize a system of roots, which infiltrates the body of their hosts to absorb nutrients. Using X-ray micro computer tomography (MicroCT) and computer-aided 3D-reconstruction, we document the spatial organization of this root system, the interna, inside the intact host and also demonstrate its use for morphological examinations of the parasites reproductive part, the externa. This is the first 3D visualization of the unique root system of the Rhizocephala in situ, showing how it is related to the inner organs of the host. We investigated the interna from different parasitic barnacles of the family Peltogastridae, which are parasitic on anomuran crustaceans. Rhizocephalan parasites of pagurid hermit crabs and lithodid crabs were analysed in this study.

  8. Optically driven Archimedes micro-screws for micropump application.

    PubMed

    Lin, Chih-Lang; Vitrant, Guy; Bouriau, Michel; Casalegno, Roger; Baldeck, Patrice L

    2011-04-25

    Archimedes micro-screws have been fabricated by three-dimensional two-photon polymerization using a Nd:YAG Q-switched microchip laser at 532nm. Due to their small sizes they can be easily manipulated, and made to rotate using low power optical tweezers. Rotation rates up to 40 Hz are obtained with a laser power of 200 mW, i.e. 0.2 Hz/mW. A photo-driven micropump action in a microfluidic channel is demonstrated with a non-optimized flow rate of 6 pL/min. The optofluidic properties of such type of Archimedes micro-screws are quantitatively described by the conservation of momentum that occurs when the laser photons are reflected on the helical micro-screw surface.

  9. Diffractive micro-optical element with nonpoint response

    NASA Astrophysics Data System (ADS)

    Soifer, Victor A.; Golub, Michael A.

    1993-01-01

    Common-use diffractive lenses have microrelief zones in the form of simple rings that provide only an optical power but do not contain any image information. They have a point-image response under point-source illumination. We must use a more complicated non-point response to focus a light beam into different light marks, letter-type images as well as for optical pattern recognition. The current presentation describes computer generation of diffractive micro- optical elements with complicated curvilinear zones of a regular piecewise-smooth structure and grey-level or staircase phase microrelief. The manufacture of non-point response elements uses the steps of phase-transfer calculation and orthogonal-scan masks generation or lithographic glass etching. Ray-tracing method is shown to be applicable in this task. Several working samples of focusing optical elements generated by computer and photolithography are presented. Using the experimental results we discuss here such applications as laser branding.

  10. Raman Spectroscopy of Optically Trapped Single Biological Micro-Particles

    PubMed Central

    Redding, Brandon; Schwab, Mark J.; Pan, Yong-le

    2015-01-01

    The combination of optical trapping with Raman spectroscopy provides a powerful method for the study, characterization, and identification of biological micro-particles. In essence, optical trapping helps to overcome the limitation imposed by the relative inefficiency of the Raman scattering process. This allows Raman spectroscopy to be applied to individual biological particles in air and in liquid, providing the potential for particle identification with high specificity, longitudinal studies of changes in particle composition, and characterization of the heterogeneity of individual particles in a population. In this review, we introduce the techniques used to integrate Raman spectroscopy with optical trapping in order to study individual biological particles in liquid and air. We then provide an overview of some of the most promising applications of this technique, highlighting the unique types of measurements enabled by the combination of Raman spectroscopy with optical trapping. Finally, we present a brief discussion of future research directions in the field. PMID:26247952

  11. Confocal micro-optical distance sensor: realization and results

    NASA Astrophysics Data System (ADS)

    Lucke, Peter; Last, Arndt; Mohr, Jurgen; Ruprecht, Aiko K.; Pruss, Christof; Tiziani, Hans J.; Osten, Wolfgang; Lehmann, Peter; Schonfelder, Sven

    2005-06-01

    In this paper, the realization and characterization of a microoptical sensor using the chromatic confocal principle is presented. The sensor head is designed for distance gauging applications in high aspect ratio cavities with a diameter of about 2 mm. The first part of this paper focuses on the design and fabrication process of the hybrid optical benches, which combines refractive and diffractive micro optical components. Very tight tolerances of the optical path are required for the functionality of the sensor. Therefore the alignment structures and mounts between the different optical elements are produced from PMMA using deep X-ray lithography, the first step of the LIGA process. In the second part of this paper the characterization of first prototypes using different light sources are described and results presented.

  12. Raman Spectroscopy of Optically Trapped Single Biological Micro-Particles.

    PubMed

    Redding, Brandon; Schwab, Mark; Pan, Yong-le

    2015-08-04

    The combination of optical trapping with Raman spectroscopy provides a powerful method for the study, characterization, and identification of biological micro-particles. In essence, optical trapping helps to overcome the limitation imposed by the relative inefficiency of the Raman scattering process. This allows Raman spectroscopy to be applied to individual biological particles in air and in liquid, providing the potential for particle identification with high specificity, longitudinal studies of changes in particle composition, and characterization of the heterogeneity of individual particles in a population. In this review, we introduce the techniques used to integrate Raman spectroscopy with optical trapping in order to study individual biological particles in liquid and air. We then provide an overview of some of the most promising applications of this technique, highlighting the unique types of measurements enabled by the combination of Raman spectroscopy with optical trapping. Finally, we present a brief discussion of future research directions in the field.

  13. Feasibility and Safety of Fiber Optic Micro-Imaging in Canine Peripheral Airways

    PubMed Central

    Huang, Ziyang; Guo, Rui; Wu, Jingxing; Liu, Xun; Yao, Kaiqing; Lv, Fajin; Deng, Huisheng

    2014-01-01

    Purpose To assess the feasibility and safety of imaging canine peripheral airways (<1 mm) with an experimental micro-imaging fiber optic bronchoscope. Methods Twenty healthy dogs were scoped with a micro-imaging fiber optic bronchoscope (0.8 mm outer diameter). Images at various levels of the bronchioles, mucosal color, and tracheal secretions were recorded. The apparatus was stopped once it was difficult to insert. CT imaging was performed simultaneously to monitor progression. The safety of the device was evaluated by monitoring heart rate (HR), respiratory rate (RR), mean artery pressure (MAP), peripheral oxygen saturation (SpO2) and arterial blood gases (partial pressure of arterial carbon-dioxide, PaCO2, partial pressure of arterial oxygen, PaO2, and blood pH). Results (1) According to the CT scan, the micro-imaging fiber was able to access the peripheral airways (<1 mm) in canines. (2) There was no significant change in the values of HR, MAP, pH and PaCO2 during the procedure (P>0.05). Comparing pre-manipulation and post-manipulation values, SpO2 (F = 13.06, P<0.05) and PaO2 (F = 3.01, P = 0.01) were decreased, whereas RR (F = 3.85, P<0.05) was elevated during the manipulation. (3) Self-limited bleeding was observed in one dog; severe bleeding or other complications did not occur. Conclusion Although the new apparatus had little effect on SpO2, PaO2 and RR, it can probe into small peripheral airways (<1 mm), which may provide a new platform for the early diagnosis of bronchiolar diseases. PMID:24416294

  14. Preliminary of Optical Lens Design for Micro-Satellite

    NASA Astrophysics Data System (ADS)

    Rachim, Elvira; Mukhtar Tahir, Andi; Herawan, Agus

    2017-01-01

    The development of micro satellites for the last two decades is emerging rapidly as the need of satellite communication usage is increasing. Earth observation is one of the example of how satellites are on demand. Most observation satellites consist of sensors and imaging system on-board. One of the key element to have a good imaging system is a special optical lens system design. Such lens is designed specifically by calculating every parameter such as refractive, reflective indexes, type of surface, distance and many more. Manufactured lenses sometimes do not match the requirement of an imager system hence the special lens design is needed. This paper will first briefly describe the history of optic, theory related to lens system, then the design and the analysis of lens system for micro-satellites generally and LAPAN A4 particularly.

  15. Micro-optical elements for optical wireless applications

    NASA Astrophysics Data System (ADS)

    Jin, Xian; Guerrero, Daniel; Klukas, Richard; Holzman, Jonathan F.

    2013-09-01

    Customized high-contact-angle microlenses are presented for optical wireless communication (OWC) and optical wireless location (OWL) applications. These microlenses are fabricated by way of an electro-dispensing technique to establish wide field-of-views (FOVs). Each microlens is formed from dispensed UV-curable polymer with pressurecontrol defining the microlens volume and a voltage on the metal needle tip defining the microlens shape (by way of electrowetting). UV curing is then applied. Microlenses with FOVs up to 90° are fabricated for high-density integration above a CMOS imaging sensor for wide-FOV operation in emerging OWC and OWL applications. Both theoretical raytracing analyses and experimental imaging results are presented with good agreement.

  16. MicroCT analysis of a retrieved root restored with a bonded fiber-reinforced composite dowel: a pilot study.

    PubMed

    Lorenzoni, Fabio Cesar; Bonfante, Estevam A; Bonfante, Gerson; Martins, Leandro M; Witek, Lukasz; Silva, Nelson R F A

    2013-08-01

    This evaluation aimed to (1) validate micro-computed tomography (microCT) findings using scanning electron microscopy (SEM) imaging, and (2) quantify the volume of voids and the bonded surface area resulting from fiber-reinforced composite (FRC) dowel cementation technique using microCT scanning technology/3D reconstructing software. A fiberglass dowel was cemented in a condemned maxillary lateral incisor prior to its extraction. A microCT scan was performed of the extracted tooth creating a large volume of data in DICOM format. This set of images was imported to image-processing software to inspect the internal architecture of structures. The outer surface and the spatial relationship of dentin, FRC dowel, cement layer, and voids were reconstructed. Three-dimensional spatial architecture of structures and volumetric analysis revealed that 9.89% of the resin cement was composed of voids and that the bonded area between root dentin and cement was 60.63% larger than that between cement and FRC dowel. SEM imaging demonstrated the presence of voids similarly observed using microCT technology (aim 1). MicroCT technology was able to nondestructively measure the volume of voids within the cement layer and the bonded surface area at the root/cement/FRC interfaces (aim 2). The interfaces at the root dentin/cement/dowel represent a timely and relevant topic where several efforts have been conducted in the past few years to understand their inherent features. MicroCT technology combined with 3D reconstruction allows for not only inspecting the internal arrangement rendered by fiberglass adhesively bonded to root dentin, but also estimating the volume of voids and contacted bond area between the dentin and cement layer. © 2013 by the American College of Prosthodontists.

  17. Design and property study of micro-slot optics

    NASA Astrophysics Data System (ADS)

    Wang, Yuting; Yi, Futing; Zhang, Tianchong; Liu, Jing; Wang, Bo; Zhou, Yue

    2017-03-01

    LIGA (Lithographie Galvanoformung Abformung) as a very useful technique for fabricating devices with micro-scale structures has been reported to make the micro-pore optics (MPO) for years. Light weight is one of the advantages of MPO, making it an alternative for X-ray focusing lenses used on space telescopes. However, researchers seldom considered using the MPO in visible light region. In this article, we designed a micro-slot optics (MSO) similar to MPO and fabricated it by X-ray LIGA technique. The MSO consists of 159 concentric hollow cylinders of nickel with the slot spacings ranging from 59 to 113 μm and the focusing property of MSO is studied by simulations and experiments. Both the simulation and experiment results indicate that MSO is a useful focusing element. The MSO has one focal point when the point source is on the principal optical axis with the size of the focal point equaling to the size of the point source.

  18. Micro-optical imaging concepts for an intraocular vision aid

    NASA Astrophysics Data System (ADS)

    Eix, Ilos; Stork, Wilhelm; Muller-Glaser, Klaus D.

    2004-03-01

    About 10 million people around the world are suffering from blindness, where the path of light is disturbed due to an opaque, irreversible damaged, and inoperable cornea. Although vision is not given to this group of population, the retina is still intact. To date, there is no artificial implant which is able to replace the natural cornea. The work presented here describes an approach to build and implant a micro-optical and microelectronic system to be used as an intraocular vision aid. By overcoming the disturbed light path, it yields to an improved visual acuity of the patient. The main aspect of this bio-mimetic system is to transfer information representing the patient's field of view to the retina. An image of the field of view is captured in real-time outside the eye. After employing data processing, it is wireless transferred to the implanted part of the vision aid. From there, the information emerging from a micro display is imaged to the retina via a micro-optical system. The limited display resolution available inside the eye and the limited dimensions of the eyeball build the constrains of the optical system. A combination of a spatial light modulator together with an imaging lens system realizes intelligent spatial information distribution schemes onto the retina. This ensures a high outcome of visual acuity in the central region of the retina. Various retinal acuities can be realized. The employment of in-vivo adjustment mechanisms of the focal plane is discussed.

  19. Combined optical resolution photoacoustic and fluorescence micro-endoscopy

    NASA Astrophysics Data System (ADS)

    Shao, Peng; Shi, Wei; Hajireza, Parsin; Zemp, Roger J.

    2012-02-01

    We present a new micro-endoscopy system combining real-time C-scan optical-resolution photoacoustic micro-endoscopy (OR-PAME), and a high-resolution fluorescence micro-endoscopy system for visualizing fluorescently labeled cellular components and optically absorbing microvasculature simultaneously. With a diode-pumped 532-nm fiber laser, the OR-PAM sub-system is capable of imaging with a resolution of ~ 7μm. The fluorescence sub-system consists of a diode laser with 445 nm-centered emissions as the light source, an objective lens and a CCD camera. Proflavine, a FDA approved drug for human use, is used as the fluorescent contrast agent by topical application. The fluorescence system does not require any mechanical scanning. The scanning laser and the diode laser light source share the same light path within an optical fiber bundle containing 30,000 individual single mode fibers. The absorption of Proflavine at 532 nm is low, which mitigates absorption bleaching of the contrast agent by the photoacoustic excitation source. We demonstrate imaging in live murine models. The system is able to provide cellular morphology with cellular resolution co-registered with the structural and functional information given by OR-PAM. Therefore, the system has the potential to serve as a virtual biopsy technique, helping researchers and clinicians visualize angiogenesis, effects of anti-cancer drugs on both cells and the microcirculation, as well as aid in the study of other diseases.

  20. A registration-based segmentation method with application to adiposity analysis of mice microCT images

    NASA Astrophysics Data System (ADS)

    Bai, Bing; Joshi, Anand; Brandhorst, Sebastian; Longo, Valter D.; Conti, Peter S.; Leahy, Richard M.

    2014-04-01

    Obesity is a global health problem, particularly in the U.S. where one third of adults are obese. A reliable and accurate method of quantifying obesity is necessary. Visceral adipose tissue (VAT) and subcutaneous adipose tissue (SAT) are two measures of obesity that reflect different associated health risks, but accurate measurements in humans or rodent models are difficult. In this paper we present an automatic, registration-based segmentation method for mouse adiposity studies using microCT images. We co-register the subject CT image and a mouse CT atlas. Our method is based on surface matching of the microCT image and an atlas. Surface-based elastic volume warping is used to match the internal anatomy. We acquired a whole body scan of a C57BL6/J mouse injected with contrast agent using microCT and created a whole body mouse atlas by manually delineate the boundaries of the mouse and major organs. For method verification we scanned a C57BL6/J mouse from the base of the skull to the distal tibia. We registered the obtained mouse CT image to our atlas. Preliminary results show that we can warp the atlas image to match the posture and shape of the subject CT image, which has significant differences from the atlas. We plan to use this software tool in longitudinal obesity studies using mouse models.

  1. Low-cost plastic micro-optics for board level optical interconnections

    NASA Astrophysics Data System (ADS)

    Debaes, C.; Vervaeke, M.; Volckaerts, B.; Van Erps, J.; Desmet, L.; Ottevaere, H.; Vynck, P.; Gomez, V.; Hermanne, A.; Thienpont, H.

    2006-02-01

    One of the grand challenges in solving the interconnection bottlenecks at the Printed Circuit Board (PCB) and Multi-Chip-Module (MCM) level, is to adequately replace the PCB and intra-MCM galvanic interconnects with high-performance, low-cost, compact and reliable micro-photonic alternatives. In our labs at the Vrije Universiteit Brussel we are therefore focusing on the continuous development of a rapid prototyping technology for micro-optical interconnect modules, which we call Deep Proton Writing (DPW).The special feature of this prototyping technology is that it is compatible with commercial low-cost mass replication techniques such as micro injection moulding and hot embossing. We will address more specifically in this paper the following components: 1) out-of-plane couplers for optical wave-guides embedded in PCB, 2) peripheral fiber ribbons and two dimensional single- and multimode fiber connectors for high-speed parallel optical connections, and 3) intra-MCM level optical interconnections via free-space optical modules. We furthermore give special attention to the optical tolerancing and the opto-mechanical integration of the components. We use both a sensitivity analysis to misalignment errors and Monte Carlo simulations. It is our aim to investigate the whole component integration chain from the optoelectronic device to the micro-opto-mechanical components constituting the interconnect module.

  2. Evaluation of the OSC-TV iterative reconstruction algorithm for cone-beam optical CT

    SciTech Connect

    Matenine, Dmitri Mascolo-Fortin, Julia; Goussard, Yves

    2015-11-15

    Purpose: The present work evaluates an iterative reconstruction approach, namely, the ordered subsets convex (OSC) algorithm with regularization via total variation (TV) minimization in the field of cone-beam optical computed tomography (optical CT). One of the uses of optical CT is gel-based 3D dosimetry for radiation therapy, where it is employed to map dose distributions in radiosensitive gels. Model-based iterative reconstruction may improve optical CT image quality and contribute to a wider use of optical CT in clinical gel dosimetry. Methods: This algorithm was evaluated using experimental data acquired by a cone-beam optical CT system, as well as complementary numerical simulations. A fast GPU implementation of OSC-TV was used to achieve reconstruction times comparable to those of conventional filtered backprojection. Images obtained via OSC-TV were compared with the corresponding filtered backprojections. Spatial resolution and uniformity phantoms were scanned and respective reconstructions were subject to evaluation of the modulation transfer function, image uniformity, and accuracy. The artifacts due to refraction and total signal loss from opaque objects were also studied. Results: The cone-beam optical CT data reconstructions showed that OSC-TV outperforms filtered backprojection in terms of image quality, thanks to a model-based simulation of the photon attenuation process. It was shown to significantly improve the image spatial resolution and reduce image noise. The accuracy of the estimation of linear attenuation coefficients remained similar to that obtained via filtered backprojection. Certain image artifacts due to opaque objects were reduced. Nevertheless, the common artifact due to the gel container walls could not be eliminated. Conclusions: The use of iterative reconstruction improves cone-beam optical CT image quality in many ways. The comparisons between OSC-TV and filtered backprojection presented in this paper demonstrate that OSC-TV can

  3. Evaluation of the OSC-TV iterative reconstruction algorithm for cone-beam optical CT.

    PubMed

    Matenine, Dmitri; Mascolo-Fortin, Julia; Goussard, Yves; Després, Philippe

    2015-11-01

    The present work evaluates an iterative reconstruction approach, namely, the ordered subsets convex (OSC) algorithm with regularization via total variation (TV) minimization in the field of cone-beam optical computed tomography (optical CT). One of the uses of optical CT is gel-based 3D dosimetry for radiation therapy, where it is employed to map dose distributions in radiosensitive gels. Model-based iterative reconstruction may improve optical CT image quality and contribute to a wider use of optical CT in clinical gel dosimetry. This algorithm was evaluated using experimental data acquired by a cone-beam optical CT system, as well as complementary numerical simulations. A fast GPU implementation of OSC-TV was used to achieve reconstruction times comparable to those of conventional filtered backprojection. Images obtained via OSC-TV were compared with the corresponding filtered backprojections. Spatial resolution and uniformity phantoms were scanned and respective reconstructions were subject to evaluation of the modulation transfer function, image uniformity, and accuracy. The artifacts due to refraction and total signal loss from opaque objects were also studied. The cone-beam optical CT data reconstructions showed that OSC-TV outperforms filtered backprojection in terms of image quality, thanks to a model-based simulation of the photon attenuation process. It was shown to significantly improve the image spatial resolution and reduce image noise. The accuracy of the estimation of linear attenuation coefficients remained similar to that obtained via filtered backprojection. Certain image artifacts due to opaque objects were reduced. Nevertheless, the common artifact due to the gel container walls could not be eliminated. The use of iterative reconstruction improves cone-beam optical CT image quality in many ways. The comparisons between OSC-TV and filtered backprojection presented in this paper demonstrate that OSC-TV can potentially improve the rendering of

  4. GaAs micro-pyramids serving as optical micro-cavities

    SciTech Connect

    Karl, M.; Beck, T.; Li, S.; Hu, D. Z.; Schaadt, D. M.; Kalt, H.; Hetterich, M.

    2010-01-04

    An efficient light-matter coupling requires high-quality (Q) micro-cavities with small mode volume. We suggest GaAs micro-pyramids placed on top of AlAs/GaAs distributed Bragg reflectors to be promising candidates. The pyramids were fabricated by molecular-beam epitaxy, electron-beam lithography and a subsequent wet-chemical etching process using a sacrificial AlAs layer. Measured Q-factors of optical modes in single pyramids reach values up to 650. A finite-difference time-domain simulation assuming a simplified cone-shaped geometry suggests possible Q-factors up to 3600. To enhance the light confinement in the micro-pyramids we intend to overgrow the pyramidal facets with a Bragg mirror--results of preliminary tests are given.

  5. Insight into 3D micro-CT data: exploring segmentation algorithms through performance metrics.

    PubMed

    Perciano, Talita; Ushizima, Daniela; Krishnan, Harinarayan; Parkinson, Dilworth; Larson, Natalie; Pelt, Daniël M; Bethel, Wes; Zok, Frank; Sethian, James

    2017-09-01

    Three-dimensional (3D) micro-tomography (µ-CT) has proven to be an important imaging modality in industry and scientific domains. Understanding the properties of material structure and behavior has produced many scientific advances. An important component of the 3D µ-CT pipeline is image partitioning (or image segmentation), a step that is used to separate various phases or components in an image. Image partitioning schemes require specific rules for different scientific fields, but a common strategy consists of devising metrics to quantify performance and accuracy. The present article proposes a set of protocols to systematically analyze and compare the results of unsupervised classification methods used for segmentation of synchrotron-based data. The proposed dataflow for Materials Segmentation and Metrics (MSM) provides 3D micro-tomography image segmentation algorithms, such as statistical region merging (SRM), k-means algorithm and parallel Markov random field (PMRF), while offering different metrics to evaluate segmentation quality, confidence and conformity with standards. Both experimental and synthetic data are assessed, illustrating quantitative results through the MSM dashboard, which can return sample information such as media porosity and permeability. The main contributions of this work are: (i) to deliver tools to improve material design and quality control; (ii) to provide datasets for benchmarking and reproducibility; (iii) to yield good practices in the absence of standards or ground-truth for ceramic composite analysis.

  6. Optimizing synchrotron microCT for high-throughput phenotyping of zebrafish

    NASA Astrophysics Data System (ADS)

    La Rivière, Patrick J.; Clark, Darin; Rojek, Alexandra; Vargas, Phillip; Xiao, Xianghui; DeCarlo, Francesco; Kindlmann, Gordon; Cheng, Keith

    2010-09-01

    We are creating a state-of-the-art 2D and 3D imaging atlas of zebrafish development. The atlas employs both 2D histology slides and 3D benchtop and synchrotron micro CT results. Through this atlas, we expect to document normal and abnormal organogenesis, to reveal new levels of structural detail, and to advance image informatics as a form of systems biology. The zebrafish has become a widely used model organism in biological and biomedical research for studies of vertebrate development and gene function. In this work, we will report on efforts to optimize synchrotron microCT imaging parameters for zebrafish at crucial developmental stages. The aim of these studies is to establish protocols for high-throughput phenotyping of normal, mutant and diseased zebrafish. We have developed staining and embedding protocols using different heavy metal stains (osmium tetroxide and uranyl acetate) and different embedding media (Embed 812 and glycol methacrylate). We have explored the use of edge subtraction and multi-energy techniques for contrast enhancement and we have examined the use of different sample-detector distances with unstained samples to explore and optimize phase-contrast enhancement effects. We will report principally on our efforts to optimize energy choice for single- and multi-energy studies as well as our efforts to optimize the degree of phase contrast enhancement.

  7. Micro-CT assessment of the sealing ability of three root canal filling techniques.

    PubMed

    Celikten, Berkan; F Uzuntas, Ceren; I Orhan, Ayse; Tufenkci, Pelin; Misirli, Melis; O Demiralp, Kemal; Orhan, Kaan

    2015-01-01

    This study used micro-CT to compare three obturation techniques with respect to void occurrence in canals filled with bioceramic sealer. Thirty extracted first mandibular premolars were prepared with a ProTaper Universal system and randomly allocated to three groups. Canals were obturated with gutta-percha and bioceramic root canal sealer, using either single-cone, lateral compaction, or Thermafil filling technique. Each tooth was then scanned with micro-CT. Voids in 2D cross-sectional images and void volumes in 3D images of all root thirds were assessed in relation to obturation technique. There was no significant difference between obturation techniques in the proportion of sections with voids (P > 0.05). However, the results of the obturation techniques significantly differed in relation to root region (P < 0.05). In conclusion, no root filling technique resulted in void-free specimens. Void volumes were highest for the single-cone technique and lowest for Thermafil, in all regions (P < 0.05).

  8. In Vivo MicroCT Monitoring of Osteomyelitis in a Rat Model

    PubMed Central

    Stadelmann, Vincent A.; Potapova, Inga; Camenisch, Karin; Nehrbass, Dirk; Richards, R. Geoff; Moriarty, T. Fintan

    2015-01-01

    Infection associated with orthopedic implants often results in bone loss and requires surgical removal of the implant. The aim of this study was to evaluate morphological changes of bone adjacent to a bacteria-colonized implant, with the aim of identifying temporal patterns that are characteristic of infection. In an in vivo study with rats, bone changes were assessed using in vivo microCT at 7 time points during a one-month postoperative period. The rats received either a sterile or Staphylococcus aureus-colonized polyetheretherketone screw in the tibia. Bone-implant contact, bone fraction, and bone changes (quiescent, resorbed, and new bone) were calculated from consecutive scans and validated against histomorphometry. The screw pullout strength was estimated from FE models and the results were validated against mechanical testing. In the sterile group, bone-implant contact, bone fraction, and mechanical fixation increased steadily until day 14 and then plateaued. In the infected group, they decreased rapidly. Bone formation was reduced while resorption was increased, with maximum effects observed within 6 days. In summary, the model presented is capable of evaluating the patterns of bone changes due to implant-related infections. The combined use of longitudinal in vivo microCT imaging and image-based finite element analysis provides characteristic signs of infection within 6 days. PMID:26064928

  9. Monte Carlo dosimetry of iodine contrast objects in a small animal microCT

    NASA Astrophysics Data System (ADS)

    Rodríguez-Villafuerte, M.; Martínez-Dávalos, A.

    2011-08-01

    Small animal microcomputed tomography (microCT) studies with iodine-based contrast media are commonly used in preclinical research. While the use of contrast media improves the quality of the images, it can also result in an increase in the absorbed dose to organs with high concentration of the contrast agent, which might cause radiation damage to the animal. In this work we present the results of a Monte Carlo investigation of a microCT dosimetry study using mouse-sized cylindrical water phantoms with iodine contrast insets for different X-ray spectra (Mo and W targets, 30-80 kVp), iodine concentrations (0, 5, 10 and 15 mg mL-1) and contrast object sizes (3 and 10 mm diameter). Our results indicate an absorbed dose increase in the contrast-inset regions with respect to the absorbed dose distribution within a reference uniform water phantom. The calculated spatial absorbed dose distributions show large gradients due to beam hardening effects, and large absorbed dose enhancement as the mean energy of the beam and iodine concentration increase. We have found that absorbed doses in iodine contrast objects can increase by a factor of up to 12 for a realistic 80 kVp X-ray spectra and an iodine concentration of 15 mg mL-1.

  10. Angiogenesis in tissue-engineered nerves evaluated objectively using MICROFIL perfusion and micro-CT scanning

    PubMed Central

    Wang, Hong-kui; Wang, Ya-xian; Xue, Cheng-bin; Li, Zhen-mei-yu; Huang, Jing; Zhao, Ya-hong; Yang, Yu-min; Gu, Xiao-song

    2016-01-01

    Angiogenesis is a key process in regenerative medicine generally, as well as in the specific field of nerve regeneration. However, no convenient and objective method for evaluating the angiogenesis of tissue-engineered nerves has been reported. In this study, tissue-engineered nerves were constructed in vitro using Schwann cells differentiated from rat skin-derived precursors as supporting cells and chitosan nerve conduits combined with silk fibroin fibers as scaffolds to bridge 10-mm sciatic nerve defects in rats. Four weeks after surgery, three-dimensional blood vessel reconstructions were made through MICROFIL perfusion and micro-CT scanning, and parameter analysis of the tissue-engineered nerves was performed. New blood vessels grew into the tissue-engineered nerves from three main directions: the proximal end, the distal end, and the middle. The parameter analysis of the three-dimensional blood vessel images yielded several parameters, including the number, diameter, connection, and spatial distribution of blood vessels. The new blood vessels were mainly capillaries and microvessels, with diameters ranging from 9 to 301 μm. The blood vessels with diameters from 27 to 155 μm accounted for 82.84% of the new vessels. The microvessels in the tissue-engineered nerves implanted in vivo were relatively well-identified using the MICROFIL perfusion and micro-CT scanning method, which allows the evaluation and comparison of differences and changes of angiogenesis in tissue-engineered nerves implanted in vivo. PMID:26981108

  11. Submicrometer structure of sea urchin tooth via remote synchrotron microCT imaging

    NASA Astrophysics Data System (ADS)

    Stock, Stuart R.; Rack, Alexander

    2014-09-01

    Remote electron microscopy sessions are featured at a number of imaging centers. Similarly, many synchrotron light sources offer routine "mail-in" crystallography and powder diffractometry. At imaging beam lines, small numbers of (preliminary) scans are sometimes performed by staff, in the absence of the investigator, to demonstrate feasibility of the proposed study or as an industrial service. In the 1990s, one of us (SRS) participated in processing experiments where samples were couriered between Georgia Tech and SSRL and synchrotron microCT followed the spatial distribution of densification. Here, the authors report results of remote microCT experiments, i.e., where the investigator who knows the sample interacts via the web with the beam line scientist operating the apparatus and provides real-time feedback on where to scan based upon radiographs and on the most recent reconstructions. Local tomography imaged sea urchin teeth with 350 nm isotropic volume element (voxel) at beam line ID-19, ESRF. Sea urchin teeth form by growing parallel plates of high Mg calcite, each of which is 2-5 μm away from its neighbors, and very high Mg calcite columns later link the plates. The remote imaging session focused on tooth positions where the columns were just forming, and column shapes and dimensions were measured, something which has previously only been done with destructive sample preparation and scanning electron microscopy. The experiments were successful despite a separation of 4,400 miles and seven time zones.

  12. Micro-CT finite element model and experimental validation of trabecular bone damage and fracture.

    PubMed

    Hambli, Ridha

    2013-10-01

    Most micro-CT finite element modeling of human trabecular bone has focused on linear and non-linear analysis to evaluate bone failure properties. However, prediction of the apparent failure properties of trabecular bone specimens under compressive load, including the damage initiation and its progressive propagation until complete bone failure into consideration, is still lacking. In the present work, an isotropic micro-CT FE model at bone tissue level coupled to a damage law was developed in order to simulate the failure of human trabecular bone specimens under quasi-static compressive load and predict the apparent stress and strain. The element deletion technique was applied in order to simulate the progressive fracturing process of bone tissue. To prevent mesh-dependence that generally affects the damage propagation rate, regularization technique was applied in the current work. The model was validated with experimental results performed on twenty-three human trabecular specimens. In addition, a sensitivity analysis was performed to investigate the impact of the model factors' sensitivities on the predicted ultimate stress and strain of the trabecular specimens. It was found that the predicted failure properties agreed very well with the experimental ones. © 2013.

  13. Bone Micro-CT Assessments in an Orchidectomised Rat Model Supplemented with Eurycoma longifolia

    PubMed Central

    Ramli, Rosmaliza; Khamis, Mohd Fadhli; Shuid, Ahmad Nazrun

    2012-01-01

    Recent studies suggested that Eurycoma longifolia, a herbal plant, may have the potential to treat osteoporosis in elderly male. This study aimed to determine the effects of Eurycoma longifolia supplementation on the trabecular bone microarchitecture of orchidectomised rats (androgen-deficient osteoporosis model). Forty-eight-aged (10–12 months old) Sprague Dawley rats were divided into six groups of sham-operated (SHAM), orchidectomised control (ORX), orchidectomised + 7 mg/rat testosterone enanthate (TEN) and orchidectomised + Eurycoma longifolia 30 mg/kg (EL30), orchidectomised + Eurycoma longifolia 60 mg/kg (EL60), orchidectomised + Eurycoma longifolia 90 mg/kg (EL90). Rats were euthanized following six weeks of treatment. The left femora were used to measure the trabecular bone microarchitecture using micro-CT. Orchidectomy significantly decreased connectivity density, trabecular bone volume, and trabecular number compared to the SHAM group. Testosterone replacement reversed all the orchidectomy-induced changes in the micro-CT parameters. EL at 30 and 60 mg/kg rat worsened the trabecular bone connectivity density and trabecular separation parameters of orchidectomised rats. EL at 90 mg/kg rat preserved the bone volume. High dose of EL (90 mg/kg) may have potential in preserving the bone microarchitecture of orchidectomised rats, but lower doses may further worsen the osteoporotic changes. PMID:22952556

  14. Bone Micro-CT Assessments in an Orchidectomised Rat Model Supplemented with Eurycoma longifolia.

    PubMed

    Ramli, Rosmaliza; Khamis, Mohd Fadhli; Shuid, Ahmad Nazrun

    2012-01-01

    Recent studies suggested that Eurycoma longifolia, a herbal plant, may have the potential to treat osteoporosis in elderly male. This study aimed to determine the effects of Eurycoma longifolia supplementation on the trabecular bone microarchitecture of orchidectomised rats (androgen-deficient osteoporosis model). Forty-eight-aged (10-12 months old) Sprague Dawley rats were divided into six groups of sham-operated (SHAM), orchidectomised control (ORX), orchidectomised + 7 mg/rat testosterone enanthate (TEN) and orchidectomised + Eurycoma longifolia 30 mg/kg (EL30), orchidectomised + Eurycoma longifolia 60 mg/kg (EL60), orchidectomised + Eurycoma longifolia 90 mg/kg (EL90). Rats were euthanized following six weeks of treatment. The left femora were used to measure the trabecular bone microarchitecture using micro-CT. Orchidectomy significantly decreased connectivity density, trabecular bone volume, and trabecular number compared to the SHAM group. Testosterone replacement reversed all the orchidectomy-induced changes in the micro-CT parameters. EL at 30 and 60 mg/kg rat worsened the trabecular bone connectivity density and trabecular separation parameters of orchidectomised rats. EL at 90 mg/kg rat preserved the bone volume. High dose of EL (90 mg/kg) may have potential in preserving the bone microarchitecture of orchidectomised rats, but lower doses may further worsen the osteoporotic changes.

  15. Phase-selective image reconstruction of the lungs in small animals using micro-CT

    NASA Astrophysics Data System (ADS)

    Johnston, S. M.; Perez, B. A.; Kirsch, D. G.; Badea, C. T.

    2010-04-01

    Gating in small animal imaging can compensate for artifacts due to physiological motion. This paper presents a strategy for sampling and image reconstruction in the rodent lung using micro-CT. The approach involves rapid sampling of freebreathing mice without any additional hardware to detect respiratory motion. The projection images are analyzed postacquisition to derive a respiratory signal, which is used to provide weighting factors for each projection that favor a selected phase of the respiration (e.g. end-inspiration or end-expiration) for the reconstruction. Since the sampling cycle and the respiratory cycle are uncorrelated, the sets of projections corresponding to any of the selected respiratory phases do not have a regular angular distribution. This drastically affects the image quality of reconstructions based on simple filtered backprojection. To address this problem, we use an iterative reconstruction algorithm that combines the Simultaneous Algebraic Reconstruction Technique with Total Variation minimization (SART-TV). At each SART-TV iteration, backprojection is performed with a set of weighting factors that favor the desired respiratory phase. To reduce reconstruction time, the algorithm is implemented on a graphics processing unit. The performance of the proposed approach was investigated in simulations and in vivo scans of mice with primary lung cancers imaged with our in-house developed dual tube/detector micro-CT system. We note that if the ECG signal is acquired during sampling, the same approach could be used for phase-selective cardiac imaging.

  16. Ex vivo micro-CT imaging of murine brain models using non-ionic iodinated contrast

    NASA Astrophysics Data System (ADS)

    Salas Bautista, N.; Martínez-Dávalos, A.; Rodríguez-Villafuerte, M.; Murrieta-Rodríguez, T.; Manjarrez-Marmolejo, J.; Franco-Pérez, J.; Calvillo-Velasco, M. E.

    2014-11-01

    Preclinical investigation of brain tumors is frequently carried out by means of intracranial implantation of brain tumor xenografts or allografts, with subsequent analysis of tumor growth using conventional histopathology. However, very little has been reported on the use contrast-enhanced techniques in micro-CT imaging for the study of malignant brain tumors in small animal models. The aim of this study has been to test a protocol for ex vivo imaging of murine brain models of glioblastoma multiforme (GBM) after treatment with non-ionic iodinated solution, using an in-house developed laboratory micro-CT. We have found that the best compromise between acquisition time and image quality is obtained using a 50 kVp, 0.5 mAs, 1° angular step on a 360 degree orbit acquisition protocol, with 70 μm reconstructed voxel size using the Feldkamp algorithm. With this parameters up to 4 murine brains can be scanned in tandem in less than 15 minutes. Image segmentation and analysis of three sample brains allowed identifying tumor volumes as small as 0.4 mm3.

  17. 3D visualization and quantification of rat cortical bone porosity using a desktop micro-CT system: a case study in the tibia.

    PubMed

    Britz, H M; Jokihaara, J; Leppänen, O V; Järvinen, T; Cooper, D M L

    2010-10-01

    Although micro-computed tomography (micro-CT) has become the gold standard for assessing the 3D structure of trabecular bone, its extension to cortical bone microstructure has been relatively limited. Desktop micro-CT has been employed to assess cortical bone porosity of humans, whereas that of smaller animals, such as mice and rats, has thus far only been imaged using synchrotron-based micro-CT. The goal of this study was to determine if it is possible to visualize and quantify rat cortical porosity using desktop micro-CT. Tibiae (n = 10) from 30-week-old female Sprague-Dawley rats were imaged with micro-CT (3 μm nominal resolution) and sequential ground sections were then prepared. Bland-Altman plots were constructed to compare per cent porosity and mean canal diameter from micro-CT (3D) versus histology (2D). The mean difference or bias (histology-micro-CT; ±95% confidence interval) for per cent porosity was found to be -0.15% (±2.57%), which was not significantly different from zero (P= 0.720). Canal diameter had a bias (±95% confidence interval) of -5.73 μm (±4.02 μm) which was found to be significantly different from zero (P < 0.001). The results indicated that cortical porosity in rat bone can indeed be visualized by desktop micro-CT. Quantitative assessment of per cent porosity provided unbiased results, whereas direct analysis of mean canal diameter was overestimated by micro-CT. Thus, although higher resolution, such as that available from synchrotron micro-CT, may ultimately be required for precise geometric measurements, desktop micro-CT--which is far more accessible--is capable of yielding comparable measures of porosity and holds great promise for assessment of the 3D arrangement of cortical porosity in the rat. © 2010 The Authors Journal compilation © 2010 The Royal Microscopical Society.

  18. Implementation and commissioning of an integrated micro-CT/RT system with computerized independent jaw collimation

    SciTech Connect

    Jensen, Michael D.; Hrinivich, W. Thomas; Jung, Jongho A.; Holdsworth, David W.; Drangova, Maria; Chen, Jeff; Wong, Eugene

    2013-08-15

    Purpose: To design, construct, and commission a set of computer-controlled motorized jaws for a micro-CT/RT system to perform conformal image-guided small animal radiotherapy.Methods: The authors designed and evaluated a system of custom-built motorized orthogonal jaws, which allows the delivery of off-axis rectangular fields on a GE eXplore CT 120 preclinical imaging system. The jaws in the x direction are independently driven, while the y-direction jaws are symmetric. All motors have backup encoders, verifying jaw positions. Mechanical performance of the jaws was characterized. Square beam profiles ranging from 2 × 2 to 60 × 60 mm{sup 2} were measured using EBT2 film in the center of a 70 × 70 × 22 mm{sup 3} solid water block. Similarly, absolute depth dose was measured in a solid water and EBT2 film stack 50 × 50 × 50 mm{sup 3}. A calibrated Farmer ion chamber in a 70 × 70 × 20 mm{sup 3} solid water block was used to measure the output of three field sizes: 50 × 50, 40 × 40, and 30 × 30 mm{sup 2}. Elliptical target plans were delivered to films to assess overall system performance. Respiratory-gated treatment was implemented on the system and initially proved using a simple sinusoidal motion phantom. All films were scanned on a flatbed scanner (Epson 1000XL) and converted to dose using a fitted calibration curve. A Monte Carlo beam model of the micro-CT with the jaws has been created using BEAMnrc for comparison with the measurements. An example image-guided partial lung irradiation in a rat is demonstrated.Results: The averaged random error of positioning each jaw is less than 0.1 mm. Relative output factors measured with the ion chamber agree with Monte Carlo simulations within 2%. Beam profiles and absolute depth dose curves measured from the films agree with simulations within measurement uncertainty. Respiratory-gated treatments applied to a phantom moving with a peak-to-peak amplitude of 5 mm showed improved beam penumbra (80%–20%) from 3.9 to

  19. Optical CT scanning of PRESAGETM polyurethane samples with a CCD-based readout system

    NASA Astrophysics Data System (ADS)

    Doran, S. J.; Krstajic, N.; Adamovics, J.; Jenneson, P. M.

    2004-01-01

    This article demonstrates the resolution capabilities of the CCD scanner under ideal circumstances and describes the first CCD-based optical CT experiments on a new class of dosimeter, known as PRESAGETM (Heuris Pharma, Skillman, NJ).

  20. Longitudinal assessment of lung cancer progression in the mouse using in vivo micro-CT imaging

    PubMed Central

    Namati, Eman; Thiesse, Jacqueline; Sieren, Jessica C.; Ross, Alan; Hoffman, Eric A.; McLennan, Geoffrey

    2010-01-01

    Purpose: Small animal micro-CT imaging is being used increasingly in preclinical biomedical research to provide phenotypic descriptions of genomic models. Most of this imaging is coincident with animal death and is used to show the extent of disease as an end point. Longitudinal imaging overcomes the limitation of single time-point imaging because it enables tracking of the natural history of disease and provides qualitative and, where possible, quantitative assessments of the effects of an intervention. The pulmonary system is affected by many disease conditions, such as lung cancer, chronic obstructive pulmonary disease, asthma, and granulomatous disorders. Noninvasive imaging can accurately assess the lung phenotype within the living animal, evaluating not only global lung measures, but also regional pathology. However, imaging the lung in the living animal is complicated by rapid respiratory motion, which leads to image based artifacts. Furthermore, no standard mouse lung imaging protocols exist for longitudinal assessment, with each group needing to develop their own systematic approach. Methods: In this article, the authors present an outline for performing longitudinal breath-hold gated micro-CT imaging for the assessment of lung nodules in a mouse model of lung cancer. The authors describe modifications to the previously published intermittent isopressure breath-hold technique including a new animal preparation and anesthesia protocol, implementation of a ring artifact reduction, variable scanner geometry, and polynomial beam hardening correction. In addition, the authors describe a multitime-point data set registration and tumor labeling and tracking strategy. Results:In vivo micro-CT data sets were acquired at months 2, 3, and 4 posturethane administration in cancer mice (n=5) and simultaneously in control mice (n=3). 137 unique lung nodules were identified from the cancer mice while no nodules were detected in the control mice. A total of 411 nodules

  1. Reconstruction of cochlea based on micro-CT and histological images of the human inner ear.

    PubMed

    Bellos, Christos; Rigas, George; Spiridon, Ioannis F; Bibas, Athanasios; Iliopoulou, Dimitra; Böhnke, Frank; Koutsouris, Dimitrios; Fotiadis, Dimitrios I

    2014-01-01

    The study of the normal function and pathology of the inner ear has unique difficulties as it is inaccessible during life and, so, conventional techniques of pathologic studies such as biopsy and surgical excision are not feasible, without further impairing function. Mathematical modelling is therefore particularly attractive as a tool in researching the cochlea and its pathology. The first step towards efficient mathematical modelling is the reconstruction of an accurate three dimensional (3D) model of the cochlea that will be presented in this paper. The high quality of the histological images is being exploited in order to extract several sections of the cochlea that are not visible on the micro-CT (mCT) images (i.e., scala media, spiral ligament, and organ of Corti) as well as other important sections (i.e., basilar membrane, Reissner membrane, scala vestibule, and scala tympani). The reconstructed model is being projected in the centerline of the coiled cochlea, extracted from mCT images, and represented in the 3D space. The reconstruction activities are part of the SIFEM project, which will result in the delivery of an infrastructure, semantically interlinking various tools and libraries (i.e., segmentation, reconstruction, and visualization tools) with the clinical knowledge, which is represented by existing data, towards the delivery of a robust multiscale model of the inner ear.

  2. Challenges in the segmentation and analysis of X-ray Micro-CT image data

    NASA Astrophysics Data System (ADS)

    Larsen, J. D.; Schaap, M. G.; Tuller, M.; Kulkarni, R.; Guber, A.

    2014-12-01

    Pore scale modeling of fluid flow is becoming increasing popular among scientific disciplines. With increased computational power, and technological advancements it is now possible to create realistic models of fluid flow through highly complex porous media by using a number of fluid dynamic techniques. One such technique that has gained popularity is lattice Boltzmann for its relative ease of programming and ability to capture and represent complex geometries with simple boundary conditions. In this study lattice Boltzmann fluid models are used on macro-porous silt loam soil imagery that was obtained using an industrial CT scanner. The soil imagery was segmented with six separate automated segmentation standards to reduce operator bias and provide distinction between phases. The permeability of the reconstructed samples was calculated, with Darcy's Law, from lattice Boltzmann simulations of fluid flow in the samples. We attempt to validate simulated permeability from differing segmentation algorithms to experimental findings. Limitations arise with X-ray micro-CT image data. Polychromatic X-ray CT has the potential to produce low image contrast and image artifacts. In this case, we find that the data is unsegmentable and unable to be modeled in a realistic and unbiased fashion.

  3. Improving spatial-resolution in high cone-angle micro-CT by source deblurring

    NASA Astrophysics Data System (ADS)

    Li, Heyang; Kingston, Andrew; Myers, Glenn; Recur, Benoit; Turner, Michael; Sheppard, Andrian

    2014-09-01

    Micro scale computed tomography (CT) can resolve many features in cellular structures, bone formations, minerals properties and composite materials not seen at lower spatial-resolution. Those features enable us to build a more comprehensive model for the object of interest. CT resolution is limited by a fundamental trade off between source size and signal-to-noise ratio (SNR) for a given acquisition time. There is a limit on the X-ray flux that can be emitted from a certain source size, and fewer photons cause a lower SNR. A large source size creates penumbral blurring in the radiograph, limiting the effective spatial-resolution in the reconstruction. High cone-angle CT improves SNR by increasing the X-ray solid angle that passes through the sample. In the high cone-angle regime current source deblurring methods break down due to incomplete modelling of the physical process. This paper presents high cone-angle source de-blurring models. We implement these models using a novel multi-slice Richardson-Lucy (M-RL) and 3D Conjugate Gradient deconvolution on experimental high cone-angle data to improve the spatial-resolution of the reconstructed volume. In M-RL, we slice the back projection volume into subsets which can be considered to have a relative uniform convolution kernel. We compare these results to those obtained from standard reconstruction techniques and current source deblurring methods (i.e. 2D Richardson-Lucy in the radiograph and the volume respectively).

  4. Imaging Invasion: Micro-CT imaging of adamantinomatous craniopharyngioma highlights cell type specific spatial relationships of tissue invasion.

    PubMed

    Apps, John R; Hutchinson, J Ciaran; Arthurs, Owen J; Virasami, Alex; Joshi, Abhijit; Zeller-Plumhoff, Berit; Moulding, Dale; Jacques, Thomas S; Sebire, Neil J; Martinez-Barbera, Juan Pedro

    2016-06-03

    Tissue invasion and infiltration by brain tumours poses a clinical challenge, with destruction of structures leading to morbidity. We assessed whether micro-CT could be used to map tumour invasion in adamantinomatous craniopharyngioma (ACP), and whether it could delineate ACPs and their intrinsic components from surrounding tissue.Three anonymised archival frozen ACP samples were fixed, iodinated and imaged using a micro-CT scanner prior to the use of standard histological processing and immunohistochemical techniques.We demonstrate that micro-CT imaging can non-destructively give detailed 3D structural information of tumours in volumes with isotropic voxel sizes of 4-6 microns, which can be correlated with traditional histology and immunohistochemistry.Such information complements classical histology by facilitating virtual slicing of the tissue in any plane and providing unique detail of the three dimensional relationships of tissue compartments.

  5. Micro X-ray CT Imaging of Sediments under Confining Pressure

    NASA Astrophysics Data System (ADS)

    Schindler, M.; Prasad, M.

    2016-12-01

    We developed a pressure and temperature control system for use inside the micro X-ray CT scanner Xradia 400. We succeeded in building a pressure vessel that can be pressurized to 34.5 MPa (5000 psi) while being transparent to X-rays. The setup can currently be cooled to -5 C and heated to 40 C. We were able to observe grain damage and porosity reduction due to applied confining pressure in clean quartz sand samples and quartz sand and bentonite samples. By comparing micro CT images at atmospheric pressure and 13.8 MPa (2000 psi) confining pressure, we observed compaction of the samples resulting in grain damage and fracturing of sediment grains (Figure 1). When the confining pressure was decreased some grains experienced further fracturing. The grain damage appears irreversible. Further fracturing of grains in pre-compacted sediment was observed upon repeated confining pressure cycling. We are currently working on feed-throughs for fluid lines and electric wiring to use ultrasonic transducers and pressure control in combination. Further we plan to include pore pressure in addition to confining pressure into the system. The pressure control system in combination with ultrasonic transducers will allow us to visually observe pore scale changes in rock samples while simultaneously identifying their influence on ultrasonic velocities. Such pore-scale changes are usually not taken into account by rock physics models and could help to identify why laboratory data diverges from theoretical models. Further, it is possible to compute compressibility from mCT images at different stress states by image correlation

  6. High resolution 3D dosimetry for microbeam radiation therapy using optical CT

    NASA Astrophysics Data System (ADS)

    McErlean, C.; Bräuer-Krisch, E.; Adamovics, J.; Leach, M. O.; Doran, S. J.

    2015-01-01

    Optical Computed Tomography (CT) is a promising technique for dosimetry of Microbeam Radiation Therapy (MRT), providing high resolution 3D dose maps. Here different MRT irradiation geometries are visualised showing the potential of Optical CT as a tool for future MRT trials. The Peak-to-Valley dose ratio (PVDR) is calculated to be 7 at a depth of 3mm in the radiochromic dosimeter PRESAGE®. This is significantly lower than predicted values and possible reasons for this are discussed.

  7. Light extraction and customized optical distribution from plastic micro-optics integrated OLEDs

    NASA Astrophysics Data System (ADS)

    Melpignano, P.; Rotaris, G.; Biondo, V.; Sinesi, S.; Westenhöfer, S.; Gale, M. T.; Murgia, M.; Caria, S.; Zamboni, R.

    2006-04-01

    An OLED device suitable for automobile ceiling lights has been designed, fabricated and evaluated. The OLED structure is fabricated on a thin (120 µm), flexible polymer foil with integrated micro-optics to achieve customized beam shaping in the far field. A pixelated OLED structure matched to a patch-pad microlens matrix was used to convert the OLED Lambertian emission into a Gaussian-shaped illumination beam. Both refractive and diffractive microlenses were investigated. The integrated micro-optics OLED architecture reduces light losses due to waveguiding effects and effectively increases the light extraction by up to 70%.

  8. An Indirect Method to Measure Abutment Screw Preload: A Pilot Study Based on Micro-CT Scanning.

    PubMed

    Rezende, Carlos Eduardo E; Griggs, Jason Alan; Duan, Yuanyuan; Mushashe, Amanda M; Nolasco, Gisele Maria Correr; Borges, Ana Flávia Sanches; Rubo, José Henrique

    2015-01-01

    This study aimed to measure the preload in different implant platform geometries based on micro-CT images. External hexagon (EH) implants and Morse Tapered (MT) implants (n=5) were used for the preload measurement. The abutment screws were scanned in micro-CT to obtain their virtual models, which were used to record their initial length. The abutments were screwed on the implant with a 20 Ncm torque and the set composed by implant, abutment screw and abutment were taken to the micro-CT scanner to obtain virtual slices of the specimens. These slices allowed the measurement of screw lengths after torque application and based on the screw elongation. Preload values were calculated using the Hooke's Law. The preloads of both groups were compared by independent t-test. Removal torque of each specimen was recorded. To evaluate the accuracy of the micro-CT technique, three rods with known lengths were scanned and the length of their virtual model was measured and compared with the original length. One rod was scanned four times to evaluate the measuring method variation. There was no difference between groups for preload (EH = 461.6 N and MT = 477.4 N), but the EH group showed higher removal torque values (13.8 ± 4.7 against 8.2 ± 3.6 N cm for MT group). The micro-CT technique showed a variability of 0.053% and repeatability showed an error of 0.23 to 0.28%. Within the limitations of this study, there was no difference between external hexagon and Morse taper for preload. The method using micro-CT may be considered for preload calculation.

  9. An analytical Micro CT methodology for quantifying inorganic dentine debris following internal tooth preparation.

    PubMed

    Robinson, Jonathan P; Lumley, Philip J; Claridge, Ela; Cooper, Paul R; Grover, Liam M; Williams, Richard L; Walmsley, A Damien

    2012-11-01

    MicroCT allows the complex canal network of teeth to be mapped but does not readily distinguish between structural tissue (dentine) and the debris generated during cleaning. The aim was to introduce a validated approach for identifying debris following routine instrumentation and disinfection. The mesial canals of 12 mandibular molars were instrumented, and irrigated with EDTA and NaOCl. MicroCT images before and after instrumentation and images were assessed qualitatively and quantitatively. Debris in the canal space was identified through morphological image analysis and superimposition of the images before and after instrumentation. This revealed that the removal of debris is prohibited by protrusions and micro-canals within the tooth creating areas which are inaccessible to the irrigant. Although the results arising from the analytical methodology did provide measurements of debris produced, biological differences in the canals resulted in variances. Both irrigants reduced debris compared to the control which decreased with EDTA and further with NaOCl. However, anatomical variation did not allow definitive conclusions on which irrigant was best to use although both reduced debris build up. This work presents a new approach for distinguishing between debris and structural inorganic tissue in root canals of teeth. The application may prove useful in other calcified tissue shape determination. Remaining debris may contain bacteria and obstruct the flow of irrigating solutions into lateral canal anatomy. This new approach for detecting the amount of remaining debris in canal systems following instrumentation provides a clearer methodology of the identification of such debris. Copyright © 2012 Elsevier Ltd. All rights reserved.

  10. Advances in lasers and optical micro-nano-systems

    NASA Astrophysics Data System (ADS)

    Laurell, F.; Fazio, E.

    2010-09-01

    Lasers represent a well consolidated technology: nevertheless, research in this field remains very active and productive, in both basic and applied directions. At the moment significant attention is given to those sources that bring together high power and compactness. Such high power lasers find important applications for material treatments and such applications are presented by Ehsani et al and Saiedeh Saghafi et al, in the treatment of dielectric thin films (Alteration of optical and morphological properties of polycarbonate illuminated by visible/IR laser beams) or of biological tissues like pistachio seeds (Investigating the effects of laser beams (532 and 660 nm) in annihilation of pistachio mould fungus using spectrophotometry analysis). In particular the latter paper show how laser sources can find very important applications in new domains, preserving goods and food without the need for preservatives or pesticides by simply sterilizing them using light. Optical Micro and Nano Systems presents a new domain for exploration. In this framework this special issue is very attractive, because it assembles papers reporting new results in three directions: new techniques for monitoring integrated micro- and nano-systems, new integrated systems and novel high performance metamaterial configurations. Integrated micro-components can be monitored and controlled using reflectance measurements as presented by Piombini et al (Toward the reflectance measurement of micro components). Speckle formation during laser beam reflection can also be a very sophisticated tool for detecting ultra-precise displacements, as presented by Filter et al (High resolution displacement detection with speckles : accuracy limits in linear displacement speckle metrology). Three dimensional integrated optical structures is indeed a big challenge and a peculiarity of photonics, they can be formed through traditional holography or using more sophisticated and novel ! technologies. Thus, special

  11. Experimental study on resonator micro-optic gyroscope

    NASA Astrophysics Data System (ADS)

    Zhao, Meng; Shi, Bang-ren; Chen, Chen; Guo, Li-jun; Zhang, Rong; Zhang, Qiu-e.

    2011-08-01

    Resonator optic gyroscope (ROG) based on Sagnac effect has been investigated over the past years and developed as an attractive device for many applications. Resonator micro-optic gyroscope (R-MOG) with an only several-cm-long ring on a wafer is a promising candidate for the new generation inertial rotation sensor. Using micro machining process, R-MOG was manufactured on the silicon or LiNbO3 wafer by etching passive optical ring resonator devices. It has great advantages by realizing the minitype. R-MOG is a kind of optic gyroscope by detecting the resonance frequency difference of the clockwise and counterclockwise resonance to measure the angular velocity. The Sagnac effect is extremely weak, so the detection method has been the key point in researching R-MOG. Using the multi-beam superposition principle, we theoretically analyzed the signal detection scheme based on laser frequency modulation and experimentally investigated the equivalent open-loop signals of a R-MOG chip. The passive ring resonator (PRR), the core component of R-MOG, was composed of a ring waveguide with a radius of 2cm and an optical coupler with the coupling ratio of 12%. The resonance curve showed that the free spectral range (FSR), full width at half maximum (FWHM) and fineness were 3.0378GHz, 74.09MHz and 41, respectively. In the equivalent open-loop experiment, the counterclockwise (CCW) light frequency was locked to its resonant point, and the clockwise (CW) optical frequency changed around the CW resonant point. The experimental results illustrated that the sensitivity of the R-MOG was 6.15 rad/s.

  12. Optimization of a retrospective technique for respiratory-gated high speed micro-CT of free-breathing rodents

    NASA Astrophysics Data System (ADS)

    Ford, Nancy L.; Wheatley, Andrew R.; Holdsworth, David W.; Drangova, Maria

    2007-09-01

    The objective of this study was to develop a technique for dynamic respiratory imaging using retrospectively gated high-speed micro-CT imaging of free-breathing mice. Free-breathing C57Bl6 mice were scanned using a dynamic micro-CT scanner, comprising a flat-panel detector mounted on a slip-ring gantry. Projection images were acquired over ten complete gantry rotations in 50 s, while monitoring the respiratory motion in synchrony with projection-image acquisition. Projection images belonging to a selected respiratory phase were retrospectively identified and used for 3D reconstruction. The effect of using fewer gantry rotations—which influences both image quality and the ability to quantify respiratory function—was evaluated. Images reconstructed using unique projections from six or more gantry rotations produced acceptable images for quantitative analysis of lung volume, CT density, functional residual capacity and tidal volume. The functional residual capacity (0.15 ± 0.03 mL) and tidal volumes (0.08 ± 0.03 mL) measured in this study agree with previously reported measurements made using prospectively gated micro-CT and at higher resolution (150 µm versus 90 µm voxel spacing). Retrospectively gated micro-CT imaging of free-breathing mice enables quantitative dynamic measurement of morphological and functional parameters in the mouse models of respiratory disease, with scan times as short as 30 s, based on the acquisition of projection images over six gantry rotations.

  13. Optimization of a retrospective technique for respiratory-gated high speed micro-CT of free-breathing rodents.

    PubMed

    Ford, Nancy L; Wheatley, Andrew R; Holdsworth, David W; Drangova, Maria

    2007-10-07

    The objective of this study was to develop a technique for dynamic respiratory imaging using retrospectively gated high-speed micro-CT imaging of free-breathing mice. Free-breathing C57Bl6 mice were scanned using a dynamic micro-CT scanner, comprising a flat-panel detector mounted on a slip-ring gantry. Projection images were acquired over ten complete gantry rotations in 50 s, while monitoring the respiratory motion in synchrony with projection-image acquisition. Projection images belonging to a selected respiratory phase were retrospectively identified and used for 3D reconstruction. The effect of using fewer gantry rotations--which influences both image quality and the ability to quantify respiratory function--was evaluated. Images reconstructed using unique projections from six or more gantry rotations produced acceptable images for quantitative analysis of lung volume, CT density, functional residual capacity and tidal volume. The functional residual capacity (0.15 +/- 0.03 mL) and tidal volumes (0.08 +/- 0.03 mL) measured in this study agree with previously reported measurements made using prospectively gated micro-CT and at higher resolution (150 microm versus 90 microm voxel spacing). Retrospectively gated micro-CT imaging of free-breathing mice enables quantitative dynamic measurement of morphological and functional parameters in the mouse models of respiratory disease, with scan times as short as 30 s, based on the acquisition of projection images over six gantry rotations.

  14. Meso-/micro-optical system interface coupling solutions.

    SciTech Connect

    Armendariz, Marcelino G.; Kemme, Shanalyn A.; Boye, Robert R.

    2005-10-01

    Optoelectronic microsystems are more and more prevalent as researchers seek to increase transmission bandwidths, implement electrical isolation, enhance security, or take advantage of sensitive optical sensing methods. Board level photonic integration techniques continue to improve, but photonic microsystems and fiber interfaces remain problematic, especially upon size reduction. Optical fiber is unmatched as a transmission medium for distances ranging from tens of centimeters to kilometers. The difficulty with using optical fiber is the small size of the core (approximately 9 {micro}m for the core of single mode telecommunications fiber) and the tight requirement on spot size and input numerical aperture (NA). Coupling to devices such as vertical cavity emitting lasers (VCSELs) and photodetectors presents further difficulties since these elements work in a plane orthogonal to the electronics board and typically require additional optics. This leads to the need for a packaging solution that can incorporate dissimilar materials while maintaining the tight alignment tolerances required by the optics. Over the course of this LDRD project, we have examined the capabilities of components such as VCSELs and photodetectors for high-speed operation and investigated the alignment tolerances required by the optical system. A solder reflow process has been developed to help fulfill these packaging requirements and the results of that work are presented here.

  15. Enamel pearls in permanent dentition: case report and micro-CT evaluation.

    PubMed

    Versiani, M A; Cristescu, R C; Saquy, P C; Pécora, J D; de Sousa-Neto, M D

    2013-01-01

    To investigate the frequency, position, number and morphology of enamel pearls (EPs) using micro-CTCT) and to report a case of an EP mimicking an endodontic-periodontic lesion. Cone beam CT (CBCT) was performed in a patient to evaluate a radio-opaque nodule observed on the left maxillary first molar during the radiographic examination. Additionally, 23 EPs were evaluated regarding frequency, position, number and morphology by means of µCT. The results were statistically compared using the Student's t-test for independent samples. 1 pearl was presented in 13 specimens, while 5 specimens presented 2 pearls. The most frequent location of the EPs was the furcation between the disto-buccal and the palatal roots of the maxillary molars. Overall, the mean major diameter, volume and surface area were 1.98 ± 0.85 mm, 1.76 ± 1.36 mm³ and 11.40 ± 7.59 mm², respectively, with no statistical difference between maxillary second and third molars (p > 0.05). In the case report, CBCT revealed an EP between the disto-buccal and the palatal roots of the maxillary first left molar associated with advanced localized periodontitis. The tooth was referred for extraction. EPs, located generally in the furcation area, were observed in 0.74% of the sample. The majority was an enamel-dentin pearl type and no difference was found in maxillary second and third molars regarding diameter, volume and surface area of the pearls. In this report, the EP mimicked an endodontic-periodontic lesion and was a secondary aetiological factor in the periodontal breakdown.

  16. Enamel and dentin mineralization in familial hypophosphatemic rickets: a micro-CT study

    PubMed Central

    Costa, F W G; Soares, E C S; Williams, J R; Fonteles, C S R

    2015-01-01

    Objectives: The aim of the present study was to analyse the mineralization pattern of enamel and dentin in patients affected by X-linked hypophosphatemic rickets (XLHR) using micro-CTCT), and to associate enamel and dentin mineralization in primary and permanent teeth with tooth position, gender and the presence/absence of this disease. Methods: 19 teeth were collected from 5 individuals from the same family, 1 non-affected by XLHR and 4 affected by XLHR. Gender, age, tooth position (anterior/posterior) and tooth type (deciduous/permanent) were recorded for each patient. Following collection, teeth were placed in 0.1% thymol solution until µCT scan. Projection images were reconstructed and analysed. A plot profile describing the greyscale distance relationship in µCT images was achieved through a line bisecting each tooth in a region with the presence of enamel and dentin. The enamel and dentin mineralization densities were measured and compared. Univariate ANOVA and post hoc Tukey tests were used for all comparisons. Results: Teeth of all affected patients presented dentin with a different mineralization pattern compared with the teeth of healthy patients with dentin defects observed next to the pulp chambers. Highly significant differences were found for gray values between anterior and posterior teeth (p < 0.05), affected and non-affected (p < 0.05), as well as when position and disease status were considered (p < 0.05). Conclusions: In conclusion, the mineralization patterns of dentin differed when comparing teeth from patients with and without FHR, mainly next to pulp chambers where areas with porosity and consequently lower mineral density and dentin defects were found. PMID:25651274

  17. Enamel pearls in permanent dentition: case report and micro-CT evaluation

    PubMed Central

    Versiani, MA; Cristescu, RC; Pécora, JD; de Sousa-Neto, MD

    2013-01-01

    Objectives: To investigate the frequency, position, number and morphology of enamel pearls (EPs) using micro-CTCT) and to report a case of an EP mimicking an endodontic–periodontic lesion. Methods: Cone beam CT (CBCT) was performed in a patient to evaluate a radio-opaque nodule observed on the left maxillary first molar during the radiographic examination. Additionally, 23 EPs were evaluated regarding frequency, position, number and morphology by means of µCT. The results were statistically compared using the Student’s t-test for independent samples. Results: 1 pearl was presented in 13 specimens, while 5 specimens presented 2 pearls. The most frequent location of the EPs was the furcation between the disto-buccal and the palatal roots of the maxillary molars. Overall, the mean major diameter, volume and surface area were 1.98 ± 0.85 mm, 1.76 ± 1.36 mm3 and 11.40 ± 7.59 mm2, respectively, with no statistical difference between maxillary second and third molars (p > 0.05). In the case report, CBCT revealed an EP between the disto-buccal and the palatal roots of the maxillary first left molar associated with advanced localized periodontitis. The tooth was referred for extraction. Conclusions: EPs, located generally in the furcation area, were observed in 0.74% of the sample. The majority was an enamel–dentin pearl type and no difference was found in maxillary second and third molars regarding diameter, volume and surface area of the pearls. In this report, the EP mimicked an endodontic–periodontic lesion and was a secondary aetiological factor in the periodontal breakdown. PMID:23520396

  18. Contrast Enhancement of MicroCT Scans to Aid 3D Modelling of Carbon Fibre Fabric Composites

    NASA Astrophysics Data System (ADS)

    Djukic, Luke P.; Pearce, Garth M.; Herszberg, Israel; Bannister, Michael K.; Mollenhauer, David H.

    2013-12-01

    This paper presents a methodology for volume capture and rendering of plain weave and multi-layer fabric meso-architectures within a consolidated, cured laminate. Micro X-ray Computed Tomography (MicroCT) is an excellent tool for the non-destructive visualisation of material microstructures however the contrast between tows and resin is poor for carbon fibre composites. Firstly, this paper demonstrates techniques to improve the contrast of the microCT images by introducing higher density materials such as gold, iodine and glass into the fabric. Two approaches were demonstrated to be effective for enhancing the differentiation between the tows in the reconstructed microCT visualisations. Secondly, a method of generating three-dimensional volume models of woven composites using microCT scan data is discussed. The process of generating a model is explained from initial manufacture with the aid of an example plain weave fabric. These methods are to be used in the finite element modelling of three-dimensional fabric preforms in future work.

  19. Micro-CT imaging: Developing criteria for examining fetal skeletons in regulatory developmental toxicology studies - A workshop report.

    PubMed

    Solomon, Howard M; Makris, Susan L; Alsaid, Hasan; Bermudez, Oscar; Beyer, Bruce K; Chen, Antong; Chen, Connie L; Chen, Zhou; Chmielewski, Gary; DeLise, Anthony M; de Schaepdrijver, Luc; Dogdas, Belma; French, Julian; Harrouk, Wafa; Helfgott, Jonathan; Henkelman, R Mark; Hesterman, Jacob; Hew, Kok-Wah; Hoberman, Alan; Lo, Cecilia W; McDougal, Andrew; Minck, Daniel R; Scott, Lelia; Stewart, Jane; Sutherland, Vicki; Tatiparthi, Arun K; Winkelmann, Christopher T; Wise, L David; Wood, Sandra L; Ying, Xiaoyou

    2016-06-01

    During the past two decades the use and refinements of imaging modalities have markedly increased making it possible to image embryos and fetuses used in pivotal nonclinical studies submitted to regulatory agencies. Implementing these technologies into the Good Laboratory Practice environment requires rigorous testing, validation, and documentation to ensure the reproducibility of data. A workshop on current practices and regulatory requirements was held with the goal of defining minimal criteria for the proper implementation of these technologies and subsequent submission to regulatory agencies. Micro-computed tomography (micro-CT) is especially well suited for high-throughput evaluations, and is gaining popularity to evaluate fetal skeletons to assess the potential developmental toxicity of test agents. This workshop was convened to help scientists in the developmental toxicology field understand and apply micro-CT technology to nonclinical toxicology studies and facilitate the regulatory acceptance of imaging data. Presentations and workshop discussions covered: (1) principles of micro-CT fetal imaging; (2) concordance of findings with conventional skeletal evaluations; and (3) regulatory requirements for validating the system. Establishing these requirements for micro-CT examination can provide a path forward for laboratories considering implementing this technology and provide regulatory agencies with a basis to consider the acceptability of data generated via this technology.

  20. Accuracy and reliability of different cone beam computed tomography (CBCT) devices for structural analysis of alveolar bone in comparison with multislice CT and micro-CT.

    PubMed

    Van Dessel, Jeroen; Nicolielo, Laura Ferreira Pinheiro; Huang, Yan; Coudyzer, Walter; Salmon, Benjamin; Lambrichts, Ivo; Jacobs, Reinhilde

    The aim of this study was to assess whether cone beam computed tomography (CBCT) may be used for clinically reliable alveolar bone quality assessment in comparison to its clinical alternatives, multislice computed tomography and the gold standard (micro-CT). Six dentate mandibular bone samples were scanned with seven CBCT devices (ProMax 3D Max, NewTom GiANO, Cranex 3D, 3D Accuitomo 170, Carestream 9300, Scanora 3D, I-CAT Next generation), one micro-CT scanner (SkyScan 1174) and one MSCT machine (Somatom Definition Flash) using two protocols (standard and high-resolution). MSCT and CBCT images were automatically spatially aligned on the micro-CT scan of the corresponding sample. A volume of interest was manually delineated on the micro-CT image and overlaid on the other scanning devices. Alveolar bone structures were automatically extracted using the adaptive thresholding algorithm. Based on the resulting binary images, an automatic 3D morphometric quantification was performed in a CT-Analyser (Bruker, Kontich, Belgium). The reliability and measurement errors were calculated for each modality compared to the gold standard micro-CT. Both MSCT and CBCT were associated with a clinically and statistically (P <0.05) significant measurement error. Bone quantity-related morphometric indices (bone volume fraction 8.41% min to 17.90% max, bone surface density -0.47 mm-1 min to 0.16 mm-1 max and trabecular thickness 0.15 mm min to 0.31 mm max) were significantly (P <0.05) overestimated, resulting in significantly (P <0.05) closer trabecular pores (total porosity percentage -8.41% min to -17.90% max and fractal dimension 0.08 min to 0.17 max) in all scanners compared to micro-CT. However, the structural pattern of the alveolar bone remained similar compared to that of the micro-CT for the ProMax 3D Max, NewTom GiANO, Cranex 3D, 3D Accuitomo 170 and Carestream 9300. On the other hand, the Scanora 3D, i-CAT Next Generation, standard and high

  1. Image-Guided Radiotherapy Using a Modified Industrial Micro-CT for Preclinical Applications

    PubMed Central

    Felix, Manuela C.; Fleckenstein, Jens; Kirschner, Stefanie; Hartmann, Linda; Wenz, Frederik; Brockmann, Marc A.

    2015-01-01

    Purpose/Objective Although radiotherapy is a key component of cancer treatment, its implementation into pre-clinical in vivo models with relatively small target volumes is frequently omitted either due to technical complexity or expected side effects hampering long-term observational studies. We here demonstrate how an affordable industrial micro-CT can be converted into a small animal IGRT device at very low costs. We also demonstrate the proof of principle for the case of partial brain irradiation of mice carrying orthotopic glioblastoma implants. Methods/Materials A commercially available micro-CT originally designed for non-destructive material analysis was used. It consists of a CNC manipulator, a transmission X-ray tube (10–160 kV) and a flat-panel detector, which was used together with custom-made steel collimators (1–5 mm aperture size). For radiation field characterization, an ionization chamber, water-equivalent slab phantoms and radiochromic films were used. A treatment planning tool was implemented using a C++ application. For proof of principle, NOD/SCID/γc−/− mice were orthotopically implanted with U87MG high-grade glioma cells and irradiated using the novel setup. Results The overall symmetry of the radiation field at 150 kV was 1.04±0.02%. The flatness was 4.99±0.63% and the penumbra widths were between 0.14 mm and 0.51 mm. The full width at half maximum (FWHM) ranged from 1.97 to 9.99 mm depending on the collimator aperture size. The dose depth curve along the central axis followed a typical shape of keV photons. Dose rates measured were 10.7 mGy/s in 1 mm and 7.6 mGy/s in 5 mm depth (5 mm collimator aperture size). Treatment of mice with a single dose of 10 Gy was tolerated well and resulted in central tumor necrosis consistent with therapeutic efficacy. Conclusion A conventional industrial micro-CT can be easily modified to allow effective small animal IGRT even of critical target volumes such as the brain. PMID:25993010

  2. Specimen size and porosity can introduce error into microCT-based tissue mineral density measurements.

    PubMed

    Fajardo, Roberto J; Cory, Esther; Patel, Nipun D; Nazarian, Ara; Laib, Andres; Manoharan, Rajaram K; Schmitz, James E; DeSilva, Jeremy M; MacLatchy, Laura M; Snyder, Brian D; Bouxsein, Mary L

    2009-01-01

    The accurate measurement of tissue mineral density, rho(m), in specimens of unequal size or quantities of bone mineral using polychromatic microCT systems is important, since studies often compare samples with a range of sizes and bone densities. We assessed the influence of object size on microCT measurements of rho(m) using (1) hydroxyapatite rods (HA), (2) precision-manufactured aluminum foams (AL) simulating trabecular bone structure, and (3) bovine cortical bone cubes (BCt). Two beam-hardening correction (BHC) algorithms, determined using a 200 and 1200 mg/cm(3) HA wedge phantom, were used to calculate rho(m) of the HA and BCt. The 200 mg/cm(3) and an aluminum BHC algorithm were used to calculate the linear attenuation coefficients of the AL foams. Equivalent rho(m) measurements of 500, 1000, and 1500 mg HA/cm(3) rods decreased (r(2)>0.96, p<0.05 for all) as HA rod diameter increased in the 200 mg/cm(3) BHC data. Errors averaged 8.2% across these samples and reached as high as 29.5%. Regression analyses suggested no size effects in the 1200 mg/cm(3) BHC data but differences between successive sizes still reached as high as 13%. The linear attenuation coefficients of the AL foams increased up to approximately 6% with increasing volume fractions (r(2)>0.81, p<0.05 for all) but the strength of the size-related error was also BHC dependent. Equivalent rho(m) values were inversely correlated with BCt cube size (r(2)>0.92, p<0.05). Use of the 1200 mg/cm(3) BHC ameliorated the size-related artifact compared to the 200 mg/cm(3) BHC but errors with this BHC were still significant and ranged between 5% and 12%. These results demonstrate that object size, structure, and BHC algorithm can influence microCT measurements of rho(m). Measurements of rho(m) of specimens of unequal size or quantities of bone mineral must be interpreted with caution unless appropriate steps are taken to minimize these potential artifacts.

  3. Synchrotron-Based Micro-CT Imaging of the Human Lung Acinus

    SciTech Connect

    Litzlbauer, H.; Korbel, K; Kline, T; Jorgensen, S; Eaker, D; Bohle, R; Ritman, E; Langheinrich, A

    2010-01-01

    Structural data about the human lung fine structure are mainly based on stereological methods applied to serial sections. As these methods utilize 2D images, which are often not contiguous, they suffer from inaccuracies which are overcome by analysis of 3D micro-CT images of the never-sectioned specimen. The purpose of our study was to generate a complete data set of the intact three-dimensional architecture of the human acinus using high-resolution synchrotron-based micro-CT (synMCT). A human lung was inflation-fixed by formaldehyde ventilation and then scanned in a 64-slice CT over its apex to base extent. Lung samples (8-mm diameter, 10-mm height, N = 12) were punched out, stained with osmium tetroxide, and scanned using synMCT at (4 {micro}m){sup 3} voxel size. The lung functional unit (acinus, N = 8) was segmented from the 3D tomographic image using an automated tree-analysis software program. Morphometric data of the lung were analyzed by ANOVA. Intra-acinar airways branching occurred over 11 generations. The mean acinar volume was 131.3 {+-} 29.2 mm{sup 3} (range, 92.5-171.3 mm{sup 3}) and the mean acinar surface was calculated with 1012 {+-} 26 cm{sup 2}. The airway internal diameter (starting from the bronchiolus terminalis) decreases distally from 0.66 {+-} 0.04 mm to 0.34 {+-} 0.06 mm (P < 0.001) and remains constant after the seventh generation (P < 0.5). The length of each generation ranges between 0.52 and 0.93 mm and did not show significant differences between the second and eleventh generation. The branching angle between daughter branches varies between 113-degree and 134-degree without significant differences between the generations (P < 0.3). This study demonstrates the feasibility of quantitating the 3D structure of the human acinus at the spatial resolution readily achievable using synMCT.

  4. SU-E-I-85: Absorbed Dose Estimation for a Commercially Available MicroCT Scanner

    SciTech Connect

    Lau, A; Ahmad, S; Chen, Y; Ren, L; Liu, H; Yang, K

    2015-06-15

    Purpose: To quantify the simulated absorbed dose delivered for a typical scan from a commercially available microCT scanner in order to aid in the dose estimation. Methods: The simulations were conducted using the Geant4 Monte Carlo Toolkit (version 10) with the standard electromagnetic classes. The Quantum FX microCT scanner (PerkinElmer, Waltham, MA) was modeled incorporating the energy fluence and angular distributions of generated photons, spatial dimensions of nominal source-to-object and source-to-detector distances. The energy distribution was measured using a spectrometer (X-123CdTe, Amptek Inc., Bedford, USA) with a 300 angular spread from the source for the 90 kVp X-ray beams with no additional filtration. The nominal distances from the source to object consisted of three setups: 154.0 mm, 104.0 mm, and 51.96 mm. Our simulations recorded the dose absorbed in a cylindrical phantom of PMMA with a fixed length of 2 cm and varying radii (10, 20, 30 and 40 mm) using 100 million incident photons. The averaged absorbed dose in the object was then quantified for all setups. An exposure measurement of 417 mR was taken using a Radcal 9095 system utilizing 10×9–180 ion chamber with the given technique of 90 kVp, 63 μA, and 12 s. The exposure rate was also simulated with same setup to calculate the conversion factor of the beam current and the number of incident photons. Results: For a typical cone-beam scan with non-filtered 90kVp, the dose coefficients (the absorbed dose per mAs) were 2.614, 2.549 and 2.467 μGy/mAs under source to object distance of 104 mm for the object diameters of 10 mm, 20 mm and 30 mm, respectively. Conclusion: A look-up table was developed where an investigator can estimate the delivered dose using this particular microCT given the scanning protocol (kVp and mAs) as well as the size of the scanned object.

  5. Micro lens actuator and polymer objective lens for optical pickup

    NASA Astrophysics Data System (ADS)

    Li, Pei; Pan, Longfa; Zappe, Hans

    Lens actuator is one of the most important components in an optical pickup system, which decides the performance of the disc readout system. A significant advance in technical capability has recently been achieved in the fabrication of integrated micro lens actuators of optical pickup by microelectromechanical systems (MEMS) technology. A comb-drive tracking and focusing integrated lens actuator fabricated on a silicon-on-insulator (SOI) wafer has been reported. Twodimensional tuning of the objective lens is generated by the integrated comb structures. Large displacements of about ±24.6μm in tracking direction and 5.7μm in focusing direction are demonstrated. The device has a high sensitivity and an ignorable coupling between the two dimensional driving movements. The small-form-factor device provides an excellent performance and size reduction. Furthermore, high quality polymer micro-lenses with high numerical aperture (NA) are fabricated on a pre-patterned hydrophobic glass substrate by liquid dispensing. The surface profiles are adjusted by the patterned diameter and the volume of the dispensed polymer, which is controlled by the dispensing time. This extremely low cost, high NA and easily fabricated lens represents an important step for further integration of the pickup system, thus expands the application area of optical storage.

  6. Miniature Ion Optics Towards a Micro Mass Spectrometer

    NASA Astrophysics Data System (ADS)

    Chaudhary, Ashish

    This PhD dissertation reports the development of miniature ion optics components of a mass spectrometer (MS) with the ultimate goal to lay the foundation for a compact low-power micromachined MS (microMS) for broad-range chemical analysis. Miniaturization of two specific components a) RF ion traps and b) an ion funnel have been investigated and miniature low-power versions of these components have been developed and demonstrated successfully in lab experiments. Power savings, simpler electronics and packaging schemes required to operate the micro-scale RF cylindrical ion traps have been the key motivation driving this research. Microfabricated cylindrical ion traps (microCITs) and arrays in silicon, silicon-on-insulator and stainless steel substrates have been demonstrated and average power of as low as 55 mW for a low mass range (28 to 136 amu) and mass spectra with better than a unit-mass-resolution have been recorded. For the ion funnel miniaturization effort, simple assembly, small form factor and ease of integration have been emphasized. A simplification of the conventional 3D ion funnel design, called the planar ion funnel, has been developed in a single plate and has been tested to demonstrate ion funneling at medium vacuum levels (1E-5 Torr) using DC voltages and power less than 0.5 W. Miniaturization of these components also enables use of other novel ion optics components, packaging and integration, which will allow a new class of microMS architectures amenable for radical miniaturization.

  7. Vacuum isostatic micro molding of reflective micro-optical structures into polytetrafluoroethylene materials

    NASA Astrophysics Data System (ADS)

    Lizotte, Todd E.; Ohar, Orest

    2008-04-01

    Polytetrafluoroethylene (PTFE) is an ideal material for use in industrial, automotive and consumer electronics. Specifically, PTFE has outstanding physical properties; such as chemical inertness and resistance to chemical corrosion, even when exposed to a strong acid, alkali and oxidants. Its properties provide for superior electrical insulation and thermal stability, which is not affected by wide ranges in temperature and frequency. Its non-absorption of moisture makes it a perfect material for consideration in micro optical, retro-reflector or diffuser type devices used in optical sensor applications in harsh environments as well as in automotive, aerospace, industrial and home lighting. This paper presents an overview of a unique fabrication method that incorporates a variety of technologies to establish a processing technique that can form micro scale diffractive and retro-reflective structures into fused and semi-fused PTFE materials. Example structures and a single design will that was function tested will be presented with comparison metrology of the micro-structure geometry formed on the sample as compared to the original design mandrel geometry.

  8. Feasibility of using the micro CT imaging system as the conformal radiation therapy facility for small animals

    NASA Astrophysics Data System (ADS)

    Tu, Shu-Ju; Hsieh, Hui-Ling; Chao, Tsi-Chian; Lee, Chung-Chi

    2009-02-01

    In recent years, there has been an increasing number of integration for using the micro CT scanners, either home-built bench-top or commercially made, as the small animal radiation therapy irradiator in several research groups. In this paper, we study the x-ray beam physics such as the percentage depth dose distribution and their dose conformity characteristics using Monte Carlo simulation method for a series of photon energy levels often found in the current commercial micro CT imaging systems. Micro CT scanners have been one of the key imaging modalities in the current state-of-the-art molecular imaging techniques and their applications in various biomedical research areas have been increasing tremendously in recent years due to the ultra-high image quality. Tumor growth development and the corresponding therapeutic response in the small animal model study can be evaluated by a micro CT imaging system. In the most current advanced commercially available micro CT units, the nominal spatial resolution is typically at the scale of 10.0 μm or less. In current research trend, there have been an increasing number of investigations for the applications of x-ray units to organ-specific and whole-body radiation in dedicated small animal model study. In particular, scientists have identified that the integrated micro CT imagers can be commissioned as the dual-purpose unit for the high spatial resolution image acquisition and radiation delivery. As we all realized that small animal models are important and critical in several studies of experimental (or pre-clinical) radiation therapy research. In this paper, a Monte Carlo code (Penelope) was used to calculate the percentage depth dose distributions at different photon energy levels. Also the corresponding iso-dose contour curves were computed and plotted from the circular CT scanning geometry to study the desired dose conformity property. We note that the selected photon energy range that is included in this work is often

  9. A flat-panel detector based micro-CT system: performance evaluation for small-animal imaging

    NASA Astrophysics Data System (ADS)

    Lee, Sang Chul; Kim, Ho Kyung; Chun, In Kon; Hye Cho, Myung; Lee, Soo Yeol; Cho, Min Hyoung

    2003-12-01

    A dedicated small-animal x-ray micro computed tomography (micro-CT) system has been developed to screen laboratory small animals such as mice and rats. The micro-CT system consists of an indirect-detection flat-panel x-ray detector with a field-of-view of 120 × 120 mm2, a microfocus x-ray source, a rotational subject holder and a parallel data processing system. The flat-panel detector is based on a matrix-addressed photodiode array fabricated by a CMOS (complementary metal-oxide semiconductor) process coupled to a CsI:Tl (thallium-doped caesium iodide) scintillator as an x-ray-to-light converter. Principal imaging performances of the micro-CT system have been evaluated in terms of image uniformity, voxel noise and spatial resolution. It has been found that the image non-uniformity mainly comes from the structural non-uniform sensitivity pattern of the flat-panel detector and the voxel noise is about 48 CT numbers at the voxel size of 100 × 100 × 200 µm3 and the air kerma of 286 mGy. When the magnification ratio is 2, the spatial resolution of the micro-CT system is about 14 lp/mm (line pairs per millimetre) that is almost determined by the flat-panel detector showing about 7 lp/mm resolving power. Through low-contrast phantom imaging studies, the minimum resolvable contrast has been found to be less than 36 CT numbers at the air kerma of 95 mGy. Some laboratory rat imaging results are presented.

  10. A flat-panel detector based micro-CT system: performance evaluation for small-animal imaging.

    PubMed

    Lee, Sang Chul; Kim, Ho Kyung; Chun, In Kon; Cho, Myung Hye; Lee, Soo Yeol; Cho, Min Hyoung

    2003-12-21

    A dedicated small-animal x-ray micro computed tomography (micro-CT) system has been developed to screen laboratory small animals such as mice and rats. The micro-CT system consists of an indirect-detection flat-panel x-ray detector with a field-of-view of 120 x 120 mm2, a microfocus x-ray source, a rotational subject holder and a parallel data processing system. The flat-panel detector is based on a matrix-addressed photodiode array fabricated by a CMOS (complementary metal-oxide semiconductor) process coupled to a CsI:T1 (thallium-doped caesium iodide) scintillator as an x-ray-to-light converter. Principal imaging performances of the micro-CT system have been evaluated in terms of image uniformity, voxel noise and spatial resolution. It has been found that the image non-uniformity mainly comes from the structural non-uniform sensitivity pattern of the flat-panel detector and the voxel noise is about 48 CT numbers at the voxel size of 100 x 100 x 200 microm3 and the air kerma of 286 mGy. When the magnification ratio is 2, the spatial resolution of the micro-CT system is about 14 1p/mm (line pairs per millimetre) that is almost determined by the flat-panel detector showing about 7 1p/mm resolving power. Through low-contrast phantom imaging studies, the minimum resolvable contrast has been found to be less than 36 CT numbers at the air kerma of 95 mGy. Some laboratory rat imaging results are presented.

  11. Porous Silicon Gradient Refractive Index Micro-Optics.

    PubMed

    Krueger, Neil A; Holsteen, Aaron L; Kang, Seung-Kyun; Ocier, Christian R; Zhou, Weijun; Mensing, Glennys; Rogers, John A; Brongersma, Mark L; Braun, Paul V

    2016-12-14

    The emergence and growth of transformation optics over the past decade has revitalized interest in how a gradient refractive index (GRIN) can be used to control light propagation. Two-dimensional demonstrations with lithographically defined silicon (Si) have displayed the power of GRIN optics and also represent a promising opportunity for integrating compact optical elements within Si photonic integrated circuits. Here, we demonstrate the fabrication of three-dimensional Si-based GRIN micro-optics through the shape-defined formation of porous Si (PSi). Conventional microfabrication creates Si square microcolumns (SMCs) that can be electrochemically etched into PSi elements with nanoscale porosity along the shape-defined etching pathway, which imparts the geometry with structural birefringence. Free-space characterization of the transmitted intensity distribution through a homogeneously etched PSi SMC exhibits polarization splitting behavior resembling that of dielectric metasurfaces that require considerably more laborious fabrication. Coupled birefringence/GRIN effects are studied by way of PSi SMCs etched with a linear (increasing from edge to center) GRIN profile. The transmitted intensity distribution shows polarization-selective focusing behavior with one polarization focused to a diffraction-limited spot and the orthogonal polarization focused into two laterally displaced foci. Optical thickness-based analysis readily predicts the experimentally observed phenomena, which strongly match finite-element electromagnetic simulations.

  12. Micro-optical designs for angular confinement in solar cells

    NASA Astrophysics Data System (ADS)

    Gordon, Jeffrey M.; Feuermann, Daniel; Mashaal, Heylal

    2015-01-01

    We identify and evaluate a variety of efficient and feasible micro-optics for confining the radiative emission of solar cells. The key criteria used for assessing viable designs are (1) high optical efficiency for both the transmission of impinging solar beam radiation and the external recycling of isotropic cell luminescent emission; (2) liberal optical tolerance; (3) compactness and (4) being amenable to fabrication from existing materials and manufacturing processes. Both imaging and nonimaging candidate designs are presented, and their superiority to previous proposals is quantified. The strategy of angular confinement for boosting cell open-circuit voltage-thereby enhancing conversion efficiency-is limited to cells where radiative recombination is the dominant carrier recombination pathway. Optical systems that restrict the angular range for emission of cell luminescence must, by reciprocity, commensurately restrict the angular range for the collection of solar radiation. This, in turn, mandates the introduction of concentrators, but not for the objective of delivering concentrated flux onto the cell. Rather, the optical system must project an acceptably uniform spatial distribution of solar flux onto the cell surface at a nominal averaged irradiance of 1 sun.

  13. Using Micro-CT Derived Bone Microarchitecture to Analyze Bone Stiffness – A Case Study on Osteoporosis Rat Bone

    PubMed Central

    Wu, Yuchin; Adeeb, Samer; Doschak, Michael R.

    2015-01-01

    Micro-computed tomography (Micro-CT) images can be used to quantitatively represent bone geometry through a range of computed attenuation-based parameters. Nonetheless, those parameters remain indirect indices of bone microarchitectural strength and require further computational tools to interpret bone structural stiffness and potential for mechanical failure. Finite element analysis (FEA) can be applied to measure trabecular bone stiffness and potentially predict the location of structural failure in preclinical animal models of osteoporosis, although that procedure from image segmentation of Micro-CT derived bone geometry to FEA is often challenging and computationally expensive, resulting in failure of the model to build. Notably, the selection of resolution and threshold for bone segmentation are key steps that greatly affect computational complexity and validity. In the following study, we evaluated an approach whereby Micro-CT derived grayscale attenuation and segmentation data guided the selection of trabecular bone for analysis by FEA. We further correlated those FEA results to both two- and three-dimensional bone microarchitecture from sham and ovariectomized (OVX) rats (n = 10/group). A virtual cylinder of vertebral trabecular bone 40% in length from the caudal side was selected for FEA, because Micro-CT based image analysis indicated the largest differences in microarchitecture between the two groups resided there. Bone stiffness was calculated using FEA and statistically correlated with the three-dimensional values of bone volume/tissue volume, bone mineral density, fractal dimension, trabecular separation, and trabecular bone pattern factor. Our method simplified the process for the assessment of trabecular bone stiffness by FEA from Micro-CT images and highlighted the importance of bone microarchitecture in conferring significantly increased bone quality capable of resisting failure due to increased mechanical loading. PMID:26042089

  14. Detection and early phase assessment of radiation-induced lung injury in mice using micro-CT.

    PubMed

    Saito, Shigeyoshi; Murase, Kenya

    2012-01-01

    Radiation therapy is an important therapeutic modality for thoracic malignancies. However, radiation-induced pulmonary injuries such as radiation pneumonitis and fibrosis are major dose-limiting factors. Previous research shows that micro-computed tomography (micro-CT) can detect radiation-induced lung injuries a few months following irradiation, but studies to assess the early response of lung tissue are lacking. The aim of this study was to determine if micro-CT could be used to detect and assess early-phase radiation-induced lung injury in mice. Twenty-one animals were divided into three groups: normal (n = 7), one day after x-ray exposure (n = 7), and at four days after x-ray exposure (n = 7). The x-ray-exposed groups received a single dose of 20 Gy, to the whole lung. Histology showed enlargements of the air space (Lm: mean chord length) following irradiation. 40.5 ± 3.8 µm and 60.0 ± 6.9 µm were observed after one and four days, respectively, compared to 26.5 ± 3.1 µm in normal mice. Three-dimensional micro-CT images were constructed and histograms of radiodensity - Hounsfield Units (HU) - were used to assess changes in mouse lungs. Radiation-induced lung injury was observed in irradiated mice, by the use of two parameters which were defined as shifts in peak HU between -200 to -800 HU (Peak(HU)) and increase in the number of pixels at -1000 HU (Number(-1000)). These parameters were correlated with histological changes. The results demonstrate that micro-CT can be used for the early detection and assessment of structural and histopathological changes resulting from radiation-induced lung injury in mice. Micro-CT has the advantage, over traditional histological techniques, of allowing longitudinal studies of lung disease progression and assessment of the entire lung, while reducing the number of animals required for such studies.

  15. Rapid Three-Dimensional Phenotyping of Cardiovascular Development in Mouse Embryos by Micro-CT with Iodine Staining

    PubMed Central

    Degenhardt, Karl; Wright, Alexander C.; Horng, Debra; Padmanabhan, Arun; Epstein, Jonathan A.

    2011-01-01

    Background Micro-computed tomography (micro-CT) has been used extensively in research to generate high-resolution three-dimensional images of calcified tissues in small animals nondestructively. It has been especially useful for the characterization of skeletal mutations, but limited in its utility for the analysis of soft tissue such as the cardiovascular system. Visualization of the cardiovascular system has been largely restricted to structures that can be filled with radiopaque intravascular contrast agents in adult animals. Recent ex vivo studies using osmium tetroxide, iodinated contrast agents, inorganic iodine and phosphotungstic acid have demonstrated the ability to stain soft tissues differentially, allowing for high inter-tissue contrast in micro-CT images. Here, we demonstrate the application of this technology for visualization of cardiovascular structures in developing mouse embryos using Lugol’s solution (aqueous potassium iodide plus iodine). Methods and Results We show the optimization of this method to obtain ex vivo micro-CT images of embryonic and neonatal mice with excellent soft-tissue contrast. We demonstrate the utility of this method to visualize key structures during cardiovascular development at various stages of embryogenesis. Our method benefits from the ease of sample preparation, low toxicity, and low cost. Furthermore, we show how multiple cardiac defects can be demonstrated by micro-CT in a single specimen with a known genetic lesion. Indeed, a previously undescribed cardiac venous abnormality is revealed in a PlexinD1 mutant mouse. Conclusions Micro-CT of iodine stained tissue is a valuable technique for the characterization of cardiovascular development and defects in mouse models of congenital heart disease. PMID:20190279

  16. MicroCT image-generated tumour geometry and SAR distribution for tumour temperature elevation simulations in magnetic nanoparticle hyperthermia.

    PubMed

    Lebrun, Alexander; Manuchehrabadi, Navid; Attaluri, Anilchandra; Wang, Frank; Ma, Ronghui; Zhu, Liang

    2013-12-01

    The objective of this study was to develop and test computer algorithms to export micro computed tomography (microCT) images and to generate tumour geometry and specific absorption rate (SAR) distribution for heat transfer simulation in magnetic nanoparticle hyperthermia. Computer algorithms were written to analyse and export microCT images of 3D tumours containing magnetic nanoparticles. MATLAB(®) and ProE(®) programs were used to generate a prototype of the tumour geometry. The enhancements in the microCT pixel index number due to presence of nanoparticles in the tumours were first converted into corresponding SAR values. The SAR data were then averaged over three-dimensional clusters of pixels using the SAS(®) program. This greatly decreased the size of the SAR file, while in the meantime it ensured that the amount of total energy deposited in the tumour was conserved. Both the tumour geometry and the SAR file were then imported into the COMSOL(®) software package to simulate temperature elevations in the tumour and their surrounding tissue region during magnetic nanoparticle hyperthermia. A linear relationship was obtained to relate individual pixel index numbers in the microCT images to the SAR values under a specific magnetic field. The generated prototype of the tumour geometry based on only 30 slices of microCT images resembled the original tumour shape and size. The tumour geometry and the simplified SAR data set were successfully accepted by the COMSOL software for heat transfer simulation. Up to 20 °C temperature elevations from its baseline temperature were found inside the tumours, implying possible thermal damage to the tumour during magnetic nanoparticle hyperthermia.

  17. Optical Tweezers for Sample Fixing in Micro-Diffraction Experiments

    SciTech Connect

    Amenitsch, H.; Rappolt, M.; Sartori, B.; Laggner, P.; Cojoc, D.; Ferrari, E.; Garbin, V.; Di Fabrizio, E.; Burghammer, M.; Riekel, Ch.

    2007-01-19

    In order to manipulate, characterize and measure the micro-diffraction of individual structural elements down to single phospholipid liposomes we have been using optical tweezers (OT) combined with an imaging microscope. We were able to install the OT system at the microfocus beamline ID13 at the ESRF and trap clusters of about 50 multi-lamellar liposomes (< 10 {mu}m large cluster). Further we have performed a scanning diffraction experiment with a 1 micrometer beam to demonstrate the fixing capabilities and to confirm the size of the liposome cluster by X-ray diffraction.

  18. Histology to microCT data matching using landmarks and a density biased RANSAC.

    PubMed

    Chicherova, Natalia; Fundana, Ketut; Müller, Bert; Cattin, Philippe C

    2014-01-01

    The fusion of information from different medical imaging techniques plays an important role in data analysis. Despite the many proposed registration algorithms the problem of registering 2D histological images to 3D CT or MR imaging data is still largely unsolved. In this paper we propose a computationally efficient automatic approach to match 2D histological images to 3D micro Computed Tomography data. The landmark-based approach in combination with a density-driven RANSAC plane-fitting allows efficient localization of the histology images in the 3D data within less than four minutes (single-threaded MATLAB code) with an average accuracy of 0.25 mm for orrect and 2.21mm for mismatched slices. The approach managed to uccessfully localize 75% of the histology images in our database. The proposed algorithm is an important step towards solving the problem of registering 2D histology sections to 3D data fully automatically.

  19. Percolating length scales from topological persistence analysis of micro-CT images of porous materials

    NASA Astrophysics Data System (ADS)

    Robins, Vanessa; Saadatfar, Mohammad; Delgado-Friedrichs, Olaf; Sheppard, Adrian P.

    2016-01-01

    Topological persistence is a powerful and general technique for characterizing the geometry and topology of data. Its theoretical foundations are over 15 years old and efficient computational algorithms are now available for the analysis of large digital images. We explain here how quantities derived from topological persistence relate to other measurements on porous materials such as grain and pore-size distributions, connectivity numbers, and the critical radius of a percolating sphere. The connections between percolation and topological persistence are explored in detail using data obtained from micro-CT images of spherical bead packings, unconsolidated sand packing, a variety of sandstones, and a limestone. We demonstrate how persistence information can be used to estimate the percolating sphere radius and to characterize the connectivity of the percolating cluster.

  20. Micro-CT-based screening of biomechanical and structural properties of bone tissue engineering scaffolds.

    PubMed

    Van Cleynenbreugel, Tim; Schrooten, Jan; Van Oosterwyck, Hans; Vander Sloten, Jos

    2006-07-01

    The development of successful scaffolds for bone tissue engineering requires a concurrent engineering approach that combines different research fields. In order to limit in vivo experiments and reduce trial and error research, a scaffold screening technique has been developed. In this protocol seven structural and three biomechanical properties of potential scaffold materials are quantified and compared to the desired values. The property assessment is done on computer models of the scaffolds, and these models are based on micro-CT images. As a proof of principle, three porous scaffolds were evaluated with this protocol: stainless steel, hydroxyapatite, and titanium. These examples demonstrate that the modelling technique is able to quantify important scaffold properties. Thus, a powerful technique for automated screening of bone tissue engineering scaffolds has been developed that in a later stage may be used to tailor the scaffold properties to specific requirements.

  1. Normalized volume of interest selection and measurement of bone volume in microCT scans.

    PubMed

    Snoeks, T J A; Kaijzel, E L; Que, I; Mol, I M; Löwik, C W G M; Dijkstra, J

    2011-12-01

    Quantification of osteolytic lesions in bone is pivotal in the research of metastatic bone disease in small animal models. Osteolytic lesions are quantified using 2D X-ray photographs, which often neglects to take into account any changes in 3D structure. Furthermore, measurement errors are inadvertently introduced when a region of interest with predefined dimensions is used during MicroCT analysis. To study osteolytic processes, a normalized method of selecting a region of interest is required. Here we describe a new method to select volumes of interest in a normalized way regardless of curvature, fractures or dislocations within the bone. In addition, this method enables the user to visualize normalized cross sections in an exact 90° angle or along the longitudinal axis of bone, at any given point. As a result, the user can compare measurements of diameter, volume and structure between different bones in a normalized manner.

  2. Micro-optics: enabling technology for illumination shaping in optical lithography

    NASA Astrophysics Data System (ADS)

    Voelkel, Reinhard

    2014-03-01

    Optical lithography has been the engine that has empowered semiconductor industry to continually reduce the half-pitch for over 50 years. In early mask aligners a simple movie lamp was enough to illuminate the photomask. Illumination started to play a more decisive role when proximity mask aligners appeared in the mid-1970s. Off-axis illumination was introduced to reduce diffraction effects. For early projection lithography systems (wafer steppers), the only challenge was to collect the light efficiently to ensure short exposure time. When projection optics reached highest level of perfection, further improvement was achieved by optimizing illumination. Shaping the illumination light, also referred as pupil shaping, allows the optical path from reticle to wafer to be optimized and thus has a major impact on aberrations and diffraction effects. Highly-efficient micro-optical components are perfectly suited for this task. Micro-optics for illumination evolved from simple flat-top (fly's-eye) to annular, dipole, quadrupole, multipole and freeform illumination. Today, programmable micro-mirror arrays allow illumination to be changed on the fly. The impact of refractive, diffractive and reflective microoptics for photolithography will be discussed.

  3. A comparative study of new and current methods for dental micro-CT image denoising

    PubMed Central

    Lashgari, Mojtaba; Qin, Jie; Swain, Michael

    2016-01-01

    Objectives: The aim of the current study was to evaluate the application of two advanced noise-reduction algorithms for dental micro-CT images and to implement a comparative analysis of the performance of new and current denoising algorithms. Methods: Denoising was performed using gaussian and median filters as the current filtering approaches and the block-matching and three-dimensional (BM3D) method and total variation method as the proposed new filtering techniques. The performance of the denoising methods was evaluated quantitatively using contrast-to-noise ratio (CNR), edge preserving index (EPI) and blurring indexes, as well as qualitatively using the double-stimulus continuous quality scale procedure. Results: The BM3D method had the best performance with regard to preservation of fine textural features (CNREdge), non-blurring of the whole image (blurring index), the clinical visual score in images with very fine features and the overall visual score for all types of images. On the other hand, the total variation method provided the best results with regard to smoothing of images in texture-free areas (CNRTex-free) and in preserving the edges and borders of image features (EPI). Conclusions: The BM3D method is the most reliable technique for denoising dental micro-CT images with very fine textural details, such as shallow enamel lesions, in which the preservation of the texture and fine features is of the greatest importance. On the other hand, the total variation method is the technique of choice for denoising images without very fine textural details in which the clinician or researcher is interested mainly in anatomical features and structural measurements. PMID:26764583

  4. Direct microCT imaging of non-mineralized connective tissues at high resolution.

    PubMed

    Naveh, Gili R S; Brumfeld, Vlad; Dean, Mason; Shahar, Ron; Weiner, Steve

    2014-01-01

    The 3D imaging of soft tissues in their native state is challenging, especially when high resolution is required. An X-ray-based microCT is, to date, the best choice for high resolution 3D imaging of soft tissues. However, since X-ray attenuation of soft tissues is very low, contrasting enhancement using different staining materials is needed. The staining procedure, which also usually involves tissue fixation, causes unwanted and to some extent unknown tissue alterations. Here, we demonstrate that a method that enables 3D imaging of soft tissues without fixing and staining using an X-ray-based bench-top microCT can be applied to a variety of different tissues. With the sample mounted in a custom-made loading device inside a humidity chamber, we obtained soft tissue contrast and generated 3D images of fresh, soft tissues with a resolution of 1 micron voxel size. We identified three critical conditions which make it possible to image soft tissues: humidified environment, mechanical stabilization of the sample and phase enhancement. We demonstrate the capability of the technique using different specimens: an intervertebral disc, the non-mineralized growth plate, stingray tessellated radials (calcified cartilage) and the collagenous network of the periodontal ligament. Since the scanned specimen is fresh an interesting advantage of this technique is the ability to scan a specimen under load and track the changes of the different structures. This method offers a unique opportunity for obtaining valuable insights into 3D structure-function relationships of soft tissues.

  5. Modulation transfer function determination using the edge technique for cone-beam micro-CT

    NASA Astrophysics Data System (ADS)

    Rong, Junyan; Liu, Wenlei; Gao, Peng; Liao, Qimei; Lu, Hongbing

    2016-03-01

    Evaluating spatial resolution is an essential work for cone-beam computed tomography (CBCT) manufacturers, prototype designers or equipment users. To investigate the cross-sectional spatial resolution for different transaxial slices with CBCT, the slanted edge technique with a 3D slanted edge phantom are proposed and implemented on a prototype cone-beam micro-CT. Three transaxial slices with different cone angles are under investigation. An over-sampled edge response function (ERF) is firstly generated from the intensity of the slightly tiled air to plastic edge in each row of the transaxial reconstruction image. Then the oversampled ESF is binned and smoothed. The derivative of the binned and smoothed ERF gives the line spread function (LSF). At last the presampled modulation transfer function (MTF) is calculated by taking the modulus of the Fourier transform of the LSF. The spatial resolution is quantified with the spatial frequencies at 10% MTF level and full-width-half-maximum (FWHM) value. The spatial frequencies at 10% of MTFs are 3.1+/-0.08mm-1, 3.0+/-0.05mm-1, and 3.2+/-0.04mm-1 for the three transaxial slices at cone angles of 3.8°, 0°, and -3.8° respectively. The corresponding FWHMs are 252.8μm, 261.7μm and 253.6μm. Results indicate that cross-sectional spatial resolution has no much differences when transaxial slices being 3.8° away from z=0 plane for the prototype conebeam micro-CT.

  6. A comparative study of new and current methods for dental micro-CT image denoising.

    PubMed

    Shahmoradi, Mahdi; Lashgari, Mojtaba; Rabbani, Hossein; Qin, Jie; Swain, Michael

    2016-01-01

    The aim of the current study was to evaluate the application of two advanced noise-reduction algorithms for dental micro-CT images and to implement a comparative analysis of the performance of new and current denoising algorithms. Denoising was performed using gaussian and median filters as the current filtering approaches and the block-matching and three-dimensional (BM3D) method and total variation method as the proposed new filtering techniques. The performance of the denoising methods was evaluated quantitatively using contrast-to-noise ratio (CNR), edge preserving index (EPI) and blurring indexes, as well as qualitatively using the double-stimulus continuous quality scale procedure. The BM3D method had the best performance with regard to preservation of fine textural features (CNREdge), non-blurring of the whole image (blurring index), the clinical visual score in images with very fine features and the overall visual score for all types of images. On the other hand, the total variation method provided the best results with regard to smoothing of images in texture-free areas (CNRTex-free) and in preserving the edges and borders of image features (EPI). The BM3D method is the most reliable technique for denoising dental micro-CT images with very fine textural details, such as shallow enamel lesions, in which the preservation of the texture and fine features is of the greatest importance. On the other hand, the total variation method is the technique of choice for denoising images without very fine textural details in which the clinician or researcher is interested mainly in anatomical features and structural measurements.

  7. Relationships between age and microarchitectural descriptors of iliac trabecular bone determined by microCT.

    PubMed

    Deguette, C; Ramond-Roquin, A; Rougé-Maillart, C

    2017-06-01

    Estimation of age at death is a major issue in anthropology. The main anthropological histological methods propose studying the architecture of cortical bone. In bone histomorphometry, researches on metabolic bone diseases have provided normative tables for trabecular bone volume (BV/TV) according to age and gender of individuals on trans-iliac bone biopsies. We have used microCT, a non-destructive tool for measuring bone volume and trabecular descriptors to compare the French tables to a series of forensic anthropological population and if the two iliac bones could be used interchangeably. Coxal bone of a personal forensic collection whose age and gender were known (DNA identification) were used. Bone samples, centered on the same area than bone biopsy. MicroCT (pixel size: 36μm) was used to measure BV/TV and morphometric trabecular parameters of microarchitecture. An adjusted Z-score was calculated for BV/TV to compare with normative tables and a right/left comparison of trabecular parameters was provided. Twenty-seven iliac bones, which 20 forming 10 complete pelvises, aged between 24 and 73y.o. (average of 47.7 y.o.) were used. All adjusted Z-score were within normal values. There was a strong positive correlation between right and left sides for Tb.Th, Tb.N and Tb.Sp, but an insignificant correlation was obtained for BV/TV. Normative tables between age and BV/TV are valid and therefore usable in anthropology. They may represent an alternative to determine the age at death. Nevertheless, it requires a precise technique that could be a drawback in current practice. Copyright © 2017 Elsevier Masson SAS. All rights reserved.

  8. Observation of optically induced transparency in a micro-cavity

    NASA Astrophysics Data System (ADS)

    Zheng, Yuanlin; Cao, Jianjun; Wan, Wenjie

    2016-03-01

    We report on the observation of optically induced transparency (OIT) in a compact microresonator in an ambient environment by introducing a four-wave mixing gain to nonlinearly couple two separated resonances of the micro-cavity. Its optical-controlling capacity and non-reciprocity characteristics at the transparency windows are also demonstrated. Active-controlling of the OIT can be achieved by varying a strong pump beam, while a small frequency-detuning of the pump can lead to a Fano-like asymmetric resonance justifying the interference nature of OIT. Furthermore, OIT observed here is a non-reciprocal one, since FWM gain is a unidirectional one owing to the conservation law of momentum.

  9. Artificial apposition compound eye fabricated by micro-optics technology.

    PubMed

    Duparré, Jacques; Dannberg, Peter; Schreiber, Peter; Bräuer, Andreas; Tünnermann, Andreas

    2004-08-01

    By exploring micro-optical design principles and technology, we have developed an artificial apposition compound eye. The overall thickness of the imaging system is only 320 microm, the diagonal field of view is 21 degrees, and the f-number is 2.6. The monolithic device consists of an UV-replicated microlens array upon a thin silica substrate with a pinhole array in a metal layer on the back side. The pitch of the pinholes differs from that of the lens array to provide individual viewing angle for each channel. Theoretical limitations of resolution and sensitivity are discussed as well as fabrication issues and compared with experimental results. A method to generate nontransparent walls between optical channels to prevent cross talk is proposed.

  10. Micro-size optical fibre strain interrogation system

    NASA Astrophysics Data System (ADS)

    Mrad, Nezih; Xiao, Gaozhi; Guo, Honglei

    2008-03-01

    Within several countries, the military is undergoing significant economic pressure to extend the use of its air fleet beyond its established design life. The availability of low weight, small size, reliable and cost-effective technologies to detect and monitor incipient damage and to alert prior to catastrophic failures is critical to sustain operational effectiveness. To enable the implementation of distributed and highly multiplexed optical fiber sensors networks to aerospace platforms, the data acquisition (interrogation) system has to meet small size and low weight requirements. This paper reports on our current development of micro-sized Echelle Diffractive Gratings (EDG) based interrogation system for strain monitoring of serially multiplexed fibre Bragg grating sensors. The operation principle of the interrogator and its suitability for strain measurements is demonstrated. Static load measurements obtained using this system are compared to those acquired using a optical multi-wavelength meter and are found to have strong correlation.

  11. A proposed fibre optic time domain optical coherence tomography system using a micro-photonic stationary optical delay line

    NASA Astrophysics Data System (ADS)

    Jansz, Paul Vernon; Wild, Graham; Hinckley, Steven

    2008-04-01

    Conventional time domain Optical Coherence Tomography (OCT) relies on a reference Optical Delay Line (ODL). These reference ODLs require the physical movement of a mirror to scan a given depth range. This movement results in instrument degradation. We propose a new optical fibre based time domain OCT system that makes use of a micro-photonic structure as a stationary ODL. The proposed system uses an in-fibre interferometer, either a Michelson or a Mach-Zhender. The reference ODL makes use of a collimator to expand the light from the optical fibre. This is them expanded in one dimension via planar optics, that is, a cylindrical lens based telescope, using a concave and convex lens. The expanded beam is them passed through a transmissive Spatial Light Modulator (SLM), specifically a liquid crystal light valve used as an optical switch. Light is then reflected back through the system off the micro-photonic structure. The micro-photonic structure is a one dimensional array of stagged mirror steps, called a Stepped Mirror Structure (SMS). The system enables the selection of discrete optical delay lengths. The proposed ODL is capable of depth hoping and multicasting. We discuss the fabrication of the SMS, which consists of eight steps, each approximately 150 μm high. A change in notch frequency using an in-fibre Mach Zhender interferometer was used to gauge the average step height. The results gave an average step height of 146 μm.

  12. Assessment of trabecular bone structure of the calcaneus using multi-detector CT: correlation with microCT and biomechanical testing.

    PubMed

    Diederichs, Gerd; Link, Thomas M; Kentenich, Marie; Schwieger, Karsten; Huber, Markus B; Burghardt, Andrew J; Majumdar, Sharmila; Rogalla, Patrik; Issever, Ahi S

    2009-05-01

    The prediction of bone strength can be improved when determining bone mineral density (BMD) in combination with measures of trabecular microarchitecture. The goal of this study was to assess parameters of trabecular bone structure and texture of the calcaneus by clinical multi-detector row computed tomography (MDCT) in an experimental in situ setup and to correlate these parameters with microCT (microCT) and biomechanical testing. Thirty calcanei in 15 intact cadavers were scanned using three different protocols on a 64-slice MDCT scanner with an in-plane pixel size of 208 microm and 500 microm slice thickness. Bone cores were harvested from each specimen and microCT images with a voxel size of 16 microm were obtained. After image coregistration, trabecular bone structure and texture were evaluated in identical regions on the MDCT images. After data acquisition, uniaxial compression testing was performed. Significant correlations between MDCT- and microCT-derived measures of bone volume fraction (BV/TV), trabecular thickness (Tb.Th) and trabecular separation (Tb.Sp) were found (range, R(2)=0.19-0.65, p<0.01 or 0.05). The MDCT-derived parameters of volumetric BMD, app. BV/TV, app. Tb.Th and app. Tb.Sp were capable of predicting 60%, 63%, 53% and 25% of the variation in bone strength (p<0.01). When combining those measures with one additional texture index (either GLCM, TOGLCM or MF.euler), prediction of mechanical competence was significantly improved to 86%, 85%, 71% and 63% (p<0.01). In conclusion, this study showed the feasibility of trabecular microarchitecture assessment using MDCT in an experimental setup simulating the clinical situation. Multivariate models of BMD or structural parameters combined with texture indices improved prediction of bone strength significantly and might provide more reliable estimates of fracture risk in patients.

  13. Fundamentals and recent advances in X-ray micro computed tomography (microCT) applied on thermal-fluid dynamics and multiphase flows

    NASA Astrophysics Data System (ADS)

    Santini, Maurizio

    2015-11-01

    X-ray computed tomography (CT) is a well-known technique nowadays, since its first practical application by Sir. G. Hounsfield (Nobel price for medicine 1979) has continually benefited from optimising improvements, especially in medical applications. Indeed, also application of CT in various engineering research fields provides fundamental informations on a wide range of applications, considering that the technique is not destructive, allowing 3D visualization without perturbation of the analysed material. Nowadays, it is technologically possible to design and realize an equipment that achieve a micrometric resolution and even improve the sensibility in revealing differences in materials having very radiotransparency, allowing i.e. to distinguish between different fluids (with different density) or states of matter (like with two-phase flows). At the University of Bergamo, a prototype of an X-ray microCT system was developed since 2008, so being fully operative from 2012, with specific customizations for investigations in thermal-fluid dynamics and multiphase flow researches. A technical session held at the UIT International Conference in L'Aquila (Italy), at which this paper is referring, has presented some microCT fundamentals, to allow the audience to gain basics to follow the “fil-rouge” that links all the instrumentation developments, till the recent applications. Hereinafter are reported some applications currently developed at Bergamo University at the X-ray computed micro-tomography laboratory.

  14. Active investigation of material damage under load using micro-CT

    NASA Astrophysics Data System (ADS)

    Navalgund, Megha; Zunjarrao, Suraj; Mishra, Debasish; Manoharan, V.

    2015-03-01

    Due the growth of composite materials across multiple industries such as Aviation, Wind there is an increasing need to not just standardize and improve manufacturing processes but also to design these materials for the specific applications. One of the things that this translates to is understanding how failure initiates and grows in these materials and at what loads, especially around internal flaws such as voids or features such as ply drops. Traditional methods of investigating internal damage such as CT lack the resolution to resolve ply level damage in composites. Interrupted testing with layer removal can be used to investigate internal damage using microscopy; however this is a destructive method. Advanced techniques such as such as DIC are useful for in-situ damage detection, however are limited to surface information and would not enable interrogating the volume. Computed tomography has become a state of the art technique for metrology and complete volumetric investigation especially for metallic components. However, its application to the composite world is still nascent. This paper demonstrates micro-CT's capability as a gauge to quantitatively estimate the extent of damage & understand the propagation of damage in PMC composites while the component is under stress.

  15. Quantitative confirmation of visual improvements to micro-CT bone density images

    NASA Astrophysics Data System (ADS)

    DaPonte, John S.; Clark, Michael; Nelson, Paul; Sadowski, Thomas; Wood, Elizabeth

    2006-05-01

    The primary goal of this research was to investigate the ability of quantitative variables to confirm qualitative improvements of the deconvolution algorithm as a preprocessing step in evaluating micro CT bone density images. The analysis of these types of images is important because they are necessary to evaluate various countermeasures used to reduce or potentially reverse bone loss experienced by some astronauts when exposed to extended weightlessness during space travel. Nine low resolution (17.5 microns) CT bone density image sequences, ranging from between 85 to 88 images per sequence, were processed with three preprocessing treatment groups consisting of no preprocessing, preprocessing with a deconvolution algorithm and preprocessing with a Gaussian filter. The quantitative parameters investigated consisted of Bone Volume to Total Volume Ratio, the Structured Model Index, Fractal Dimension, Bone Area Ratio, Bone Thickness Ratio, Euler's Number and the Measure of Enhancement. Trends found in these quantitative variables appear to corroborate the visual improvements observed in the past and suggest which quantitative parameters may be capable of distinguishing between groups that experience bone loss and others that do not..

  16. Micro-CT characterization of human trabecular bone in osteogenesis imperfecta

    NASA Astrophysics Data System (ADS)

    Jameson, John; Albert, Carolyne; Smith, Peter; Molthen, Robert; Harris, Gerald

    2011-03-01

    Osteogenesis imperfecta (OI) is a genetic syndrome affecting collagen synthesis and assembly. Its symptoms vary widely but commonly include bone fragility, reduced stature, and bone deformity. Because of the small size and paucity of human specimens, there is a lack of biomechanical data for OI bone. Most literature has focused on histomorphometric analyses, which rely on assumptions to extrapolate 3-D properties. In this study, a micro-computed tomography (μCT) system was used to directly measure structural and mineral properties in pediatric OI bone collected during routine surgical procedures. Surface renderings suggested a poorly organized, plate-like orientation. Patients with a history of bone-augmenting drugs exhibited increased bone volume fraction (BV/TV), trabecular number (Tb.N), and connectivity density (Eu.Conn.D). The latter two parameters appeared to be related to OI severity. Structural results were consistently higher than those reported in a previous histomorphometric study, but these differences can be attributed to factors such as specimen collection site, drug therapy, and assumptions associated with histomorphometry. Mineral testing revealed strong correlations with several structural parameters, highlighting the importance of a dual approach in trabecular bone testing. This study reports some of the first quantitative μCT data of human OI bone, and it suggests compelling possibilities for the future of OI bone assessment.

  17. Comparisons of the diagnostic accuracies of optical coherence tomography, micro-computed tomography, and histology in periodontal disease: an ex vivo study

    PubMed Central

    2017-01-01

    Purpose Optical coherence tomography (OCT) is a noninvasive diagnostic technique that may be useful for both qualitative and quantitative analyses of the periodontium. Micro-computed tomography (micro-CT) is another noninvasive imaging technique capable of providing submicron spatial resolution. The purpose of this study was to present periodontal images obtained using ex vivo dental OCT and to compare OCT images with micro-CT images and histologic sections. Methods Images of ex vivo canine periodontal structures were obtained using OCT. Biologic depth measurements made using OCT were compared to measurements made on histologic sections prepared from the same sites. Visual comparisons were made among OCT, micro-CT, and histologic sections to evaluate whether anatomical details were accurately revealed by OCT. Results The periodontal tissue contour, gingival sulcus, and the presence of supragingival and subgingival calculus could be visualized using OCT. OCT was able to depict the surface topography of the dentogingival complex with higher resolution than micro-CT, but the imaging depth was typically limited to 1.2–1.5 mm. Biologic depth measurements made using OCT were a mean of 0.51 mm shallower than the histologic measurements. Conclusions Dental OCT as used in this study was able to generate high-resolution, cross-sectional images of the superficial portions of periodontal structures. Improvements in imaging depth and the development of an intraoral sensor are likely to make OCT a useful technique for periodontal applications. PMID:28261522

  18. Laser figuring for the generation of analog micro-optics and kineform surfaces

    NASA Technical Reports Server (NTRS)

    Gratrix, Edward J.

    1993-01-01

    To date, there have been many techniques used to generate micro-optic structures in glass or other materials. Using methods common to the lithographic industry, the manufacturing technique known as 'binary optics,' has demonstrated the use of diffractive optics in a variety of micro-optic applications. It is well established that diffractive structures have limited capability when applied in a design more suited for a refractive element. For applications that demand fast, highly efficient, broadband designs, we have developed a technique which uses laser figuring to generate the refractive micro-optical surface. This paper describes the technique used to fabricate refractive micro-optics. Recent results of micro-optics in CdZnTe focal planes are shown.

  19. Longitudinal assessment of bleomycin-induced lung fibrosis by Micro-CT correlates with histological evaluation in mice.

    PubMed

    Ruscitti, Francesca; Ravanetti, Francesca; Essers, Jeroen; Ridwan, Yanto; Belenkov, Sasha; Vos, Wim; Ferreira, Francisca; KleinJan, Alex; van Heijningen, Paula; Van Holsbeke, Cedric; Cacchioli, Antonio; Villetti, Gino; Stellari, Franco Fabio

    2017-01-01

    The intratracheal instillation of bleomycin in mice induces early damage to alveolar epithelial cells and development of inflammation followed by fibrotic tissue changes and represents the most widely used model of pulmonary fibrosis to investigate human IPF. Histopathology is the gold standard for assessing lung fibrosis in rodents, however it precludes repeated and longitudinal measurements of disease progression and does not provide information on spatial and temporal distribution of tissue damage. Here we investigated the use of the Micro-CT technique to allow the evaluation of disease onset and progression at different time-points in the mouse bleomycin model of lung fibrosis. Micro-CT was throughout coupled with histological analysis for the validation of the imaging results. In bleomycin-instilled and control mice, airways and lung morphology changes were assessed and reconstructed at baseline, 7, 14 and 21 days post-treatment based on Micro-CT images. Ashcroft score, percentage of collagen content and percentage of alveolar air area were detected on lung slides processed by histology and subsequently compared with Micro-CT parameters. Extent (%) of fibrosis measured by Micro-CT correlated with Ashcroft score, the percentage of collagen content and the percentage of alveolar air area (r(2)  = 0.91; 0.77; 0.94, respectively). Distal airway radius also correlated with the Ashcroft score, the collagen content and alveolar air area percentage (r(2)  = 0.89; 0.78; 0.98, respectively). Micro-CT data were in good agreement with histological read-outs as micro-CT was able to quantify effectively and non-invasively disease progression longitudinally and to reduce the variability and number of animals used to assess the damage. This suggests that this technique is a powerful tool for understanding experimental pulmonary fibrosis and that its use could translate into a more efficient drug discovery process, also helping to fill the gap between preclinical

  20. High-resolution three-dimensional visualization of the rat spinal cord microvasculature by synchrotron radiation micro-CT

    SciTech Connect

    Hu, Jianzhong; Cao, Yong; Wu, Tianding; Li, Dongzhe; Lu, Hongbin

    2014-10-15

    Purpose: Understanding the three-dimensional (3D) morphology of the spinal cord microvasculature has been limited by the lack of an effective high-resolution imaging technique. In this study, synchrotron radiation microcomputed tomography (SRµCT), a novel imaging technique based on absorption imaging, was evaluated with regard to the detection of the 3D morphology of the rat spinal cord microvasculature. Methods: Ten Sprague-Dawley rats were used in this ex vivo study. After contrast agent perfusion, their spinal cords were isolated and scanned using conventional x-rays, conventional micro-CT (CµCT), and SRµCT. Results: Based on contrast agent perfusion, the microvasculature of the rat spinal cord was clearly visualized for the first time ex vivo in 3D by means of SRµCT scanning. Compared to conventional imaging techniques, SRµCT achieved higher resolution 3D vascular imaging, with the smallest vessel that could be distinguished approximately 7.4 μm in diameter. Additionally, a 3D pseudocolored image of the spinal cord microvasculature was generated in a single session of SRµCT imaging, which was conducive to detailed observation of the vessel morphology. Conclusions: The results of this study indicated that SRµCT scanning could provide higher resolution images of the vascular network of the spinal cord. This modality also has the potential to serve as a powerful imaging tool for the investigation of morphology changes in the 3D angioarchitecture of the neurovasculature in preclinical research.

  1. Optical Oxygen Micro- and Nanosensors for Plant Applications

    PubMed Central

    Ast, Cindy; Schmälzlin, Elmar; Löhmannsröben, Hans-Gerd; van Dongen, Joost T.

    2012-01-01

    Pioneered by Clark's microelectrode more than half a century ago, there has been substantial interest in developing new, miniaturized optical methods to detect molecular oxygen inside cells. While extensively used for animal tissue measurements, applications of intracellular optical oxygen biosensors are still scarce in plant science. A critical aspect is the strong autofluorescence of the green plant tissue that interferes with optical signals of commonly used oxygen probes. A recently developed dual-frequency phase modulation technique can overcome this limitation, offering new perspectives for plant research. This review gives an overview on the latest optical sensing techniques and methods based on phosphorescence quenching in diverse tissues and discusses the potential pitfalls for applications in plants. The most promising oxygen sensitive probes are reviewed plus different oxygen sensing structures ranging from micro-optodes to soluble nanoparticles. Moreover, the applicability of using heterologously expressed oxygen binding proteins and fluorescent proteins to determine changes in the cellular oxygen concentration are discussed as potential non-invasive cellular oxygen reporters. PMID:22969334

  2. Optical Levitation of Micro-Scale Particles in Air

    NASA Technical Reports Server (NTRS)

    Wrbanek, Susan Y.; Weiland, Kenneth E.

    2004-01-01

    Success has been achieved using a radiation pressure gradient to levitate microscale particles in air for as long as four hours. This work is performed as a precursor to the development of a vacuum based optical tweezers interrogation tool for nanotechnology research. It was decided to first proceed with solving the problem of achieving optical levitation of a micro-scale particle in air before trying the same in a vacuum environment. This successful optical levitation in air confirms the work of Ashkin and Dziedzic. Levitation of 10 and 13.8 microns diameter polystyrene spheres was achieved, as well as the levitation of 10 and 100 microns diameter glass spheres. Particles were raised and lowered. A modicum of success was achieved translating particles horizontally. Trapping of multiple particles in one laser beam has been photographed. Also, it has been observed that particles, that may be conglomerates or irregular in shape, can also be trapped by a focused laser beam. Levitated glass beads were photographed using laser light scattered from the beads. The fact that there is evidence of optical traps in air containing irregular and conglomerate particles provides hope that future tool particles need not be perfect spheres.

  3. Imaging the Aqueous Humor Outflow Pathway in Human Eyes by Three-dimensional Micro-computed Tomography (3D micro-CT)

    SciTech Connect

    C Hann; M Bentley; A Vercnocke; E Ritman; M Fautsch

    2011-12-31

    The site of outflow resistance leading to elevated intraocular pressure in primary open-angle glaucoma is believed to be located in the region of Schlemm's canal inner wall endothelium, its basement membrane and the adjacent juxtacanalicular tissue. Evidence also suggests collector channels and intrascleral vessels may have a role in intraocular pressure in both normal and glaucoma eyes. Traditional imaging modalities limit the ability to view both proximal and distal portions of the trabecular outflow pathway as a single unit. In this study, we examined the effectiveness of three-dimensional micro-computed tomography (3D micro-CT) as a potential method to view the trabecular outflow pathway. Two normal human eyes were used: one immersion fixed in 4% paraformaldehyde and one with anterior chamber perfusion at 10 mmHg followed by perfusion fixation in 4% paraformaldehyde/2% glutaraldehyde. Both eyes were postfixed in 1% osmium tetroxide and scanned with 3D micro-CT at 2 {mu}m or 5 {mu}m voxel resolution. In the immersion fixed eye, 24 collector channels were identified with an average orifice size of 27.5 {+-} 5 {mu}m. In comparison, the perfusion fixed eye had 29 collector channels with a mean orifice size of 40.5 {+-} 13 {mu}m. Collector channels were not evenly dispersed around the circumference of the eye. There was no significant difference in the length of Schlemm's canal in the immersed versus the perfused eye (33.2 versus 35.1 mm). Structures, locations and size measurements identified by 3D micro-CT were confirmed by correlative light microscopy. These findings confirm 3D micro-CT can be used effectively for the non-invasive examination of the trabecular meshwork, Schlemm's canal, collector channels and intrascleral vasculature that comprise the distal outflow pathway. This imaging modality will be useful for non-invasive study of the role of the trabecular outflow pathway as a whole unit.

  4. Computational Aerodynamic Analysis of a Micro-CT Based Bio-Realistic Fruit Fly Wing

    PubMed Central

    Brandt, Joshua; Doig, Graham; Tsafnat, Naomi

    2015-01-01

    The aerodynamic features of a bio-realistic 3D fruit fly wing in steady state (snapshot) flight conditions were analyzed numerically. The wing geometry was created from high resolution micro-computed tomography (micro-CT) of the fruit fly Drosophila virilis. Computational fluid dynamics (CFD) analyses of the wing were conducted at ultra-low Reynolds numbers ranging from 71 to 200, and at angles of attack ranging from -10° to +30°. It was found that in the 3D bio-realistc model, the corrugations of the wing created localized circulation regions in the flow field, most notably at higher angles of attack near the wing tip. Analyses of a simplified flat wing geometry showed higher lift to drag performance values for any given angle of attack at these Reynolds numbers, though very similar performance is noted at -10°. Results have indicated that the simplified flat wing can successfully be used to approximate high-level properties such as aerodynamic coefficients and overall performance trends as well as large flow-field structures. However, local pressure peaks and near-wing flow features induced by the corrugations are unable to be replicated by the simple wing. We therefore recommend that accurate 3D bio-realistic geometries be used when modelling insect wings where such information is useful. PMID:25954946

  5. Computational Aerodynamic Analysis of a Micro-CT Based Bio-Realistic Fruit Fly Wing.

    PubMed

    Brandt, Joshua; Doig, Graham; Tsafnat, Naomi

    2015-01-01

    The aerodynamic features of a bio-realistic 3D fruit fly wing in steady state (snapshot) flight conditions were analyzed numerically. The wing geometry was created from high resolution micro-computed tomography (micro-CT) of the fruit fly Drosophila virilis. Computational fluid dynamics (CFD) analyses of the wing were conducted at ultra-low Reynolds numbers ranging from 71 to 200, and at angles of attack ranging from -10° to +30°. It was found that in the 3D bio-realistic model, the corrugations of the wing created localized circulation regions in the flow field, most notably at higher angles of attack near the wing tip. Analyses of a simplified flat wing geometry showed higher lift to drag performance values for any given angle of attack at these Reynolds numbers, though very similar performance is noted at -10°. Results have indicated that the simplified flat wing can successfully be used to approximate high-level properties such as aerodynamic coefficients and overall performance trends as well as large flow-field structures. However, local pressure peaks and near-wing flow features induced by the corrugations are unable to be replicated by the simple wing. We therefore recommend that accurate 3D bio-realistic geometries be used when modelling insect wings where such information is useful.

  6. Micro-CT evaluation of apical delta morphologies in human teeth

    PubMed Central

    Gao, Xianhua; Tay, Franklin R.; Gutmann, James L.; Fan, Wei; Xu, Ting; Fan, Bing

    2016-01-01

    The apical delta is an intricate system within the root canal and incompletely debridement may affect the long-term prognosis of root canal therapy. The aim of the present study is to investigate the morphologic features of apical deltas in human teeth with micro-computed tomography (micro-CT) using a centreline-fitting algorithm. One hundred and thirty-six apical deltas were detected in 1400 teeth. Molars had more apical deltas (15.8%) than anterior teeth (6.3%). In maxillary molars, the mesiobuccal root had a significantly higher prevalence of apical delta than the palatal root or the distobuccal root. The median vertical distance of the apical delta was 1.87 mm with 13% more than 3 mm. The median diameter and length of the apical delta branches were 132.3 and 934.5 μm. Apical delta branches were not straight with cross-sectional shapes being non-circular. These morphological features of apical delta may complicate debridement of the infected root canal system. PMID:27819309

  7. Validation of finite element models of liver tissue using micro-CT.

    PubMed

    Shi, Hongjian; Farag, Aly A; Fahmi, Rachid; Chen, Dongqing

    2008-03-01

    In this work, we aim at validating some soft tissue deformation models using high-resolution micro-computed tomography (Micro-CT) images. The imaging technique plays a key role in detecting the tissue deformation details in the contact region between the tissue and the surgical tool (probe) for small force loads and provides good capabilities of creating accurate 3-D models of soft tissues. Surgical simulations rely on accurate representation of the mechanical response of soft tissues subjected to surgical manipulations. Several finite-element models have been suggested to characterize soft tissues. However, validating these models for specific tissues still remain a challenge. In this study, ex vivo lamb liver tissue is chosen to validate the linear elastic model (LEM), the linear viscoelastic model (LVEM), and the neo-Hooke hyperelastic model (NHM). We find that the LEM is more applicable to lamb liver than the LVEM for smaller force loads (< 20 g) and that the NHM is closer to reality than the LVEM for the range of force loads from 5 to 40 g.

  8. Micro-CT Imaging of Rat Bone and Lumber Vertebra using Synchrotron Radiation

    SciTech Connect

    Rao, Donepudi V.; Cesareo, Roberto; Brunetti, Antonio; Akatsuka, Takao; Yuasa, Tetsyua; Takeda, Tohoru; Tromba, Giuliana; Gigante, Giovanni E.

    2009-03-10

    Micro-tomographic imaging with a spatial resolution on the micrometer scale offers owes a high potential to perform certain types of measurements that were not feasible with other techniques or conventional laboratory methods. The synchrotron X-ray source gives substantial advantages because of its high brilliance and continuous X-ray spectrum. Based on this, visualized the microstructure of rat bone and lumber vertebra was visualized using 20, 25 and 30 keV synchrotron X-rays. We utilized the data which was acquired at different energies for multi-model imaging and to estimate the Ca/P ratio. Up to now there has been no research carried out using these images for the estimation of the calcium content, with synchrotron X-rays. The results are based on the analysis of images and gray values obtained at different energies. We introduce this new method in order to measure the calcium content by means of high resolution synchrotron micro-CT.

  9. Micro-CT Imaging of Rat Bone and Lumber Vertebra using Synchrotron Radiation

    NASA Astrophysics Data System (ADS)

    Rao, Donepudi V.; Cesareo, Roberto; Brunetti, Antonio; Akatsuka, Takao; Yuasa, Tetsyua; Takeda, Tohoru; Tromba, Giuliana; Gigante, Giovanni E.

    2009-03-01

    Micro-tomographic imaging with a spatial resolution on the micrometer scale offers owes a high potential to perform certain types of measurements that were not feasible with other techniques or conventional laboratory methods. The synchrotron X-ray source gives substantial advantages because of its high brilliance and continuous X-ray spectrum. Based on this, visualized the microstructure of rat bone and lumber vertebra was visualized using 20, 25 and 30 keV synchrotron X-rays. We utilized the data which was acquired at different energies for multi-model imaging and to estimate the Ca/P ratio. Up to now there has been no research carried out using these images for the estimation of the calcium content, with synchrotron X-rays. The results are based on the analysis of images and gray values obtained at different energies. We introduce this new method in order to measure the calcium content by means of high resolution synchrotron micro-CT.

  10. A Predictive Model of Vertebral Trabecular Anisotropy From Ex Vivo Micro-CT.

    PubMed

    Lekadir, Karim; Hoogendoorn, Corné; Hazrati-Marangalou, Javad; Taylor, Zeike; Noble, Christopher; van Rietbergen, Bert; Frangi, Alejandro F

    2015-08-01

    Spine-related disorders are amongst the most frequently encountered problems in clinical medicine. For several applications such as 1) to improve the assessment of the strength of the spine, as well as 2) to optimize the personalization of spinal interventions, image-based biomechanical modeling of the vertebrae is expected to play an important predictive role. However, this requires the construction of computational models that are subject-specific and comprehensive. In particular, they need to incorporate information about the vertebral anisotropic micro-architecture, which plays a central role in the biomechanical function of the vertebrae. In practice, however, accurate personalization of the vertebral trabeculae has proven to be difficult as its imaging in vivo is currently infeasible. Consequently, this paper presents a statistical approach for accurate prediction of the vertebral fabric tensors based on a training sample of ex vivo micro-CT images. To the best of our knowledge, this is the first predictive model proposed and validated for vertebral datasets. The method combines features selection and partial least squares regression in order to derive optimal latent variables for the prediction of the fabric tensors based on the more easily extracted shape and density information. Detailed validation with 20 ex vivo T12 vertebrae demonstrates the accuracy and consistency of the approach for the personalization of trabecular anisotropy.

  11. In Vivo Small Animal Imaging using Micro-CT and Digital Subtraction Angiography

    PubMed Central

    Badea, C.T.; Drangova, M.; Holdsworth, D.W.; Johnson, G.A.

    2009-01-01

    Small animal imaging has a critical role in phenotyping, drug discovery, and in providing a basic understanding of mechanisms of disease. Translating imaging methods from humans to small animals is not an easy task. The purpose of this work is to review in vivo X-ray based small animal imaging, with a focus on in vivo micro-computed tomography (micro-CT) and digital subtraction angiography (DSA). We present the principles, technologies, image quality parameters and types of applications. We show that both methods can be used not only to provide morphological, but also functional information, such as cardiac function estimation or perfusion. Compared to other modalities, x-ray based imaging is usually regarded as being able to provide higher throughput at lower cost and adequate resolution. The limitations are usually associated with the relatively poor contrast mechanisms and potential radiation damage due to ionizing radiation, although the use of contrast agents and careful design of studies can address these limitations. We hope that the information will effectively address how x-ray based imaging can be exploited for successful in vivo preclinical imaging. PMID:18758005

  12. Optical Readout of Micro-Accelerometer Code Features

    SciTech Connect

    Dickey, Fred M.; Holswade, Scott C.; Polosky, Marc A.; Shagam, Richard N.; Sullivan, Charles T.

    1999-07-08

    Micromachine accelerometers offer a way to enable critical functions only when a system encounters a particular acceleration environment. This paper describes the optical readout of a surface micromachine accelerometer containing a unique 24-bit code. The readout uses waveguide-based optics, which are implemented as a photonic integrated circuit (PIC). The PIC is flip-chip bonded over the micromachine, for a compact package. The shuttle moves 500 {micro}m during readout, and each code element is 17 {micro}m wide. The particular readout scheme makes use of backscattered radiation from etched features in the accelerometer shuttle. The features are etched to create corner reflectors that return radiation back toward the source for a one bit. For a zero bit, the shuttle is not etched, and the radiation scatters forward, away from the detector. This arrangement provides a large signal difference between a one and zero signal, since the zero signal returns virtually no signal to the detector. It is thus superior to schemes that interrogate the code vertically, which have a limited contrast between a one and a zero. Experimental results are presented for mock shuttle features etched into a silicon substrate. To simulate the shuttle moving under a fixed PIC, a commercially available waveguide source was scanned over the mock code.

  13. Design of micro bending deformer for optical fiber weight sensor

    NASA Astrophysics Data System (ADS)

    Ula, R. K.; Hanto, D.; Waluyo, T. B.; Adinanta, H.; Widiyatmoko, B.

    2017-04-01

    The road damage due to excessive load is one of the causes of accidents on the road. A device to measure weight of the passing vehicles needs to be planted in the road structure. Thus, a weight sensor for the passing vehicles is required. In this study, we designed a weight sensor for a static load based on a power loss due to a micro bending on the optical fiber flanked on a board. The following main components are used i.e. LED 1310 nm as a light source, a multimode fiber optic as a transmission media and a power meter for measuring power loss. This works focuses on obtaining a suitable deformer design for weight sensor. Experimental results show that deformer design with 1.5 mm single side has level of accuracy as 4.32% while the design with 1.5 mm double side has level of accuracy as 98.77%. Increasing deformer length to 2.5 mm gives 71.18% level of accuracy for single side, and 76.94% level of accuracy for double side. Micro bending design with 1.5 mm double side has a high sensitivity and it is also capable of measuring load up to 100 kg. The sensor designed has been tested for measuring the weight of motor cycle, and it can be upgraded for measuring heavy vehicles.

  14. Synchrotron-based Micro-CT Imaging of the Human Lung Acinus

    PubMed Central

    Litzlbauer, Horst Detlef; Korbel, Kathrin; Kline, Timothy L.; Jorgensen, Steven M.; Eaker, Diane R.; Bohle, Rainer M.; Ritman, Erik L.; Langheinrich, Alexander C.

    2012-01-01

    Structural data about the human lung fine structure are mainly based on stereological methods applied to serial sections. As these methods utilize 2D images, which are often not contiguous, they suffer from inaccuracies which are overcome by analysis of 3D micro-CT images of the never-sectioned specimen. The purpose of our study was to generate a complete data set of the intact 3-dimensional architecture of the human acinus using high-resolution synchrotron-based micro-CT (synMCT). A human lung was inflation-fixed by formaldehyde ventilation and then scanned in a 64-slice CT over its apex to base extent. Lung samples (8-mm diameter, 10-mm height, n = 12) were punched out, stained with osmium tetroxide, and scanned using synMCT at (4μm)3 voxel size. The lung functional unit (acinus, n = 8) was segmented from the 3D tomographic image using an automated tree-analysis software program. Morphometric data of the lung were analyzed by ANOVA. Intraacinar airways branching occurred over 11 generations. The mean acinar volume was 131.3 ± 29.2 mm3 (range 92.5 – 171.3 mm3) and the mean acinar surface was calculated with 1012 ± 26 cm2. The airway internal diameter (starting from the bronchiolus terminalis) decreases distally from 0.66 ± 0.04 mm to 0.34 ± 0.06 mm (p < 0.001) and remains constant after the 7th generation (p < 0.5). The length of each generation ranges between 0.52 – 0.93 mm and did not show significant differences between the second and 11th generation. The branching angle between daughter branches varies between 113–134° without significant differences between the generations (p < 0.3). This study demonstrates the feasibility of quantitating the 3D structure of the human acinus at the spatial resolution readily achievable using synMCT. PMID:20687188

  15. Non-invasive monitoring of a murine model of metastatic pheochromocytoma: a comparison of contrast enhanced microCT and non-enhanced MRI

    PubMed Central

    Martiniova, Lucia; Kotys, Melanie S.; Thomasson, David; Schimel, Daniel; Lai, Edwin W.; Bernardo, Marcelino; Merino, Maria J.; Powers, James F.; Ruzicka, Jan; Kvetnansky, Richard; Choyke, Peter L.; Pacak, Karel

    2009-01-01

    Purpose To compare contrast-enhanced micro computed tomography (microCT) and non-enhanced respiratory-triggered MRI in an animal model of metastatic pheochromocytoma. Animal models are becoming important in the study of cancer treatment and imaging is useful in minimizing the number of animals needed and reducing costs associated with autopsies. However, the choice of imaging modality is still evolving. Materials and Methods Adult female nude mice were injected by tail vein with a mouse pheochromocytoma (MPC) cell line (MPC 4/30PRR) to create a metastatic model. After optimizing imaging techniques eight mice were imaged with both respiratory triggered MRI and microCT and the findings were verified histologically. Results MicroCT and MRI were approximately equal in their ability to detect hepatic metastases at a size threshold of 350 μm. In the lungs, MRI was more sensitive than microCT, detecting lesions 0.6 mm in diameter vs. 1mm for microCT. Additionally, MRI was more sensitive for lesions in the kidneys, bone, ovaries and adrenal glands. MRI demonstrated higher contrast-to-noise ratio (CNR) than microCT. Conclusion In addition to the advantage of not exposing the animal to ionizing radiation, MRI provided a more complete assessment of the extent of metastases in this model, compared to microCT. PMID:19243052

  16. Taxonomy and nomenclature of some mainland SE-Asian Coeliccia species (Odonata, Platycnemididae) using micro-CT analysis.

    PubMed

    Steinhoff, Philip O M; Uhl, Gabriele

    2015-12-22

    The taxonomic status of some mainland Southeast Asian Coeliccia species is evaluated. The following synonymies are presented: C. acco is a junior synonym of C. pyriformis; C. tomokunii that of C. scutellum; C.onoi that of C. cyanomelas. C. scutellum hainanense is promoted to species level, C. hainanense. Redescriptions of the holotype of C. pyriformis and of the lectotypes of C. scutellum and C. hainanense are presented with illustrations. The male genital ligulae were examined by means of non-destructive X-ray micro-computed tomography (micro-CT) and subsequent 3D-reconstruction. The advantage of virtual types generated by micro-CT analysis, particularly for the examination of internal structures, is discussed.

  17. Micro-CT Pore Scale Study Of Flow In Porous Media: Effect Of Voxel Resolution

    NASA Astrophysics Data System (ADS)

    Shah, S.; Gray, F.; Crawshaw, J.; Boek, E.

    2014-12-01

    In the last few years, pore scale studies have become the key to understanding the complex fluid flow processes in the fields of groundwater remediation, hydrocarbon recovery and environmental issues related to carbon storage and capture. A pore scale study is often comprised of two key procedures: 3D pore scale imaging and numerical modelling techniques. The essence of a pore scale study is to test the physics implemented in a model of complicated fluid flow processes at one scale (microscopic) and then apply the model to solve the problems associated with water resources and oil recovery at other scales (macroscopic and field). However, the process of up-scaling from the pore scale to the macroscopic scale has encountered many challenges due to both pore scale imaging and modelling techniques. Due to the technical limitations in the imaging method, there is always a compromise between the spatial (voxel) resolution and the physical volume of the sample (field of view, FOV) to be scanned by the imaging methods, specifically X-ray micro-CT (XMT) in our case In this study, a careful analysis was done to understand the effect of voxel size, using XMT to image the 3D pore space of a variety of porous media from sandstones to carbonates scanned at different voxel resolution (4.5 μm, 6.2 μm, 8.3 μm and 10.2 μm) but keeping the scanned FOV constant for all the samples. We systematically segment the micro-CT images into three phases, the macro-pore phase, an intermediate phase (unresolved micro-pores + grains) and the grain phase and then study the effect of voxel size on the structure of the macro-pore and the intermediate phases and the fluid flow properties using lattice-Boltzmann (LB) and pore network (PN) modelling methods. We have also applied a numerical coarsening algorithm (up-scale method) to reduce the computational power and time required to accurately predict the flow properties using the LB and PN method.

  18. Error correction based on micro-scanning preprocessing for an optical micro-scanning thermal microscope imaging system

    NASA Astrophysics Data System (ADS)

    Gao, Meijing; Xu, Jie; Tan, Ailing; Zu, Zhenlong; Yang, Ming; Wang, Jingyuan

    2017-06-01

    In recent years, various thermal microscope imaging systems have been developed to meet the demands of micro-thermal analysis for large-scale integrated circuits, biomedical, science, and research fields. However, conventional thermal microscope imaging systems, which use cooled infrared detectors are heavy and expensive. In order to solve this problem, we developed a thermal microscope imaging system based on an uncooled infrared detector. However, the spatial resolution of the thermal microscope imaging system based on an uncooled infrared detector is low. With optical micro-scanning technology, the spatial resolution of the thermal microscope imaging system can be increased without increasing the detector dimension or reducing the detector unit size. In order to improve its spatial resolution, a micro-scanning system based on optical plate rotation was developed, and an optical microscanning thermal microscope imaging system was obtained after the integrated design. Due to environmental factors, mechanical vibration, alignment error and other factors, there is micro-scanning error in the designed micro-scanning thermal microscope imaging system. The four low-resolution images collected by micro-scanning thermal microscope imaging system are not standard down-sampled images. The quality of the image interpolated directly by four collected images is reduced and the performance of the micro-scanning system isn't fully exploited. Therefore, based on the proposed second-order oversampling reconstruction micro-scanning error correction algorithm and the new edge directed interpolation algorithm, a new micro-scanning error correction technique is proposed. Simulations and experiments show that the proposed technique can effectively reduce optical micro-scanning error, improve the systems spatial resolution and optimize the effect of the imaging system. It can be applied to other electro-optical imaging systems to improve their spatial resolution.

  19. Lateral translation micro-tracking of planar micro-optic solar concentrator

    NASA Astrophysics Data System (ADS)

    Hallas, Justin M.; Karp, Jason H.; Tremblay, Eric J.; Ford, Joseph E.

    2010-08-01

    High-concentration photo-voltaic systems focus incident sunlight by hundreds of times by combining focusing lenses with accurate, dual-axis solar tracking. Conventional systems mount large optical arrays on expensive tracking pedestals to maintain normal incidence throughout the day. A recently proposed micro-optic solar concentrator utilizes a twodimensional lens array focusing into a planar slab waveguide. Localized mirrors fabricated on the waveguide surface reflect focused sunlight into guided modes which propagate towards an edge-mounted photovoltaic cell. This geometry enables a new method of solar tracking by laterally translating the waveguide with respect to the lens array to capture off-axis illumination. Using short focal length lenses, translations on the order of millimeters can efficiently collect 70° full-angle incident fields. This allows for either one or two-axis tracking systems where the small physical motion is contained within the physical footprint of a fixed solar panel. Here, we experimentally demonstrate lateral micro tracking for off-axis light collection using table-mounted components. We also present a novel tracking frame based on de-centered cams and describe a lens configuration optimized for off-axis coupling.

  20. Rapid micro-optical prototyping technology for fabricating optical interconnection modules at the MCM and PCB level

    NASA Astrophysics Data System (ADS)

    Debaes, C.; Vervaeke, M.; Van Erps, J.; Desmet, L.; Ottevaere, H.; Gomez, V.; Vynck, P.; Van Overmeire, S.; Ishii, Y.; Hermanne, A.; Thienpont, H.

    2006-10-01

    One of the remaining challenges to solve the interconnection bottlenecks at the Printed Circuit Board (PCB) and Multi-Chip-Module (MCM) level, is to adequately replace the galvanic interconnects with high-performance, low-cost, compact and reliable micro-photonic alternatives. At our labs of the Vrije Universiteit Brussel we are therefore optimizing and deploying a rapid micro-optical prototyping technology for micro-optical interconnect modules, which we call Deep Proton Writing (DPW). An advantage of the DPW process is that it can create steep micro-optical surfaces, micro-holes, micro-lenses and alignment features in one irradation step. Hence, relative accuracies are very well controlled. In this report, we will address more specifically the following components, made each with the DPW technology: 1) out-of-plane couplers for optical wave-guides embedded in PCB, 2) peripheral fiber ribbons and two dimensional single- and multimode fiber connectors for high-speed parallel optical connections, and 3) intra-MCM level optical interconnections via free-space optical modules. We will give special attention to the optical tolerancing and the opto-mechanical integration of components in their packages. We use both a sensitivity analysis to misalignment errors and Monte-Carlo simulations. It is our aim to investigate the whole component integration chain from the optoelectronic device packaging to the micro-opto-mechanical assembly of the interconnect module.

  1. Applications of Non-Imaging Micro-Optic Systems

    NASA Astrophysics Data System (ADS)

    Baker, Katherine Anne

    While imaging optics necessarily transmit a clear image of an object, non-imaging optics manipulate light in many different ways. Two important applications are illumination and concentration. In this thesis, I cover an application in each of these areas involving small-scale optics. Extremely low birth weight infants typically require intubation, but existing laryngoscopes for viewing the airway are not suited to this population. Small commercial cameras can fit within the required geometry, but need high illumination with low heating. Repurposing the mechanical structure of the laryngoscope as a waveguide for an LED source meets both these requirements. Concentrator photovoltaic systems accept sunlight over a large aperture and focus it to a proportionally small photovoltaic cell. This kind of configuration allows the cost of expensive but highly efficient multijunction cells to be amortized over a large area module, resulting in cost-effective, high efficiency systems. A prior design from our lab uses a lenslet array and mirrored micro-prisms to concentrate sunlight within a glass waveguide. This enables high efficiency concentration with a compact form factor compatible with mass fabrication and eliminating problems associated with discrete PV cells. I first adapt the basic planar concentrator design for specific applications. One-dimensional polar tracking is an attractive design space, and either passive optical tracking or mechanical micro-tracking can be used to adapt the concentrator for this framework. The concentrator can also be used in solar thermal rather than photovoltaic applications with the addition of an output coupler. I also address a completely different approach to concentrator tracking. This non-imaging system is nonlinear, implementing a reactive cladding layer to enable the system to self-track the sun. I present design studies to quantify the requirements of such a material, then present a candidate materials system to meet these

  2. Optical micro-bubble resonators as promising biosensors

    NASA Astrophysics Data System (ADS)

    Giannetti, A.; Barucci, A.; Berneschi, S.; Cosci, A.; Cosi, F.; Farnesi, D.; Nunzi Conti, G.; Pelli, S.; Soria, S.; Tombelli, S.; Trono, C.; Righini, G. C.; Baldini, F.

    2015-05-01

    Recently, optical micro-bubble resonators (OMBRs) have gained an increasing interest in many fields of photonics thanks to their particular properties. These hollow microstructures can be suitable for the realization of label - free optical biosensors by combining the whispering gallery mode (WGM) resonator properties with the intrinsic capability of integrated microfluidics. In fact, the WGMs are morphology-dependent modes: any change on the OMBR inner surface (due to chemical and/or biochemical binding) causes a shift of the resonance position and reduces the Q factor value of the cavity. By measuring this shift, it is possible to obtain information on the concentration of the analyte to be detected. A crucial step for the development of an OMBR-based biosensor is constituted by the functionalization of its inner surface. In this work we report on the development of a physical and chemical process able to guarantee a good homogeneity of the deposed bio-layer and, contemporary, to preserve a high quality factor Q of the cavity. The OMBR capability of working as bioassay was proved by different optical techniques, such as the real time measurement of the resonance broadening after each functionalization step and fluorescence microscopy.

  3. Precision laser processing for micro electronics and fiber optic manufacturing

    NASA Astrophysics Data System (ADS)

    Webb, Andrew; Osborne, Mike; Foster-Turner, Gideon; Dinkel, Duane W.

    2008-02-01

    The application of laser based materials processing for precision micro scale manufacturing in the electronics and fiber optic industry is becoming increasingly widespread and accepted. This presentation will review latest laser technologies available and discuss the issues to be considered in choosing the most appropriate laser and processing parameters. High repetition rate, short duration pulsed lasers have improved rapidly in recent years in terms of both performance and reliability enabling flexible, cost effective processing of many material types including metal, silicon, plastic, ceramic and glass. Demonstrating the relevance of laser micromachining, application examples where laser processing is in use for production will be presented, including miniaturization of surface mount capacitors by applying a laser technique for demetalization of tracks in the capacitor manufacturing process and high quality laser machining of fiber optics including stripping, cleaving and lensing, resulting in optical quality finishes without the need for traditional polishing. Applications include telecoms, biomedical and sensing. OpTek Systems was formed in 2000 and provide fully integrated systems and sub contract services for laser processes. They are headquartered in the UK and are establishing a presence in North America through a laser processing facility in South Carolina and sales office in the North East.

  4. Rotational micro-CT using a clinical C-arm angiography gantry

    SciTech Connect

    Patel, V.; Hoffmann, K. R.; Ionita, C. N.; Keleshis, C.; Bednarek, D. R.; Rudin, S.

    2008-10-15

    Rotational angiography (RA) gantries are used routinely to acquire sequences of projection images of patients from which 3D renderings of vascular structures are generated using Feldkamp cone-beam reconstruction algorithms. However, these systems have limited resolution (<4 lp/mm). Micro-computed tomography (micro-CT) systems have better resolution (>10 lp/mm) but to date have relied either on rotating object imaging or small bore geometry for small animal imaging, and thus are not used for clinical imaging. The authors report here the development and use of a 3D rotational micro-angiography (RMA) system created by mounting a micro-angiographic fluoroscope (MAF) [35 {mu}m pixel, resolution >10 lp/mm, field of view (FOV)=3.6 cm] on a standard clinical FPD-based RA gantry (Infinix, Model RTP12303J-G9E, Toshiba Medical Systems Corp., Tustin, CA). RA image sequences are obtained using the MAF and reconstructed. To eliminate artifacts due to image truncation, lower-dose (compared to MAF acquisition) full-FOV (FFOV) FPD RA sequences (194 {mu}m pixel, FOV=20 cm) were also obtained to complete the missing data. The RA gantry was calibrated using a helical bead phantom. To ensure high-quality high-resolution reconstruction, the high-resolution images from the MAF were aligned spatially with the lower-dose FPD images, and the pixel values in the FPD image data were scaled to match those of the MAF. Images of a rabbit with a coronary stent placed in an artery in the Circle of Willis were obtained and reconstructed. The MAF images appear well aligned with the FPD images (average correlation coefficient before and after alignment: 0.65 and 0.97, respectively) Greater details without any visible truncation artifacts are seen in 3D RMA (MAF-FPD) images than in those of the FPD alone. The FWHM of line profiles of stent struts (100 {mu}m diameter) are approximately 192{+-}21 and 313{+-}38 {mu}m for the 3D RMA and FPD data, respectively. In addition, for the dual-acquisition 3D RMA

  5. Three-Dimensional Quantification of Calcium Salt-Composite Resorption (CSC) In Vitro by Micro-computed Tomography (Micro-CT)

    NASA Astrophysics Data System (ADS)

    Winkler, T.; Dai, X. Y.; Mielke, G.; Vogt, S.; Buechner, H.; Schantz, J. T.; Harder, Y.; Machens, H. G.; Morlock, M. M.; Schilling, A. F.

    2014-04-01

    The commonly applied cell-based, two-dimensional (2D) in vitro resorption assays for biomaterials are limited in a variety of cases, including high initial roughness of material surface, uncontrollable solubilization (or resorption) of the entire material surface, or complex three-dimensional (3D) structure of the bioactive material itself. All these make the accurate assessment and successful selection of the optimal bone substitute material difficult. In vivo, micro-computed tomography (micro-CT) has been widely applied for the analysis of bone physiology and pathology, as well as for the 3D analysis of scaffolds for bone tissue engineering. In this study, we show that micro-CT can also be applied for the in vitro analysis of osteoclast-mediated resorption of biomaterials. For our experiments, we chose a calcium salt-composite (composite of calcium sulphate (CSC), calcium carbonate, glycerin-1,2,3-tripalmiate), which evades common 2D in vitro resorption analysis as a result of its high surface roughness and material composition. Human osteoclasts were differentiated from precursor cells on the surface of the material for 28 days. Cells were analyzed for expression of tartrate-resistant acid phosphatase 5b (TRAP5b), multinuclearity, and size. Volumetric analysis of resorption was performed by micro-CT. Multinucleated osteoclasts developed on the surface of the material. TRAP5b expression of the cells on CSC was comparable with TRAP5b expression of cells cultivated on dentin for the first 3 weeks of culture. At day 28, TRAP5b expression, cell number, and size of the TRAP+ cells were reduced on the CSC when compared with cells on dentin. Volumetric anaylsis by micro-CT showed a strong cellular effect on resorption of CSC. We consider micro-CT to be a promising technique for 3D quantification of cell-based resorption that will allow the study of cellular resorption of materials in vitro, which were up to now confined to animal experimental analysis.

  6. Assessment of optical CT as a future QA tool for synchrotron x-ray microbeam therapy

    NASA Astrophysics Data System (ADS)

    McErlean, Ciara M.; Bräuer-Krisch, Elke; Adamovics, John; Doran, Simon J.

    2016-01-01

    Synchrotron microbeam radiation therapy (MRT) is an advanced form of radiotherapy for which it is extremely difficult to provide adequate quality assurance. This may delay or limit its clinical uptake, particularly in the paediatric patient populations for whom it could be especially suitable. This study investigates the extent to which new developments in 3D dosimetry using optical computed tomography (CT) can visualise MRT dose distributions, and assesses what further developments are necessary before fully quantitative 3D measurements can be achieved. Two experiments are reported. In the first cylindrical samples of the radiochromic polymer PRESAGE® were irradiated with different complex MRT geometries including multiport treatments of collimated ‘pencil’ beams, interlaced microplanar arrays and a multiport treatment using an anthropomorphic head phantom. Samples were scanned using transmission optical CT. In the second experiment, optical CT measurements of the biologically important peak-to-valley dose ratio (PVDR) were compared with expected values from Monte Carlo simulations. The depth-of-field (DOF) of the optical CT system was characterised using a knife-edge method and the possibility of spatial resolution improvement through deconvolution of a measured point spread function (PSF) was investigated. 3D datasets from the first experiment revealed excellent visualisation of the 50 μm beams and various discrepancies from the planned delivery dose were found. The optical CT PVDR measurements were found to be consistently 30% of the expected Monte Carlo values and deconvolution of the microbeam profiles was found to lead to increased noise. The reason for the underestimation of the PVDR by optical CT was attributed to lack of spatial resolution, supported by the results of the DOF characterisation. Solutions are suggested for the outstanding challenges and the data are shown already to be useful in identifying potential treatment anomalies.

  7. Micro-optical elements and optical materials of certain spider webs

    NASA Astrophysics Data System (ADS)

    Kane, D. M.; Naidoo, N.; Little, D. J.

    2012-06-01

    Certain spider webs are composed of several types of micro-optical elements made from transparent optical materials. The silks (radial and capture) are almost exclusively protein. The nearly cylindrical silks have diameters in the range 0.1 to several microns and cross-sectional morphology that is cylindrical-multi-layered,.as studied by transmission electron microscopy, The capture threads are coated with aqueous adhesive that also forms into nearly elliptical micro-lenses (adhesive droplets) mounted on the near cylindrical silks. The remaining elements of the web are the cement junctions tying the radial and the capture threads of the web together. These are irregularly shaped platelets. Progress to date on our research characterizing the optical properties and function of these transparent orb webs has been to interpret the reflection and transmission properties of the elements of the web, and the web as a whole, in natural lighting; to evaluate the optical finish of the surface of the silks and capture droplets; and to measure the principal refractive indices of radial silks using new immersion based methods developed for application to micron-sized, curved optical elements. Here we report the principal refractive indices, birefringence, dispersion and morphology of transparent spider silk subject to various chemical treatments. The morphology is measured using TEM. Insight into the physical origin of the refractive index properties will be discussed.

  8. Wavelet based characterization of ex vivo vertebral trabecular bone structure with 3T MRI compared to microCT

    SciTech Connect

    Krug, R; Carballido-Gamio, J; Burghardt, A; Haase, S; Sedat, J W; Moss, W C; Majumdar, S

    2005-04-11

    Trabecular bone structure and bone density contribute to the strength of bone and are important in the study of osteoporosis. Wavelets are a powerful tool to characterize and quantify texture in an image. In this study the thickness of trabecular bone was analyzed in 8 cylindrical cores of the vertebral spine. Images were obtained from 3 Tesla (T) magnetic resonance imaging (MRI) and micro-computed tomography ({micro}CT). Results from the wavelet based analysis of trabecular bone were compared with standard two-dimensional structural parameters (analogous to bone histomorphometry) obtained using mean intercept length (MR images) and direct 3D distance transformation methods ({micro}CT images). Additionally, the bone volume fraction was determined from MR images. We conclude that the wavelet based analyses delivers comparable results to the established MR histomorphometric measurements. The average deviation in trabecular thickness was less than one pixel size between the wavelet and the standard approach for both MR and {micro}CT analysis. Since the wavelet based method is less sensitive to image noise, we see an advantage of wavelet analysis of trabecular bone for MR imaging when going to higher resolution.

  9. HECTOR: A 240kV micro-CT setup optimized for research

    NASA Astrophysics Data System (ADS)

    Masschaele, Bert; Dierick, Manuel; Van Loo, Denis; Boone, Matthieu N.; Brabant, Loes; Pauwels, Elin; Cnudde, Veerle; Van Hoorebeke, Luc

    2013-10-01

    X-ray micro-CT has become a very powerful and common tool for non-destructive three-dimensional (3D) visualization and analysis of objects. Many systems are commercially available, but they are typically limited in terms of operational freedom both from a mechanical point of view as well as for acquisition routines. HECTOR is the latest system developed by the Ghent University Centre for X-ray Tomography (http://www.ugct.ugent.be) in collaboration with X-Ray Engineering (XRE bvba, Ghent, Belgium). It consists of a mechanical setup with nine motorized axes and a modular acquisition software package and combines a microfocus directional target X-ray source up to 240 kV with a large flat-panel detector. Provisions are made to install a line-detector for a maximal operational range. The system can accommodate samples up to 80 kg, 1 m long and 80 cm in diameter while it is also suited for high resolution (down to 4 μm) tomography. The bi-directional detector tiling is suited for large samples while the variable source-detector distance optimizes the signal to noise ratio (SNR) for every type of sample, even with peripheral equipment such as compression stages or climate chambers. The large vertical travel of 1 m can be used for helical scanning and a vertical detector rotation axis allows laminography experiments. The setup is installed in a large concrete bunker to allow accommodation of peripheral equipment such as pumps, chillers, etc., which can be integrated in the modular acquisition software to obtain a maximal correlation between the environmental control and the CT data taken. The acquisition software does not only allow good coupling with the peripheral equipment but its scripting feature is also particularly interesting for testing new and exotic acquisition routines.

  10. Dynamic elastic properties from micro-CT images: modeling and experimental validation

    NASA Astrophysics Data System (ADS)

    Lebedev, M.; Pervukhina, M.; de Paula, O.; Clennell, B.; Gurevich, B.

    2009-04-01

    Knowledge of the elastic properties of rocks is a key factor in seismic interpretation. Elastic properties of rock are determined by its microstructure and their prediction relies on the availability of accurate microstructural models. X-ray computer tomography (CT) as a unique non-destructive technique is becoming a powerful tool in geophysics research which reveals detailed 3D microstructure of rock with special resolution of 1 micron. Recent breakthrough in computational capabilities allows simulation of elastic properties directly using the micro-CT images. In this study we simulate acoustic velocities of sandstones, based on high resolution 3D images and compare simulation results with ultrasonic measurements. Synchrotron images of two sandstones are segmented to separate grain from pore space. The porosity obtained as a result of the segmentation process is compared with the measured porosity for the segmentation quality control. Parallel 3D finite difference (FD) code is used to simulate elastic wave propagation through the digitized two phase media where the total solid phase is supposed to have elastic properties of intact quartz and the pore space is either dry or saturated with water. Attenuation and dispersion of acoustic velocities are obtained at a range of frequencies. The numerical results noticeably overestimate velocities obtained at laboratory experiments at ultrasonic frequencies. The discrepancy can be explained with the fact that grain contacts have strong effect on elastic moduli and are the most speculative part of the simulations. To validate our FD code and calibrate the properties of grain contacts, we simulated elastic wave propagation in aluminum foam with porosity of 40%. All grain contacts in the foam are "solid" and its microstructure is similar to that of moldic carbonates. Preliminary results of FD modeling and comparison with experiment of carbonates are presented as well.

  11. Nonlinear Optical Wave Equation for Micro- and Nano-Structured Media and Its Application

    DTIC Science & Technology

    2013-03-01

    AFRL-AFOSR-UK-TR-2013-0012 Nonlinear Optical Wave Equation for Micro - and Nano - Structured Media and Its Application Dr...September 2012 4. TITLE AND SUBTITLE Nonlinear Optical Wave Equation for Micro - and Nano - Structured Media and Its...Equation, Nano -structed Media, Nonlinear Fiber Lasers 16. SECURITY CLASSIFICATION OF: 17. LIMITATION OF ABSTRACT SAR 18, NUMBER OF PAGES 12

  12. Wafer-level micro-optics: trends in manufacturing, testing, packaging, and applications

    NASA Astrophysics Data System (ADS)

    Voelkel, Reinhard; Gong, Li; Rieck, Juergen; Zheng, Alan

    2012-11-01

    Micro-optics is an indispensable key enabling technology (KET) for many products and applications today. Probably the most prestigious examples are the diffractive light shaping elements used in high-end DUV lithography steppers. Highly efficient refractive and diffractive micro-optical elements are used for precise beam and pupil shaping. Micro-optics had a major impact on the reduction of aberrations and diffraction effects in projection lithography, allowing a resolution enhancement from 250 nm to 45 nm within the last decade. Micro-optics also plays a decisive role in medical devices (endoscopes, ophthalmology), in all laser-based devices and fiber communication networks (supercomputer, ROADM), bringing high-speed internet to our homes (FTTH). Even our modern smart phones contain a variety of micro-optical elements. For example, LED flashlight shaping elements, the secondary camera, and ambient light and proximity sensors. Wherever light is involved, micro-optics offers the chance to further miniaturize a device, to improve its performance, or to reduce manufacturing and packaging costs. Wafer-scale micro-optics fabrication is based on technology established by semiconductor industry. Thousands of components are fabricated in parallel on a wafer. We report on the state of the art in wafer-based manufacturing, testing, packaging and present examples and applications for micro-optical components and systems.

  13. Optical micro-angiography reveals depth-resolved muscular microcirculation

    NASA Astrophysics Data System (ADS)

    Jia, Yali; Wang, Ruikang K.

    2011-03-01

    Impaired muscular microcirculation in lower extremities is common in many peripheral vascular diseases (PVD), especially the peripheral arterial disease (PAD). There is a need for an imaging method that can be used to noninvasively visualize depth-resolved microcirculation within muscle tissues. Optical microangiography (OMAG) is a recently developed label-free imaging method capable of producing 3D images of dynamic blood perfusion within micro-circulatory tissue beds at an imaging depth up to ~2 mm, with an imaging sensitivity to the blood flow at ~160 μm/s. In this paper, we demonstrate the utility of OMAG in imaging the detailed blood flow distributions, at microcirculatory level resolution, within skeletal muscles in mice. By use of the mouse model of hind-limb ischemia, we show OMAG can assess the perfusion changes caused by ligation. These findings indicate that OMAG is a promising technique to effectively study skeletal muscle-related vascular disease and their pharmacologic therapies.

  14. Fabrication of integrated diffractive micro-optics for MEMS applications

    NASA Astrophysics Data System (ADS)

    Senesac, Larry R.; Farahi, R. H.; Corbeil, James L.; Earl, Dennis D.; Rajic, Slobodan; Datskos, Panos G.

    2001-12-01

    We investigated the fabrication of integrated diffractive micro-optical features on MEMS structures for the purpose of motion detection. The process of producing the diffractive features and the MEMS structures by focused ion beam milling is described in detail, as is the ion beam sputtering process used to produce coatings on these structures. The diffractive features of the circular Fresnel zone plate (FZP) and spiral FZP were fabricated on MEMS structures and the relevant diffraction theory is discussed. The spiral FZP diffractive features produced well defined foci whose intensity varies with distance from the FZP. Observation of these intensity variations enable us to detect the motion of the MEMS structure, and the resulting device was used to scan an IR image of a hot object.

  15. Effect of prenatal alcohol exposure on bony craniofacial development: a mouse MicroCT study.

    PubMed

    Shen, Li; Ai, Huisi; Liang, Yun; Ren, Xiaowei; Anthony, Charles Bruce; Goodlett, Charles R; Ward, Richard; Zhou, Feng C

    2013-08-01

    Craniofacial bone dysmorphology is an important but under-explored potential diagnostic feature of fetal alcohol spectrum disorders. This study used longitudinal MicroCT 3D imaging to examine the effect of prenatal alcohol exposure on craniofacial bone growth in a mouse model. C57BL/6J dams were divided into 3 groups: alcohol 4.2% v/v in PMI® liquid diet (ALC), 2 weeks prior to and during pregnancy from embryonic (E) days 7-E16; pair-fed controls (PF), isocalorically matched to the ALC group; chow controls (CHOW), given ad libitum chow and water. The MicroCT scans were performed on pups on postnatal days 7 (P7) and P21. The volumes of the neurocranium (volume encased by the frontal, parietal, and occipital bones) and the viscerocranium (volume encased by the mandible and nasal bone), along with total skull bone volume, head size, and head circumference were evaluated using general linear models and discriminant analyses. The pups in the alcohol-treated group, when compared to the chow-fed controls (ALC vs CHOW) and the isocaloric-fed controls (ALC vs PF), showed differences in head size and circumference at P7 and P21, the total skull volume and parietal bone volume at P7, and volume of all the tested bones except nasal at P21. There was a growth trend of ALC < CHOW and ALC < PF. While covarying for gender and head size or circumference, the treatment affected the total skull and mandible at P7 (ALC > CHOW), and the total skull, parietal bone, and occipital bone at P21 (ALC < CHOW, ALC < PF). While covarying for the P7 measures, the treatment affected only the 3 neurocranial bones at P21 (ALC < CHOW, ALC < PF). Discriminant analysis sensitively selected between ALC and CHOW (AUC = 0.967), between ALC and PF (AUC = 0.995), and between PF and CHOW (AUC = 0.805). These results supported our hypothesis that craniofacial bones might be a reliable and sensitive indicator for the diagnosis of prenatal alcohol exposure. Significantly, we found that the neurocranium (upper

  16. Micro structured coupling elements for 3D silicon optical interposer

    NASA Astrophysics Data System (ADS)

    Charania, Sujay; Lüngen, Sebastian; Al-Husseini, Zaid; Killge, Sebastian; Nieweglowski, Krzysztof; Neumann, Niels; Plettemeier, Dirk; Bock, Karlheinz; Bartha, Johann W.

    2017-05-01

    Current trends in electronic industry, such as Internet of Things (IoT) and Cloud Computing call for high interconnect bandwidth, increased number of active devices and high IO count. Hence the integration of on silicon optical waveguides becomes an alternative approach to cope with the performance demands. The application and fabrication of horizontal (planar) and vertical (Through Silicon Vias - TSVs) optical waveguides are discussed here. Coupling elements are used to connect both waveguide structures. Two micro-structuring technologies for integration of coupling elements are investigated: μ-mirror fabrication by nanoimprint (i) and dicing technique (ii). Nanoimprint technology creates highly precise horizontal waveguides with polymer (refractive index nC = 1.56 at 650 nm) as core. The waveguide ends in reflecting facets aligned to the optical TSVs. To achieve Total Internal Reflection (TIR), SiO2 (nCl = 1.46) is used as cladding. TSVs (diameter 20-40μm in 200-380μm interposer) are realized by BOSCH process1, oxidation and SU-8 filling techniques. To carry out the imprint, first a silicon structure is etched using a special plasma etching process. A polymer stamp is then created from the silicon template. Using this polymer stamp, SU-8 is imprinted aligned to vertical TSVs over Si surface.Waveguide dicing is presented as a second technology to create coupling elements on polymer waveguides. The reflecting mirror is created by 45° V-shaped dicing blade. The goal of this work is to develop coupling elements to aid 3D optical interconnect network on silicon interposer, to facilitate the realization of the emerging technologies for the upcoming years.

  17. Simultaneous multiple uniform spot generation with micro optics

    NASA Astrophysics Data System (ADS)

    Fruendt, J.; Jarczynski, M.; Mitra, T.

    2008-08-01

    Direct laser patterning of various materials is industrially implemented into several micro-system production lines such as inkjet printing, solar cell technology, flat-panel display production and medical engineering. In contrast to applications of single-mode sources, multi-mode lasers can provide very high power. This allows multi channel material processing and thus high operation speed if uniform light fields can be provided. Here within an illumination system is presented based on a high power multi-mode laser source that generates several uniform spots simultaneously without high stability requirements for the incoming laser source. These spots can be generated in various sizes and at various distances and can be located periodically and non-periodically. The concept consists of two beam processing steps: First the beam is homogenized by use of cylindrical micro-optic lens arrays. Secondly anamorphotic telecentric microoptic objectives split the beam into several uniform segments and image the spots onto the working plane. Because of LIMO's unique production technology the lens arrays can be optimized freely. It results in accurate dimensions and uniform intensity distributions for every single illuminated area. Field dimensions are only restricted by the diffraction limit. Applications could be direct material processing as well as mask illumination approaches.

  18. Self-calibration of a cone-beam micro-CT system

    SciTech Connect

    Patel, V.; Chityala, R. N.; Hoffmann, K. R.; Ionita, C. N.; Bednarek, D. R.; Rudin, S.

    2009-01-15

    Use of cone-beam computed tomography (CBCT) is becoming more frequent. For proper reconstruction, the geometry of the CBCT systems must be known. While the system can be designed to reduce errors in the geometry, calibration measurements must still be performed and corrections applied. Investigators have proposed techniques using calibration objects for system calibration. In this study, the authors present methods to calibrate a rotary-stage CB micro-CT (CB{mu}CT) system using only the images acquired of the object to be reconstructed, i.e., without the use of calibration objects. Projection images are acquired using a CB{mu}CT system constructed in the authors' laboratories. Dark- and flat-field corrections are performed. Exposure variations are detected and quantified using analysis of image regions with an unobstructed view of the x-ray source. Translations that occur during the acquisition in the horizontal direction are detected, quantified, and corrected based on sinogram analysis. The axis of rotation is determined using registration of antiposed projection images. These techniques were evaluated using data obtained with calibration objects and phantoms. The physical geometric axis of rotation is determined and aligned with the rotational axis (assumed to be the center of the detector plane) used in the reconstruction process. The parameters describing this axis agree to within 0.1 mm and 0.3 deg with those determined using other techniques. Blurring due to residual calibration errors has a point-spread function in the reconstructed planes with a full-width-at-half-maximum of less than 125 {mu}m in a tangential direction and essentially zero in the radial direction for the rotating object. The authors have used this approach on over 100 acquisitions over the past 2 years and have regularly obtained high-quality reconstructions, i.e., without artifacts and no detectable blurring of the reconstructed objects. This self-calibrating approach not only obviates

  19. Quantitative characterization and micro-CT mineral mapping of natural fissural enamel lesions.

    PubMed

    Shahmoradi, Mahdi; Swain, Michael V

    2016-03-01

    The aim of this study was to characterize the mineral distribution pattern of natural fissural enamel lesions and to quantify structural parameters and mineral density of these lesions in comparison to proximal white spot enamel lesions. Imaging was undertaken using a high-resolution desktop micro-computed tomography system. A calibration equation was used to transform the grey level values of images into true mineral density values. The value of lesion parameters including the mineral density and the thickness of the surface layer of the enamel lesion were extracted from mineral density profiles. The thickness of the surface layer showed variation among different lesions and it ranged from 0-90 μm in proximal lesions and 0-137 μm in fissural lesions. The average thickness of surface layer in fissural lesions was significantly higher than smooth surface proximal lesions. Sound fissural enamel showed lower mineral density compared to proximal enamel. Micro-CT and the suggested de-noising and visualization method provide an efficient high-resolution approach for non-destructive evaluation of fissural lesions. Using these methods, the current study revealed the exclusive pattern and structure of fissural enamel lesions which may provide a basis for future studies on prevention and remineralization of these lesions. The common demineralization pattern of fissural lesions, which indicates the extension of the lesion in two directions towards the pulp horns, may explain the early inflammation and symptoms of the pulp in fissural lesions even when the lesion base appears far from the pulp roof in normal radiographs. In addition, the presence of the surface layer, indicates that vigorous probing of the occlusal fissures may lead to breakage and cavitation of the enamel lesions. Copyright © 2016 Elsevier Ltd. All rights reserved.

  20. Assessment of the Impact of Zoledronic Acid on Ovariectomized Osteoporosis Model Using Micro-CT Scanning

    PubMed Central

    Shuai, Bo; Shen, Lin; Yang, Yanping; Ma, Chen; Zhu, Rui; Xu, Xiaojuan

    2015-01-01

    Purpose/Objective Prompted by preliminary findings, this study was conducted to investigate the impact of zoledronic acid on the cancellous bone microstructure and its effect on the level of β-catenin in a mouse model of postmenopausal osteoporosis. Methods and Materials 96 8-week-old specific-pathogen-free C57BL/6 mice were randomly divided into 4 groups (24 per group): a sham group, an ovariectomized osteoporosis model group, an estradiol-treated group, and a zoledronic acid-treated group. Five months after surgery, the third lumbar vertebra and left femur of the animals were dissected and scanned using micro-computed tomography (micro-CT) to acquire three-dimensional imagery of their cancellous bone microstructure. The impact of ovariectomy, the effect of estradiol, and the effect of zoledronic acid intervention on cancellous bone microstructure, as well as on the expression of β-catenin, were evaluated. Results The estradiol-treated and the zoledronic acid-treated group exhibited a significant increase in the bone volume fraction, trabecular number, trabecular thickness, bone surface to bone volume ratio (BS/BV), and β-catenin expression, when compared with those of the control group (P <0.01). In contrast, the structure model index, trabecular separation, and BS/BV were significantly lower compared with those of the model group (P <0.01). No differences were observed in the above parameters between animals of the zoledronic acid-treated and the estradiol-treated group. Conclusion These results suggest that increased β-catenin expression may be the mechanism underlying zoledronic acid-related improvement in the cancellous bone microstructure in ovariectomized mice. Our findings provide a scientific rationale for using zoledronic acid as a therapeutic intervention to prevent bone loss in post-menopausal women. PMID:26148020

  1. Accurate Coregistration between Ultra-High-Resolution Micro-SPECT and Circular Cone-Beam Micro-CT Scanners.

    PubMed

    Ji, Changguo; van der Have, Frans; Gratama van Andel, Hugo; Ramakers, Ruud; Beekman, Freek

    2010-01-01

    Introduction. Spatially registering SPECT with CT makes it possible to anatomically localize SPECT tracers. In this study, an accurate method for the coregistration of ultra-high-resolution SPECT volumes and multiple cone-beam CT volumes is developed and validated, which does not require markers during animal scanning. Methods. Transferable animal beds were developed with an accurate mounting interface. Simple calibration phantoms make it possible to obtain both the spatial transformation matrix for stitching multiple CT scans of different parts of the animal and to register SPECT and CT. The spatial transformation for image coregistration is calculated once using Horn's matching algorithm. Animal images can then be coregistered without using markers. Results. For mouse-sized objects, average coregistration errors between SPECT and CT in X, Y, and Z directions are within 0.04 mm, 0.10 mm, and 0.19 mm, respectively. For rat-sized objects, these numbers are 0.22 mm, 0.14 mm, and 0.28 mm. Average 3D coregistration errors were within 0.24 mm and 0.42 mm for mouse and rat imaging, respectively. Conclusion. Extending the field-of-view of cone-beam CT by stitching is improved by prior registration of the CT volumes. The accuracy of registration between SPECT and CT is typically better than the image resolution of current ultra-high-resolution SPECT.

  2. Quantitative 3D Ultrashort Time-to-Echo (UTE) MRI and Micro-CTCT) Evaluation of the Temporomandibular Joint (TMJ) Condylar Morphology

    PubMed Central

    Geiger, Daniel; Bae, Won C.; Statum, Sheronda; Du, Jiang; Chung, Christine B.

    2014-01-01

    Objective Temporomandibular dysfunction involves osteoarthritis of the TMJ, including degeneration and morphologic changes of the mandibular condyle. Purpose of this study was to determine accuracy of novel 3D-UTE MRI versus micro-CTCT) for quantitative evaluation of mandibular condyle morphology. Material & Methods Nine TMJ condyle specimens were harvested from cadavers (2M, 3F; Age 85 ± 10 yrs., mean±SD). 3D-UTE MRI (TR=50ms, TE=0.05 ms, 104 μm isotropic-voxel) was performed using a 3-T MR scanner and μCT (18 μm isotropic-voxel) was performed. MR datasets were spatially-registered with μCT dataset. Two observers segmented bony contours of the condyles. Fibrocartilage was segmented on MR dataset. Using a custom program, bone and fibrocartilage surface coordinates, Gaussian curvature, volume of segmented regions and fibrocartilage thickness were determined for quantitative evaluation of joint morphology. Agreement between techniques (MRI vs. μCT) and observers (MRI vs. MRI) for Gaussian curvature, mean curvature and segmented volume of the bone were determined using intraclass correlation correlation (ICC) analyses. Results Between MRI and μCT, the average deviation of surface coordinates was 0.19±0.15 mm, slightly higher than spatial resolution of MRI. Average deviation of the Gaussian curvature and volume of segmented regions, from MRI to μCT, was 5.7±6.5% and 6.6±6.2%, respectively. ICC coefficients (MRI vs. μCT) for Gaussian curvature, mean curvature and segmented volumes were respectively 0.892, 0.893 and 0.972. Between observers (MRI vs. MRI), the ICC coefficients were 0.998, 0.999 and 0.997 respectively. Fibrocartilage thickness was 0.55±0.11 mm, as previously described in literature for grossly normal TMJ samples. Conclusion 3D-UTE MR quantitative evaluation of TMJ condyle morphology ex-vivo, including surface, curvature and segmented volume, shows high correlation against μCT and between observers. In addition, UTE MRI allows

  3. Analysis of offset error for segmented micro-structure optical element based on optical diffraction theory

    NASA Astrophysics Data System (ADS)

    Su, Jinyan; Wu, Shibin; Yang, Wei; Wang, Lihua

    2016-10-01

    Micro-structure optical elements are gradually applied in modern optical system due to their characters such as light weight, replicating easily, high diffraction efficiency and many design variables. Fresnel lens is a typical micro-structure optical element. So in this paper we take Fresnel lens as base of research. Analytic solution to the Point Spread Function (PSF) of the segmented Fresnel lens is derived based on the theory of optical diffraction, and the mathematical simulation model is established. Then we take segmented Fresnel lens with 5 pieces of sub-mirror as an example. In order to analyze the influence of different offset errors on the system's far-field image quality, we obtain the analytic solution to PSF of the system under the condition of different offset errors by using Fourier-transform. The result shows the translation error along XYZ axis and tilt error around XY axis will introduce phase errors which affect the imaging quality of system. The translation errors along XYZ axis constitute linear relationship with corresponding phase errors and the tilt errors around XY axis constitute trigonometric function relationship with corresponding phase errors. In addition, the standard deviations of translation errors along XY axis constitute quadratic nonlinear relationship with system's Strehl ratio. Finally, the tolerances of different offset errors are obtained according to Strehl Criteria.

  4. Micro- and nano-CT textural analysis of an experimental volcanic fulgurite.

    NASA Astrophysics Data System (ADS)

    Cimarelli, Corrado; Yilmaz, Tim; Colombier, Mathieu; Villanova, Julie; Höfer, Lucas; Hess, Kai-Uwe; Ruthensteiner, Bernhard; Dingwell, Donald

    2017-04-01

    Fulgurites are natural glasses formed by cloud to ground lightning discharges causing rapid heating into rocks or unconsolidated sediments. Volcanic lightning can determine the re-melting and even ablation of newly formed or just deposited volcanic tephra during explosive eruptions. In this case the pristine material is already constituted by glass that can be further modified by the discharge. Although volcanic lightning discharges are generally less energetic than those produced by thunderclouds, the high temperatures reached by the lightning channel are well in excess of the low melting temperature of glass material. Here we have experimentally reproduced a fulgurite by single impulse voltage discharges (134 kV, 331 A, 10.5 J) on a target glass material. We have chosen borosilicate glass fibers (180 microns nominal length) as starting material to better account for the structural and chemical modification of the single particles after discharge-melting. The structure of the small fulgurite is best resolved through X-ray micro- and nano-computed tomography. Micro-CT analysis was carried out on a phoenix nanotom m with a voxelsize of 1 µm3. Additionally a 3D reconstruction with a voxel size of 150 nm3 has been analyzed at the new nano-analysis beamline ID16B at the ESRF. 3D analysis was carried out using Avizo 9.2 software, which allows non-destructive analysis of the fragile structure of the sample. The sample shows the channel-like structure typical for natural fulgurites with an inner void channel and internal wall constituted by the melted fibers. About 33% of the total solid volume of the fulgurite is melted to form the inner wall. The inner wall is characterized by nano- to micro-metric vesicles determined by volatile exsolution (mainly H2O) during the instantaneous heating and trapped in the low viscosity melt by the subsequent rapid quenching. Progressively outward the fulgurite shows the intricate delicate structure of the pristine glass fibers. Our

  5. High-resolution in-vivo micro-CT scanner for small animals

    NASA Astrophysics Data System (ADS)

    Sasov, Alexander

    2001-06-01

    Small laboratory animals (mice and rats) are widely used in development of drags and treatments. To recognize the internal changes in the very early stage inside the animal body, Skyscan starts development on high-resolution micro-CT scanner for in-vivo 3D-imaging. Initial changes in the bone structure can be found as features in the size range of 10 microns. By this reason a voxel size for reconstructed cross sections has been chosen as < 10 microns. Because of full animal may be up to 8 cm in diameter the reconstructed cross section format selected as 8000 X 8000-pixels (float- point). A 2D detection system with new multi-beam geometry produce dataset for reconstruction of hundreds cross- sections after one scan. Object illuminated by microfocus sealed X-ray source with 5 microns spot size. Continuously variable energy in the range of 20 - 100 kV and energy filters allows estimate material composition like in DEXA systems. Direct streaming of the projection data to the disk reduce irradiation dose to the animal under scanning. Software package can create realistic 3D-images from the set of reconstructed cross sections and calculate internal morphological parameters.

  6. High-resolution in-vivo micro-CT scanner for small animals

    NASA Astrophysics Data System (ADS)

    Sasov, Alexander; Dewaele, Daniel

    2002-01-01

    Small laboratory animals (mice and rats) are widely used in development of drugs and treatments. To recognize the internal changes in the very early stage inside the body of alive animal, high-resolution micro-CT scanner has been developed. Initial changes in the bone structure can be found as features in the size range of 10 microns. By this reason a voxel size for reconstructed cross sections has been chosen as small as 10 microns. Full animal body may be up to 80 mm in diameter and up to 200 mm in length. By this reason the reconstructed cross section format selected as 8000 x 8000 pixels (float-point). A new 2D detection system with multibeam geometry produces dataset for reconstruction of hundreds of cross sections after one scan. Object illuminated by microfocus sealed x-ray source with 5 microns spot size. Continuously variable energy in the range of 20- 100 kV and energy filters allows estimate material composition like in DEXA systems. Direct streaming of the projection data to the disk reduce irradiation dose to the animal under scanning. Software package can create realistic 3D images from the set of reconstructed cross sections and calculate internal morphological parameters.

  7. Micro-CT evaluation of the marginal fit of CAD/CAM all ceramic crowns

    NASA Astrophysics Data System (ADS)

    Brenes, Christian

    Objectives: Evaluate the marginal fit of CAD/CAM all ceramic crowns made from lithium disilicate and zirconia using two different fabrication protocols (model and model-less). METHODS: Forty anterior all ceramic restorations (20 lithium disilicate, 20 zirconia) were fabricated using a CEREC Bluecam scanner. Two different fabrication methods were used: a full digital approach and a printed model. Completed crowns were cemented and marginal gap was evaluated using Micro-CT. Each specimen was analyzed in sagittal and trans-axial orientations, allowing a 360° evaluation of the vertical and horizontal fit. RESULTS: Vertical measurements in the lingual, distal and mesial views had and estimated marginal gap from 101.9 to 133.9 microns for E-max crowns and 126.4 to 165.4 microns for zirconia. No significant differences were found between model and model-less techniques. CONCLUSION: Lithium disilicate restorations exhibited a more accurate and consistent marginal adaptation when compared to zirconia crowns. No statistically significant differences were observed when comparing model or model-less approaches.

  8. Micro-CT examination of human bone: from biopsies towards the entire organ.

    PubMed

    Perilli, Egon; Parkinson, Ian H; Reynolds, Karen J

    2012-01-01

    Micro-CT systems are available that facilitate ex vivo examinations of human specimens as big as entire vertebrae, with spatial resolutions in the 10-micrometer range. This opens a new way for looking at entire bones in 3D. Accurate description of the internal microarchitecture of the entire organ can be obtained, at spatial resolutions previously achievable only on excised biopsies. These high resolution scans produce large datasets and come with costs and benefits, which have to be considered in the successful planning of an experiment. The aim of this paper is to present examples of human vertebrae scanned at high resolution (17 µm/pixel), allowing the visualization and quantification of the microarchitecture, and to discuss some aspects of using high resolution scans of such large specimens. The datasets were down-sampled to 34 µm and 68 µm pixel size, and their morphometric parameters compared to those obtained at 17 µm pixel size, in relation to data size and calculation time.

  9. Active investigation of material damage under load using micro-CT

    SciTech Connect

    Navalgund, Megha Mishra, Debasish; Manoharan, V.; Zunjarrao, Suraj

    2015-03-31

    Due the growth of composite materials across multiple industries such as Aviation, Wind there is an increasing need to not just standardize and improve manufacturing processes but also to design these materials for the specific applications. One of the things that this translates to is understanding how failure initiates and grows in these materials and at what loads, especially around internal flaws such as voids or features such as ply drops. Traditional methods of investigating internal damage such as CT lack the resolution to resolve ply level damage in composites. Interrupted testing with layer removal can be used to investigate internal damage using microscopy; however this is a destructive method. Advanced techniques such as such as DIC are useful for in-situ damage detection, however are limited to surface information and would not enable interrogating the volume. Computed tomography has become a state of the art technique for metrology and complete volumetric investigation especially for metallic components. However, its application to the composite world is still nascent. This paper demonstrates micro-CT’s capability as a gauge to quantitatively estimate the extent of damage and understand the propagation of damage in PMC composites while the component is under stress.

  10. Investigation of multiphase fluid imbibition in shale through synchrotron-based dynamic micro-CT imaging

    NASA Astrophysics Data System (ADS)

    Peng, Sheng; Xiao, Xianghui

    2017-06-01

    While substantial advances were made in pore system characterization in shale in the past decade, understanding of fundamentals of multiphase fluid flow in shale remains limited. The complexity of multiphase fluid flow in shale is related to many factors including nanoscale to submicron-scale pore systems, differences in mineralogy and associated surface wettability, heterogeneity of these properties at different scales, and possible existence of microfractures. Previous work related to fluid flow, such as permeability measurement, spontaneous imbibition, and wettability analysis, includes many simplified assumptions/hypotheses with limited consideration of small-scale details. In addition, these studies were mostly focused on single-phase phenomena. Direct observation of multiphase fluid flow in shale showing small-scale details is highly desired. In this study, dynamic imaging using synchrotron-based micro-CT (computed microtomography) was conducted on two shale samples to investigate multiphase (oil and water) spontaneous imbibition. The results revealed many details of multiphase flow in shale, including pore connectivity, porosity and permeability layered distribution, and wettability of microfractures and pores. At the same time, results illustrate the complexity of multiphase flow in shale and gaps in understanding that need further investigation.

  11. Automatic Segmentation of 3D Micro-CT Coronary Vascular Images

    SciTech Connect

    Lee,J.; Beighley, P.; Ritman, E.; Smith, N.

    2007-01-01

    Although there are many algorithms available in the literature aimed at segmentation and model reconstruction of 3D angiographic images, many are focused on characterizing only a part of the vascular network. This study is motivated by the recent emerging prospects of whole-organ simulations in coronary hemodynamics, autoregulation and tissue oxygen delivery for which anatomically accurate vascular meshes of extended scale are highly desirable. The key requirements of a reconstruction technique for this purpose are automation of processing and sub-voxel accuracy. We have designed a vascular reconstruction algorithm which satisfies these two criteria. It combines automatic seeding and tracking of vessels with radius detection based on active contours. The method was first examined through a series of tests on synthetic data, for accuracy in reproduced topology and morphology of the network and was shown to exhibit errors of less than 0.5 voxel for centerline and radius detections, and 3 for initial seed directions. The algorithm was then applied on real-world data of full rat coronary structure acquired using a micro-CT scanner at 20 {mu}m voxel size. For this, a further validation of radius quantification was carried out against a partially rescanned portion of the network at 8 {mu}m voxel size, which estimated less than 10% radius error in vessels larger than 2 voxels in radius.

  12. Automatic segmentation of 3D micro-CT coronary vascular images.

    PubMed

    Lee, Jack; Beighley, Patricia; Ritman, Erik; Smith, Nicolas

    2007-12-01

    Although there are many algorithms available in the literature aimed at segmentation and model reconstruction of 3D angiographic images, many are focused on characterizing only a part of the vascular network. This study is motivated by the recent emerging prospects of whole-organ simulations in coronary hemodynamics, autoregulation and tissue oxygen delivery for which anatomically accurate vascular meshes of extended scale are highly desirable. The key requirements of a reconstruction technique for this purpose are automation of processing and sub-voxel accuracy. We have designed a vascular reconstruction algorithm which satisfies these two criteria. It combines automatic seeding and tracking of vessels with radius detection based on active contours. The method was first examined through a series of tests on synthetic data, for accuracy in reproduced topology and morphology of the network and was shown to exhibit errors of less than 0.5 voxel for centerline and radius detections, and 3 degrees for initial seed directions. The algorithm was then applied on real-world data of full rat coronary structure acquired using a micro-CT scanner at 20 microm voxel size. For this, a further validation of radius quantification was carried out against a partially rescanned portion of the network at 8 microm voxel size, which estimated less than 10% radius error in vessels larger than 2 voxels in radius.

  13. Micro-CT analysis of myocardial blood supply in young and adult rats

    NASA Astrophysics Data System (ADS)

    Schaefer, Heather M.; Beighley, Patricia E.; Eaker, Diane R.; Vercnocke, Andrew J.; Ritman, Erik L.

    2009-02-01

    This study addresses whether the vasculature grows in proportion to the myocardium as the rat heart develops. The volume of myocardium and coronary vessels were estimated from micro-CT images of the hearts injected with Microfil(R) contrast agent. Young (n=5) and adult (n=5) hearts were scanned, resulting in 3D images comprised of 20μm on-a-side cubic voxels. The myocardial muscle and vessel lumen volumes were measured for all vessels 40 to 320μm in diameter by an erosion and dilation method applied to the binary images in which the contrast in the vessels were assigned "1" and all non-opacified entities were assigned "0". The average total muscle volume increases by 50%, 129.4 to 237.4mm3, from young to adult rats, while the luminal volume increases by 10%, 16.6 to 18.6mm3. The vessel volume is 12% of the total muscle volume in young and 8% in adults. For a given vessel volume, the muscle volume in the young is 82% of the muscle volume in adults. We conclude that as the heart matures, the myocardium grows more rapidly than the vasculature. This may result in greater angles of separation between vessel branches, and the increase in myocardial coronary volume. The ratio suggests either higher blood flow velocity or a lower metabolic rate in adults.

  14. Anatomy of hepatic arteriolo-portal venular shunts evaluated by 3D micro-CT imaging.

    PubMed

    Kline, Timothy L; Knudsen, Bruce E; Anderson, Jill L; Vercnocke, Andrew J; Jorgensen, Steven M; Ritman, Erik L

    2014-06-01

    The liver differs from other organs in that two vascular systems deliver its blood - the hepatic artery and the portal vein. However, how the two systems interact is not fully understood. We therefore studied the microvascular geometry of rat liver hepatic artery and portal vein injected with the contrast polymer Microfil(®). Intact isolated rat livers were imaged by micro-CT and anatomic evidence for hepatic arteriolo-portal venular shunts occurring between hepatic artery and portal vein branches was found. Simulations were performed to rule out the possibility of the observed shunts being artifacts resulting from image blurring. In addition, in the case of specimens where only the portal vein was injected, only the portal vein was opacified, whereas in hepatic artery injections, both the hepatic artery and portal vein were opacified. We conclude that mixing of the hepatic artery and portal vein blood can occur proximal to the sinusoidal level, and that the hepatic arteriolo-portal venular shunts may function as a one-way valve-like mechanism, allowing flow only from the hepatic artery to the portal vein (and not the other way around).

  15. Development of a Beam Hardening Correction Method for a microCT Scanner Prototype

    SciTech Connect

    Kikushima, J.; Rodriguez-Villafuerte, M.; Martinez-Davalos, A.

    2010-12-07

    The radiographic projections acquired with a microCT were simulated and then corrected for beam hardening effects using the linearized signal to equivalent thickness (LSET) method. This procedure requires a calibration signal for each pixel obtained from a set of images with filters of increasing thickness. The projections are corrected by converting the signal to an equivalent thickness using interpolation over the calibration images. The method was validated using simulated projections of different phantoms. Two calibration sets were simulated using aluminum and water filters of thicknesses ranging from 0 to 5 mm and from 0 to 50 mm, respectively. A simulation of the phantoms' projections using a monoenergetic beam was also obtained to establish the relative intensity on the tomographic images when no cupping artifacts are present. Comparison between corrected and uncorrected tomographic images shows that the LSET method effectively corrects the cupping artifact. Streaking artifacts correction with the LSET method shows better results than with the traditional water correction method. Results are independent of the two calibration materials used.

  16. Iterative reconstruction optimisations for high angle cone-beam micro-CT

    NASA Astrophysics Data System (ADS)

    Recur, B.; Fauconneau, M.; Kingston, A.; Myers, G.; Sheppard, A.

    2014-09-01

    We address several acquisition questions that have arisen for the high cone-angle helical-scanning micro-CT facility developed at the Australian National University. These challenges are generally known in medical and industrial cone-beam scanners but can be neglected in these systems. For our large datasets, with more than 20483 voxels, minimising the number of operations (or iterations) is crucial. Large cone-angles enable high signal-to-noise ratio imaging and a large helical pitch to be used. This introduces two challenges: (i) non-uniform resolution throughout the reconstruction, (ii) over-scan beyond the region-of-interest significantly increases re- quired reconstructed volume size. Challenge (i) can be addressed by using a double-helix or lower pitch helix but both solutions slow down iterations. Challenge (ii) can also be improved by using a lower pitch helix but results in more projections slowing down iterations. This may be overcome using less projections per revolution but leads to more iterations required. Here we assume a given total time for acquisition and a given reconstruction technique (SART) and seek to identify the optimal trajectory and number of projections per revolution in order to produce the best tomogram, minimise reconstruction time required, and minimise memory requirements.

  17. Fiber optic micro sensor for the measurement of tendon forces.

    PubMed

    Behrmann, Gregory P; Hidler, Joseph; Mirotznik, Mark S

    2012-10-03

    A fiber optic sensor developed for the measurement of tendon forces was designed, numerically modeled, fabricated, and experimentally evaluated. The sensor incorporated fiber Bragg gratings and micro-fabricated stainless steel housings. A fiber Bragg grating is an optical device that is spectrally sensitive to axial strain. Stainless steel housings were designed to convert radial forces applied to the housing into axial forces that could be sensed by the fiber Bragg grating. The metal housings were fabricated by several methods including laser micromachining, swaging, and hydroforming. Designs are presented that allow for simultaneous temperature and force measurements as well as for simultaneous resolution of multi-axis forces.The sensor was experimentally evaluated by hydrostatic loading and in vitro testing. A commercial hydraulic burst tester was used to provide uniform pressures on the sensor in order to establish the linearity, repeatability, and accuracy characteristics of the sensor. The in vitro experiments were performed in excised tendon and in a dynamic gait simulator to simulate biological conditions. In both experimental conditions, the sensor was found to be a sensitive and reliable method for acquiring minimally invasive measurements of soft tissue forces. Our results suggest that this sensor will prove useful in a variety of biomechanical measurements.

  18. Fiber optic micro sensor for the measurement of tendon forces

    PubMed Central

    2012-01-01

    A fiber optic sensor developed for the measurement of tendon forces was designed, numerically modeled, fabricated, and experimentally evaluated. The sensor incorporated fiber Bragg gratings and micro-fabricated stainless steel housings. A fiber Bragg grating is an optical device that is spectrally sensitive to axial strain. Stainless steel housings were designed to convert radial forces applied to the housing into axial forces that could be sensed by the fiber Bragg grating. The metal housings were fabricated by several methods including laser micromachining, swaging, and hydroforming. Designs are presented that allow for simultaneous temperature and force measurements as well as for simultaneous resolution of multi-axis forces. The sensor was experimentally evaluated by hydrostatic loading and in vitro testing. A commercial hydraulic burst tester was used to provide uniform pressures on the sensor in order to establish the linearity, repeatability, and accuracy characteristics of the sensor. The in vitro experiments were performed in excised tendon and in a dynamic gait simulator to simulate biological conditions. In both experimental conditions, the sensor was found to be a sensitive and reliable method for acquiring minimally invasive measurements of soft tissue forces. Our results suggest that this sensor will prove useful in a variety of biomechanical measurements. PMID:23033868

  19. MEMS compatible illumination and imaging micro-optical systems

    NASA Astrophysics Data System (ADS)

    Bräuer, A.; Dannberg, P.; Duparré, J.; Höfer, B.; Schreiber, P.; Scholles, M.

    2007-01-01

    The development of new MOEMS demands for cooperation between researchers in micromechanics, optoelectronics and microoptics at a very early state. Additionally, microoptical technologies being compatible with structured silicon have to be developed. The microoptical technologies used for two silicon based microsystems are described in the paper. First, a very small scanning laser projector with a volume of less than 2 cm 3, which operates with a directly modulated lasers collimated with a microlens, is shown. The laser radiation illuminates a 2D-MEMS scanning mirror. The optical design is optimized for high resolution (VGA). Thermomechanical stability is realized by design and using a structured ceramics motherboard. Secondly, an ultrathin CMOS-camera having an insect inspired imaging system has been realized. It is the first experimental realization of an artificial compound eye. Micro-optical design principles and technology is used. The overall thickness of the imaging system is only 320 μm, the diagonal field of view is 21°, and the f-number is 2.6. The monolithic device consists of an UV-replicated microlens array upon a thin silica substrate with a pinhole array in a metal layer on the back side. The pitch of the pinholes differs from that of the lens array to provide individual viewing angle for each channel. The imaging chip is directly glued to a CMOS sensor with adapted pitch. The whole camera is less than 1mm thick. New packaging methods for these systems are under development.

  20. Towards optical cell transfection inside a micro flow cell

    NASA Astrophysics Data System (ADS)

    Breunig, H. G.; Uchugonova, A.; König, K.

    2014-03-01

    For optical transfection, cells are shortly subjected to intense, focused laser radiation which leads to a temporary opening in the cell membrane. Although the method is very efficient and ensures high cell viability, the targeting of single cells with laser pulses is a tedious and slow approach. We present first measurements aiming at an experimental setup which is suitable for high throughput and automated optical cell transfection. In our setup, cells flow through a micro flow cell where they are spatially confined. The laser radiation is focused into the cell in a way that an elongated focal region is realized. This makes the time consuming aiming of the laser beam at individual cells unnecessary and opens the possibility to develop a completely automated system. The elongated laser focal region is realized by a quasi-Bessel beam which is generated by an axicon lens setup and continuously scanned from side to side of the cell. We present test measurements of the newly employed setup and discuss its suitability to be fully integrated into a flow cell sequencing system.

  1. Performance of a commercial optical CT scanner and polymer gel dosimeters for 3-D dose verification.

    PubMed

    Xu, Y; Wuu, Cheng-Shie; Maryanski, Marek J

    2004-11-01

    Performance analysis of a commercial three-dimensional (3-D) dose mapping system based on optical CT scanning of polymer gels is presented. The system consists of BANG 3 polymer gels (MGS Research, Inc., Madison, CT), OCTOPUS laser CT scanner (MGS Research, Inc., Madison, CT), and an in-house developed software for optical CT image reconstruction and 3-D dose distribution comparison between the gel, film measurements and the radiation therapy treatment plans. Various sources of image noise (digitization, electronic, optical, and mechanical) generated by the scanner as well as optical uniformity of the polymer gel are analyzed. The performance of the scanner is further evaluated in terms of the reproducibility of the data acquisition process, the uncertainties at different levels of reconstructed optical density per unit length and the effects of scanning parameters. It is demonstrated that for BANG 3 gel phantoms held in cylindrical plastic containers, the relative dose distribution can be reproduced by the scanner with an overall uncertainty of about 3% within approximately 75% of the radius of the container. In regions located closer to the container wall, however, the scanner generates erroneous optical density values that arise from the reflection and refraction of the laser rays at the interface between the gel and the container. The analysis of the accuracy of the polymer gel dosimeter is exemplified by the comparison of the gel/OCT-derived dose distributions with those from film measurements and a commercial treatment planning system (Cadplan, Varian Corporation, Palo Alto, CA) for a 6 cm x 6 cm single field of 6 MV x rays and a 3-D conformal radiotherapy (3DCRT) plan. The gel measurements agree with the treatment plans and the film measurements within the "3%-or-2 mm" criterion throughout the usable, artifact-free central region of the gel volume. Discrepancies among the three data sets are analyzed.

  2. Performance of a commercial optical CT scanner and polymer gel dosimeters for 3-D dose verification

    SciTech Connect

    Xu, Y.; Wuu, C.-S.; Maryanski, Marek J.

    2004-11-01

    Performance analysis of a commercial three-dimensional (3-D) dose mapping system based on optical CT scanning of polymer gels is presented. The system consists of BANG{sup reg}3 polymer gels (MGS Research, Inc., Madison, CT), OCTOPUS{sup TM} laser CT scanner (MGS Research, Inc., Madison, CT), and an in-house developed software for optical CT image reconstruction and 3-D dose distribution comparison between the gel, film measurements and the radiation therapy treatment plans. Various sources of image noise (digitization, electronic, optical, and mechanical) generated by the scanner as well as optical uniformity of the polymer gel are analyzed. The performance of the scanner is further evaluated in terms of the reproducibility of the data acquisition process, the uncertainties at different levels of reconstructed optical density per unit length and the effects of scanning parameters. It is demonstrated that for BANG{sup registered}3 gel phantoms held in cylindrical plastic containers, the relative dose distribution can be reproduced by the scanner with an overall uncertainty of about 3% within approximately 75% of the radius of the container. In regions located closer to the container wall, however, the scanner generates erroneous optical density values that arise from the reflection and refraction of the laser rays at the interface between the gel and the container. The analysis of the accuracy of the polymer gel dosimeter is exemplified by the comparison of the gel/OCT-derived dose distributions with those from film measurements and a commercial treatment planning system (Cadplan, Varian Corporation, Palo Alto, CA) for a 6 cmx6 cm single field of 6 MV x rays and a 3-D conformal radiotherapy (3DCRT) plan. The gel measurements agree with the treatment plans and the film measurements within the '3%-or-2 mm' criterion throughout the usable, artifact-free central region of the gel volume. Discrepancies among the three data sets are analyzed.

  3. When a 520 million-year-old Chengjiang fossil meets a modern micro-CT - a case study

    NASA Astrophysics Data System (ADS)

    Liu, Yu; Scholtz, Gerhard; Hou, Xianguang

    2015-08-01

    The 520 million-year-old Chengjiang biota of China (UNESCO World Heritage) presents the earliest known evidence of the so-called Cambrian Explosion. Studies, however, have mainly been limited to the information exposed on the surface of the slabs. Thus far, structures preserved inside the slabs were accessed by careful removal of the matrix, in many cases with the unfortunate sacrifice of some “less important” structures, which destroys elements of exceptionally preserved specimens. Here, we show for the first time that microtomography (micro-CT) can reveal structures situated inside a Chengjiang fossil slab without causing any damage. In the present study a trilobitomorph arthropod (Xandarella spectaculum) can be reliably identified only with the application of micro-CT. We propose that this technique is an important tool for studying three-dimensionally preserved Chengjiang fossils and, most likely, also those from other biota with a comparable type of preservation, specifically similar iron concentrations.

  4. Evaluation of physicochemical properties of root-end filling materials using conventional and Micro-CT tests.

    PubMed

    Torres, Fernanda Ferrari Esteves; Bosso-Martelo, Roberta; Espir, Camila Galletti; Cirelli, Joni Augusto; Guerreiro-Tanomaru, Juliane Maria; Tanomaru-Filho, Mario

    2017-01-01

    To evaluate solubility, dimensional stability, filling ability and volumetric change of root-end filling materials using conventional tests and new Micro-CT-based methods. 7. The results suggested correlated or complementary data between the proposed tests. At 7 days, BIO showed higher solubility and at 30 days, showed higher volumetric change in comparison with MTA (p<0.05). With regard to volumetric change, the tested materials were similar (p>0.05) at 7 days. At 30 days, they presented similar solubility. BIO and MTA showed higher dimensional stability than ZOE (p<0.05). ZOE and BIO showed higher filling ability (p<0.05). ZOE presented a higher dimensional change, and BIO had greater solubility after 7 days. BIO presented filling ability and dimensional stability, but greater volumetric change than MTA after 30 days. Micro-CT can provide important data on the physicochemical properties of materials complementing conventional tests.

  5. When a 520 million-year-old Chengjiang fossil meets a modern micro-CT – a case study

    PubMed Central

    Liu, Yu; Scholtz, Gerhard; Hou, Xianguang

    2015-01-01

    The 520 million-year-old Chengjiang biota of China (UNESCO World Heritage) presents the earliest known evidence of the so-called Cambrian Explosion. Studies, however, have mainly been limited to the information exposed on the surface of the slabs. Thus far, structures preserved inside the slabs were accessed by careful removal of the matrix, in many cases with the unfortunate sacrifice of some “less important” structures, which destroys elements of exceptionally preserved specimens. Here, we show for the first time that microtomography (micro-CT) can reveal structures situated inside a Chengjiang fossil slab without causing any damage. In the present study a trilobitomorph arthropod (Xandarella spectaculum) can be reliably identified only with the application of micro-CT. We propose that this technique is an important tool for studying three-dimensionally preserved Chengjiang fossils and, most likely, also those from other biota with a comparable type of preservation, specifically similar iron concentrations. PMID:26238773

  6. A correlative method for imaging identical regions of samples by micro-CT, light microscopy, and electron microscopy: imaging adipose tissue in a model system.

    PubMed

    Sengle, Gerhard; Tufa, Sara F; Sakai, Lynn Y; Zulliger, Martin A; Keene, Douglas R

    2013-04-01

    We present a method in which a precise region of interest within an intact organism is spatially mapped in three dimensions by non-invasive micro-computed X-ray tomography (micro-CT), then further evaluated by light microscopy (LM) and transmission electron microscopy (TEM). Tissues are prepared as if for TEM including osmium fixation, which imparts soft tissue contrast in the micro-CT due to its strong X-ray attenuation. This method may therefore be applied to embedded, archived TEM samples. Upon selection of a two-dimensional (2-D) projection from a region of interest (ROI) within the three-dimensional volume, the epoxy-embedded sample is oriented for microtomy so that the sectioning plane is aligned with the micro-CT projection. Registration is verified by overlaying LM images with 2-D micro-CT projections. Structures that are poorly resolved in the micro-CT may be evaluated at TEM resolution by observing the next serial ultrathin section, thereby accessing the same ROI by all three imaging techniques. We compare white adipose tissue within the forelimbs of mice harboring a lipid-altering mutation with their littermate controls. We demonstrate that individual osmium-stained lipid droplets as small as 15 µm and separated by as little as 35 µm may be discerned as separate entities in the micro-CT, validating this to be a high-resolution, non-destructive technique for evaluation of fat content.

  7. Fast X-ray micro-CT for real-time 4D observation

    NASA Astrophysics Data System (ADS)

    Takano, H.; Yoshida, K.; Tsuji, T.; Koyama, T.; Tsusaka, Y.; Kagoshima, Y.

    2009-09-01

    Fast X-ray computed tomography (CT) system with sub-second order measurement for single CT acquisition has been developed. The system, consisting of a high-speed sample rotation stage and a high-speed X-ray camera, is constructed at synchrotron radiation beamline in order to utilize fully intense X-rays. A time-resolving CT movie (i.e. 4D CT) can be available by operating the fast CT system continuously. Real-time observation of water absorbing process of super-absorbent polymer (SAP) has been successfully performed with the 4D CT operation.

  8. Micro-optical design of a three-dimensional microlens scanner for vertically integrated micro-opto-electro-mechanical systems.

    PubMed

    Baranski, Maciej; Bargiel, Sylwester; Passilly, Nicolas; Gorecki, Christophe; Jia, Chenping; Frömel, Jörg; Wiemer, Maik

    2015-08-01

    This paper presents the optical design of a miniature 3D scanning system, which is fully compatible with the vertical integration technology of micro-opto-electro-mechanical systems (MOEMS). The constraints related to this integration strategy are considered, resulting in a simple three-element micro-optical setup based on an afocal scanning microlens doublet and a focusing microlens, which is tolerant to axial position inaccuracy. The 3D scanning is achieved by axial and lateral displacement of microlenses of the scanning doublet, realized by micro-electro-mechanical systems microactuators (the transmission scanning approach). Optical scanning performance of the system is determined analytically by use of the extended ray transfer matrix method, leading to two different optical configurations, relying either on a ball lens or plano-convex microlenses. The presented system is aimed to be a core component of miniature MOEMS-based optical devices, which require a 3D optical scanning function, e.g., miniature imaging systems (confocal or optical coherence microscopes) or optical tweezers.

  9. Digital micro-mirror devices in digital optical microscopy

    NASA Astrophysics Data System (ADS)

    Adeyemi, Adekunle Adesanya

    In this thesis, studies on the applications of digital micro-mirror devices (DMD) to enhancement of digital optical microscope images are presented. This involves adaptation of the fast switching capability and high optical efficiency of DMD to control the spatial illumination of the specimen. The first study focuses on a method of using DMD to enhance the dynamic range of a digital optical microscope. Our adaptive feedback illumination control method generates a high dynamic range image through an algorithm that combines the DMD-to-camera pixel geometrical mapping and a feedback operation. The feedback process automatically generates an illumination pattern in an iterative fashion that spatially modulates the DMD array elements on a pixel-by-pixel level. Via experiment, we demonstrate a transmitted-light microscope system that uses precise DMD control of a DMD-based projector to enhance the dynamic range ideally by a factor of 573. Results are presented showing approximately 5 times the camera dynamic range, enabling visualization over a wide range of specimen characteristics. The second study presents a technique for programming the source of the spherical reference illumination in a digital in-line holographic microscope using DMD. The programmable point source is achieved by individually addressing the elements of a DMD to spatially control the illumination of the object located at some distance from the source of the spherical reference field. Translation of the ON-state DMD mirror element changes the spatial location of the point source and consequently generates a sequence of translated holograms of the object. The experimental results obtained through numerical reconstruction of translated holograms of Latex microspheres shows the possibility of expanding the field of view by about 263% and also extracting depth information between features in an object volume. The common challenges associated with the use of DMD in coherent and broadband illumination

  10. The application of micro-CT in monitoring bone alterations in tail-suspended rats in vivo

    NASA Astrophysics Data System (ADS)

    Luan, Hui-Qin; Sun, Lian-Wen; Huang, Yun-Fei; Wang, Ying; McClean, Colin J.; Fan, Yu-Bo

    2014-06-01

    Osteopenia is a pathological process that affects human skeletal health not only on earth but also in long-time spaceflight. Micro-computed tomography (micro-CT) is a nondestructive method for assessing both bone quantity and bone quality. To investigate the characteristics of micro-CT on evaluating the microgravity-induced osteopenia (e.g. early detection time and the sensitive parameters), the bone loss process of tail-suspended rats was monitored by micro-CT in this study. 8-Week-old female Sprague Dawley rats were divided into two groups: tail suspension (TS) and control (CON). Volumetric bone mineral density (vBMD) and microstructure of the femur and tibia were evaluated in vivo by micro-CT at 0, 7, 14, 22 days. Biomechanical properties of the femur and tibia were determined by three-point bending test. The ash weight of bone was also investigated. The results showed that (1) bone loss in the proximal tibia appeared earlier than in the distal femur. (2) On day 7, the percent bone volume (BV/TV) of the tibia 15.44% decreased significantly, and the trabecular separation (Tb.Sp) 30.29% increased significantly in TS group, both of which were detected earlier than other parameters. (3) Biomechanical properties (e.g. femur, -22.4% maximum load and -23.75% Young’s modulus vs. CON) and ash weight of the femur and tibia decreased significantly in the TS group in comparison to CON group. (4) vBMD of the femur and tibia were clearly related to bone ash and dry weight (r = 0.75-0.87, p < 0.05). (5) BV/TV of both femur and tibia were clearly related to maximum load and Young’s modulus (r = 0.66-0.87, p < 0.05). Similarly, trabecular vBMD and BV/TV of the femur and tibia were clearly related to Young’s modulus (r = 0.73-0.89, p < 0.05). These indicated that BV/TV and Tb.Sp were more sensitive than other parameters for evaluating bone loss induced by tail suspension, moreover, trabecular vBMD and other parameters might be used to evaluate bone strength. Therefore

  11. Quantifying shape changes of silicone breast implants in a murine model using in vivo micro-CT.

    PubMed

    Anderson, Emily E; Perilli, Egon; Carati, Colin J; Reynolds, Karen J

    2016-04-18

    A major complication of silicone breast implants is the formation of a capsule around the implant known as capsular contracture which results in the distortion of the implant. Recently, a mouse model for studying capsular contracture was examined using micro-computed tomography (micro-CT), however, only qualitative changes were reported. The aim of this study was to develop a quantitative method for comparing the shape changes of silicone implants using in vivo micro-CT. Mice were bilaterally implanted with silicone implants and underwent ionizing radiation to induce capsular contracture. On day 28 post-surgery mice were examined in vivo using micro-CT. The reconstructed cross-section images were visually inspected to identify distortion. Measurements were taken in 2D and 3D to quantify the shape of the implants in the normal (n = 11) and distorted (n = 5) groups. The degree of anisotropy was significantly higher in the distorted implants in the transaxial view (0.99 vs. 1.19, p = 0.002) and the y-axis lengths were significantly shorter in the sagittal (9.27 mm vs. 8.55 mm, p = 0.015) and coronal (9.24 mm vs. 8.76 mm, p = 0.031) views, indicating a deviation from the circular cross-section and shortening of the long axis. The 3D analysis revealed a significantly lower average thickness (sphere-fitting method) in distorted implants (6.86 mm vs. 5.49 mm, p = 0.002), whereas the volume and surface area did not show significant changes. Statistically significant differences between normal and distorted implants were found in 2D and 3D using distance measurements performed via micro-CT. This objective analysis method can be useful for a range of studies involving deformable implants using in vivo micro-CT. © 2016 Wiley Periodicals, Inc. J Biomed Mater Res Part B: Appl Biomater, 2016.

  12. Automated assessment of bone changes in cross-sectional micro-CT studies of murine experimental osteoarthritis

    PubMed Central

    Vincent, Tonia L.; Marenzana, Massimo

    2017-01-01

    Objective The degradation of articular cartilage, which characterises osteoarthritis (OA), is usually paired with excessive bone remodelling, including subchondral bone sclerosis, cysts, and osteophyte formation. Experimental models of OA are widely used to investigate pathogenesis, yet few validated methodologies for assessing periarticular bone morphology exist and quantitative measurements are limited by manual segmentation of micro-CT scans. The aim of this work was to chart the temporal changes in periarticular bone in murine OA by novel, automated micro-CT methods. Methods OA was induced by destabilisation of the medial meniscus (DMM) in 10-week old male mice and disease assessed cross-sectionally from 1- to 20-weeks post-surgery. A novel approach was developed to automatically segment subchondral bone compartments into plate and trabecular bone in micro-CT scans of tibial epiphyses. Osteophyte volume, as assessed by shape differences using 3D image registration, and by measuring total epiphyseal volume was performed. Results Significant linear and volumetric structural modifications in subchondral bone compartments and osteophytes were measured from 4-weeks post-surgery and showed progressive changes at all time points; by 20 weeks, medial subchondral bone plate thickness increased by 160±19.5 μm and the medial osteophyte grew by 0.124±0.028 μm3. Excellent agreement was found when automated measurements were compared with manual assessments. Conclusion Our automated methods for assessing bone changes in murine periarticular bone are rapid, quantitative, and highly accurate, and promise to be a useful tool in future preclinical studies of OA progression and treatment. The current approaches were developed specifically for cross-sectional micro-CT studies but could be applied to longitudinal studies. PMID:28334010

  13. Angioarchitectural Changes in Subacute Cerebral Venous Thrombosis. A Synchrotron-based Micro- and Nano-CT Study

    SciTech Connect

    E Stolz; M Yeniguen; M Kreisel; M Kampschulte; S Doenges; D Sedding; E Ritman; T Gerriets; A Langheinrich

    2011-12-31

    It is well known that recanalization of thrombosed cerebral sinuses occurs early but without marked influence on the long-term outcome and on final venous infarct volume on magnetic resonance imaging. To better understand the possible microvascular mechanisms behind these clinical observations, we evaluated the sequels of subacute superior sagittal sinus (SSS) thrombosis in rats using micro- and nano-CT imaging of the same specimen to provide large volume and high resolution CT image data respectively. SSS thrombosis was induced in 11 animals which were euthanized after 6 h (n = 4) or 6 weeks (n = 7). Eight sham-operated rats served as controls. After infusion of contrast into the vasculature of the brains, these were isolated and scanned using micro-, nano-, and synchrotron-based micro-CT ((8 {mu}m{sup 3}), (900 nm){sup 3}, and (1.9 {mu}m{sup 3}) voxel sizes). The cross-sectional area of the superior sagittal sinus, microvessels and cortical veins were quantified. Tissue sections were stained against VEGF antigen. Immunohistochemistry was confirmed using quantitative rtPCR. SSS thrombosis led to a congestion of the bridging veins after 6 h. After 6 weeks, a network of small vessels surrounding the occluded SSS was present with concurrent return towards the diameter of the draining bridging veins of controls. This microvascular network connected to cortical veins as demonstrated by nano- and synchrotron-based micro-CT. Also the volume fraction and number of cortical veins increased significantly. Immunohistochemistry in the region of the microsvascular network demonstrated a strong immunoreactivity against VEGF, confirmed by rtPCR. The sequel of subacute SSS thrombosis induced a network of microvessels ('venogenesis') draining the bridging veins. Also the volume fraction of cortical veins increased significantly.

  14. High density, optically corrected, micro-channel cooled, v-groove monolithic laser diode array

    DOEpatents

    Freitas, Barry L.

    1998-01-01

    An optically corrected, micro-channel cooled, high density laser diode array achi