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Sample records for douglass coulter phd

  1. Ian Douglass Coulter, PhD

    PubMed Central

    Brown, Douglas M

    2004-01-01

    This paper focuses on Dr. Ian Coulter’s accomplishments from the time he became Executive Vice-President of CMCC in 1981, until he ended his presidency with a year’s administrative leave in 1990. Annual planning initiatives, pedagogy, scholarship, conflicts, and the quest for university affiliation are discussed as well as his legacy to the College and the chiropractic profession. The term “adventurous” was first attributed to Coulter by Oswald Hall, PhD, Professor Emeritus, University of Toronto who had worked closely with Coulter in a major investigation of the chiropractic profession from 1976 to 1979. Throughout this article the author tries to capture the spirit of daring, innovation and intellect that permeated Coulter’s presidency, enthralling his advocates and confounding his detractors. PMID:17549218

  2. Frederick Douglass & the Value of My Life.

    ERIC Educational Resources Information Center

    Adisa, Opal Palmer

    1996-01-01

    Describes how Frederick Douglass's "Narrative of the Life of Frederick Douglass, an American Slave" can be used to explore differences between biography and autobiography, and how a personal account can be used to change attitudes of others. Presents poems written by 10th- and 11th-grade students composed after reading Douglass's…

  3. Attention-Shifting in Frederick Douglass.

    ERIC Educational Resources Information Center

    Leroux, Neil R.

    A study explored rhetorical strategies and dynamics within a single speech delivered by Frederick Douglass on July 5, l852 in Rochester, New York, which was considered by speaker and audience to be an Independence Day speech. An examination of the text suggests that Douglass embarked on a strategy of attention-shifting--turning the attention of…

  4. Frederick Douglass Changed My Mind about the Constitution

    ERIC Educational Resources Information Center

    Oakes, James

    2008-01-01

    Frederick Douglass dramatically and publicly changed his own mind about the Constitution. Like Frederick Douglass, the author had originally viewed the Constitution as pro-slavery. Yet a close look at Douglass's writings revealed a Constitution that empowered the federal government to abolish slavery.

  5. Frederick Douglass: An American Adult Educator

    ERIC Educational Resources Information Center

    Ross, Jerry Paul

    2010-01-01

    Throughout his life, Frederick Douglass struggled to be something extraordinary. He rose from a life in slavery to become the most prominent African-American of his day and a leading figure in the abolitionist movement. Lost in the discussion of his life are the adult education roles that he played throughout his life and career. Beginning while…

  6. The Teachers & Writers Guide to Frederick Douglass. First Edition.

    ERIC Educational Resources Information Center

    Brown, Wesley, Ed.

    The 12 essays in this book provide a variety of ways to get students engaged and inspired by the "Narrative of the Life of Frederick Douglass, An American Slave" (1845). Most of the essays emphasize writing as a means for students to learn about Douglass, his times, and his legacy, as well as implications for the students themselves.…

  7. "The Joyous Circle": The Vernacular Presence in Frederick Douglass's Narratives

    ERIC Educational Resources Information Center

    Babb, Valerie

    2005-01-01

    Frederick Douglass, as a nineteenth-century writer, experimented with all manner of discourses including sentimentality, romance and, more significantly, the vernacular tradition. In his works like "My Bondage" and "Life and Times of Frederick Douglass", the confidence of a writer willing to experiment with contrasting forms and willing to make a…

  8. Differential Counting in Mixed Cultures with Coulter Counters

    PubMed Central

    Drake, J. F.; Tsuchiya, H. M.

    1973-01-01

    A critical comparison of Coulter, viable, and microscope counts for several mixed cultures of microorganisms has been made. This investigation shows that Coulter counting can provide reliable estimates of microbial numbers in mixed cultures. Precautions and limitations of Coulter counting in mixed cultures are discussed. PMID:4199341

  9. Was the Constitution Pro-Slavery? The Changing View of Frederick Douglass

    ERIC Educational Resources Information Center

    Cohen, Robert

    2008-01-01

    In this article, the author reflects on Frederick Douglass's different interpretations of the Constitution. One explanation of the shift in Douglass's thinking on the Constitution had to do with his growing intellectual independence. Douglass had the intellectual space to reflect on the fact that there was more than one way to think about…

  10. Obituary: Geoffrey Gardner Douglass, 1942-2005

    NASA Astrophysics Data System (ADS)

    Mason, Brian D.; Hartkopf, William; Corbin, Thomas

    2005-12-01

    Geoffrey Gardner Douglass passed away on 15 February 2005, following a long illness. Geoff was born 11 June 1942 in Rocky River, Ohio, and grew up there with a passion for science, theatre, and pets. He attended the nearby Case Institute of Technology (Cleveland, Ohio) before coming to the U.S. Naval Observatory on 28 April 1967. He worked at the USNO for over 30 years, until his retirement in January 1999. He was involved in the observing and measurement of parallax and double star plates on the SAMM and MANN measuring engines, and was stationed at Blenheim, New Zealand from 1985-1988 working at the Black Birch site on the Twin Astrograph Telescope. While there he and his wife Doris travelled extensively throughout New Zealand and Australia, He later worked with an early iteration of the USNO StarScan measuring machine. However, most of his work involved observations of visual double stars with the USNO 26-inch Clark Refractor, collaborating with F.J. ("Jerry") Josties on the photographic program in the late 1960s to the development of the USNO's speckle interferometry program throughout the 1990s. Geoff collaborated closely with Charles Worley from 1968 until Charles's death in December 1997, writing much of the double star software and assisting in the production of the USNO's double star catalogs. This was a period of transition, when some 200,000 punch cards of the Lick IDS (Index Catalog of Double Stars) were transferred from Lick Observatory to the USNO, then converted to magnetic tape. This ultimately resulted in the 1984 WDS catalog (currently maintained online). It was often joked that the "W" and "D" in the WDS (officially the "Washington Double Star" catalog) really stood for "Worley" and "Douglass." The "Curmudgeon" and the "Dour Scot" were a team for nearly thirty years. Geoff's first observation, of BU 442, was made 2 June 1967 with the USNO double star (photographic) camera, and his last, STF 342, was made on 28 November 1998 with the USNO speckle

  11. Differentiating neutrophils using the optical coulter counter

    NASA Astrophysics Data System (ADS)

    Schonbrun, Ethan; Di Caprio, Giuseppe

    2015-11-01

    We present an optofluidic measurement system that quantifies cell volume, dry mass, and nuclear morphology of neutrophils in high-throughput. While current clinical hematology analyzers can differentiate neutrophils from a blood sample, they do not give other quantitative information beyond their count. In order to better understand the distribution of neutrophil phenotypes in a blood sample, we perform two distinct multivariate measurements. In both measurements, white blood cells are driven through a microfluidic channel and imaged while in flow onto a color camera using a single exposure. In the first measurement, we quantify cell volume, scattering strength, and cell dry mass by combining quantitative phase imaging with dye exclusion cell volumetric imaging. In the second measurement, we quantify cell volume and nuclear morphology using a nucleic acid fluorescent stain. In this way, we can correlate cell volume to other cellular characteristics, which would not be possible using an electrical coulter counter. Unlike phase imaging or cell scattering analysis, the optical coulter counter is capable of quantifying cell volume virtually independent of the cell's refractive index and unlike optical tomography, measurements are possible on quickly flowing cells, enabling high-throughput.

  12. Differentiating neutrophils using the optical coulter counter

    NASA Astrophysics Data System (ADS)

    Schonbrun, E.; Di Caprio, G.

    2015-03-01

    We present an opto-fluidic measurement system that quantifies cell volume, dry mass and nuclear morphology of neutrophils in high-throughput. While current clinical hematology analyzers can differentiate neutrophils from a blood sample, they do not give other quantitative information beyond their count. In order to better understand the distribution of neutrophil phenotypes in a blood sample, we perform two distinct multivariate measurements. In both measurements, white blood cells are driven through a microfluidic channel and imaged while in flow onto a color camera using a single exposure. In the first measurement, we quantify cell volume, scattering strength, and cell dry mass by combining quantitative phase imaging with dye exclusion cell volumetric imaging. In the second measurement, we quantify cell volume and nuclear morphology using a nucleic acid fluorescent stain. In this way, we can correlate cell volume to other cellular characteristics, which would not be possible using an electrical coulter counter. Unlike phase imaging or cell scattering analysis, the optical coulter counter is capable of quantifying cell volume virtually independent of the cell's refractive index and unlike optical tomography, measurements are possible on quickly flowing cells, enabling high-throughput.

  13. Literacy, Orality, and Silence: "Reading" the Exigencies of Oppression in Fredrick Douglass' 1845 "Narrative."

    ERIC Educational Resources Information Center

    Jones, Donald C.

    By focusing on Frederick Douglass' reconsideration of literacy in the 1845 "Narrative of the Life of Frederick Douglass," this slave narrative becomes very relevant to students today. This important historical document becomes a powerful tool with which educators can encourage students to confront contemporary, postmodern questions about…

  14. Automatic platelet counting with the Coulter particle counter

    PubMed Central

    Davis, R. E.; Green, R. E.

    1967-01-01

    A method for accurately counting platelets is described using the Coulter counter model B fitted with a standard 100μ aperture tube. This enables the counter to be used for red and white cell as well as platelet counts using the same aperture tube. The method uses standard equipment except for a small inexpensive electronic speed controller. PMID:5602990

  15. Wallace H. Coulter: decades of invention and discovery.

    PubMed

    Robinson, J Paul

    2013-05-01

    Only a few inventors can be said to have made as great an impact on mankind as Wallace Coulter. His inquisitive mind and ability to see well beyond what existed served him well for 40 years of inventing. So many of the fundamental tools that exist today in the area of hematology were derived from or driven by Coulter's inventions that he could be called the most technological innovator in the field of modern hematology. In achieving these discoveries Wallace Coulter was clearly capable of visualizing future opportunities that few others recognized. His vision was combined with an uncanny ability to translate his ideas into products. He developed a large number of tools that shaped the fields of cytometry, image analysis, and industrial materials. His understanding of the future power of computation drove him to link these technologies in a unique way. In the end, Coulter shaped the technologies that ultimately drove hematology in a new direction, one that remains on a critical pathway linking technology innovation all the way to true translational impact. It was said of Henry Ford that "[h]e has no notion that wealth has made him great, and any one who is imprest merely by his wealth bores him. In his personal contacts he likes to dodge the subject. He would prefer to talk with a machinist about machinery, or with somebody who likes birds about birds. In these contacts, he asks no deference; and if he gets it, he suspects it is mere deference to wealth, and that ends his interest."(1) The same could be said of Wallace Coulter, who, like Ford, understood the concepts of mass production and customer service. Coulter had the ability to recognize the opportunity and fulfill the need for development of a blood-cell counter that could be placed in every pathology laboratory, and in so doing transformed a field from a qualitative to a quantitative environment. Every person who has ever entered a medical lab, hospital, or doctor's office has felt the impact of Coulter

  16. Heritability in syntactic development: a critique of Munsinger and Douglass.

    PubMed

    Fahey, V K; Kamitomo, G A; Cornell, E H

    1978-03-01

    Munsinger and Douglass (Child Development, 1976, 47, 40-50) used the Assessment of Children's Language Comprehension and the Northwestern Syntax Screening Test as measures of syntactic ability to investigate the heritability factor in language acquisition. By comparing the concordance of scores of twins and siblings, they concluded that heritability was the important variable in test performance (h2 = .79) and that environmental influences were not much over, 10. In the present critique, weaknesses regarding test measures are pointed out, and the validity of these measures for the ages of the children used in the study is questioned. It is also emphasized that the question of environmental effects in normal circumstances remains unquantified, and research indicates that language intervention programs with deficient populations can be beneficial.

  17. Investigation of hydrodynamic focusing in a microfluidic coulter counter device.

    PubMed

    Zhang, Muheng; Lian, Yongsheng; Harnett, Cindy; Brehob, Ellen

    2012-08-01

    The Coulter technique enables rapid analysis of particles or cells suspended in a fluid stream. In this technique, the cells are suspended in an electrically conductive solution, which is hydrodynamically focused by nonconducting sheath flows. The cells produce a characteristic voltage signal when they interrupt an electrical path. The population and size of the cells can be obtained through analyzing the voltage signal. In a microfluidic Coulter counter device, the hydrodynamic focusing technique is used to position the conducting sample stream and the cells and also to separate close cells to generate distinct signals for each cell and avoid signal jam. The performance of hydrodynamic focusing depends on the relative flow ratio between the sample stream and sheath stream. We use a numerical approach to study the hydrodynamic focusing in a microfluidic Coulter counter device. In this approach, the flow field is described by solving the incompressible Navier-Stokes equations. The sample stream concentration is modeled by an advection-diffusion equation. The motion of the cells is governed by the Newton-Euler equations of motion. Particle motion through the flow field is handled using an overlapping grid technique. A numerical model for studying a microfluidic Coulter counter has been validated. Using the model, the impact of relative flow rate on the performance of hydrodynamic focusing was studied. Our numerical results show that the position of the sample stream can be controlled by adjusting the relative flow rate. Our simulations also show that particles can be focused into the stream and initially close particles can be separated by the hydrodynamic focusing. From our study, we conclude that hydrodynamic focusing provides an effective way to control the position of the sample stream and cells and it also can be used to separate cells to avoid signal jam.

  18. High-Speed Multipass Coulter Counter with Ultrahigh Resolution.

    PubMed

    Edwards, Martin A; German, Sean R; Dick, Jeffrey E; Bard, Allen J; White, Henry S

    2015-12-22

    Coulter counters measure the size of particles in solution by passing them through an orifice and measuring a resistive pulse, i.e., a drop in the ionic current flowing between two electrodes placed on either side of the orifice. The magnitude of the pulse gives information on the size of the particle; however, resolution is limited by variability in the path of the translocation, due to the Brownian motion of the particle. We present a simple yet powerful modified Coulter counter that uses programmable data acquisition hardware to switch the voltage after sensing the resistive pulse of a nanoparticle passing through the orifice of a nanopipet. Switching the voltage reverses the direction of the driving force on the particle and, when this detect-switch cycle is repeated, allows us to pass an individual nanoparticle through the orifice thousands of times. By measuring individual particles more than 100 times per second we rapidly determine the distribution of the resistive pulses for each particle, which allows us to accurately determine the mean pulse amplitude and deliver considerably improved size resolution over a conventional Coulter counter. We show that single polystyrene nanoparticles can be shuttled back and forth and monitored for minutes, leading to a precisely determined mean blocking current equating to sub-angstrom size resolution.

  19. Douglass Houghton and the Precambrian of Lake Superior

    SciTech Connect

    Merk, G.

    1985-01-01

    The first chronological subdivision of Precambrian rocks in the Lake Superior area was made in 1841 by Douglass Houghton for the Upper Peninsula of Michigan. In spite of the fact that the then prevailing philosophy of geologic history was quite different from that of today, Houghton's chronological subdivision became the commonly accepted framework for Precambrian studies on the south shore of Lake Superior. Using only megascopic rock analyses and the physical stratigraphic criteria of relative age, Houghton and his assistants recognized these division, in ascending order: the Primary (granite-gneiss-greenstone); the Metamorphic (slates, iron ore, quartz rock); and on the Keweenaw Peninsula, the Trap (with copper ore); the Trap Conglomerate; and the Red Sandrock. This Pioneer study demanded heroic effort and imagination because the swampy, forested terrain was barely penetrable, the outcrops are discontinuous, the rocks are often deformed, and the lithology changes locally within the formations. Houghton was aided in these accomplishments by William A. Burt, a US Linear Surveyor and the inventor of the solar compass, a sextant-like device used to supplement the surveyors compass. Together, Houghton and Burt formed the first combined geological-linear survey in the US. The combined survey was completed by the assistants Houghton had trained so well, William Burt and Bela Hubbard. Their reports (1846, 1847) supplemented Houghton's report of 1841 by showing the areal distribution of the exposed Precambrian rocks in the region thus facilitating future research, prospecting, and development.

  20. Three-dimensional hydrodynamic focusing in a microfluidic Coulter counter.

    PubMed

    Scott, R; Sethu, P; Harnett, C K

    2008-04-01

    Electrical impedance-based particle detection or Coulter counting, offers a lab-on-chip compatible method for flow cytometry. Developments in this area will produce devices with greater portability, lower cost, and lower power requirements than fluorescence-based flow cytometry. Because conventional Coulter apertures are prone to clogging, hydrodynamic focusing improves the device by creating fluid-walled channels with variable width to increase sensitivity without the associated risk of blocking the channel. We describe a device that focuses the sample in three dimensions, creating a narrow sample stream on the floor of the channel for close interaction with sensing electrodes. The key to this design is a stepped outlet channel fabricated in a single layer with soft lithography. In contrast to previous impedance-based designs, the new design requires minimal alignment with the substrate. Three-dimensional focusing maximizes the sensitivity of the device to cell-size particles within much larger channels. Impedance-based particle sensing experiments within this device show an increase in percentage conductivity change by a factor of 2.5 over devices that only focus the sample in the horizontal direction.

  1. Douglass Developmental Disabilities Center: An ABA Program for Children and Adults with Autism Spectrum Disorders

    ERIC Educational Resources Information Center

    Handleman, Jan S.; Harris, Sandra L.

    2005-01-01

    There is increasing evidence that Applied Behavior Analysis (ABA) is an effective, and often superior, method to teach children with Autism Spectrum Disorders ASD), than other methods. The Douglass Developmental Disabilities Center of Rutgers University (DDDC) has been using ABA for more than thirty years to teach toddlers, young children,…

  2. The Impact of Triple Room Assignment on Students at Rutgers and Douglass Colleges.

    ERIC Educational Resources Information Center

    Semaj, Leahcim

    The effects of overassignment (three students living in a room usually assigned to two) on students at Rutgers and Douglass Colleges are examined in a study of differences between students housed in two- and three-person rooms for the semester. The dependent measures were perception of the university environment, academic performance, physical…

  3. Irony, Silence, and Time: Frederick Douglass on the Fifth of July

    ERIC Educational Resources Information Center

    Terrill, Robert E.

    2003-01-01

    Frederick Douglass's oration, "What to the Slave is the Fourth of July?" is a rhetorical masterwork of irony. It illustrates a strategy for enlisting the liberatory potential inherent in the detached and multiple perspective of irony without allowing that detachment to culminate in political impotence. The speech accomplishes this through opening…

  4. The Effect of Swelling Ratio on the Coulter Underestimation of Hydrogel Microsphere Diameters

    PubMed Central

    Pellegrini, Michael; Cherukupalli, Abhimanyu; Medini, Michael; Falkowski, Ron

    2015-01-01

    It has been demonstrated that the diameters of porous particles are underestimated by Coulter measurements. This phenomenon has also been observed in hydrogel particles, but not characterized. Since the Coulter principle uses the displacement of electrolyte to determine particle size, electrolyte contained within the swelled hydrogel microparticles results in an underestimate of actual particle diameters. The increased use of hydrogel microspheres in biomedical applications has led to the increased application of the Coulter principle to evaluate the size distribution of microparticles. A relationship between the swelling ratio of the particles and their reported Coulter diameters will permit calculation of the actual diameters of these particles. Using polyethylene glycol diacrylate hydrogel microspheres, we determined a correction factor that relates the polymer swelling ratio and the reported Coulter diameters to their actual size. PMID:26414785

  5. Teaching about Frederick Douglass: A Resource Guide for Teachers of Cultural Diversity. Counterpoints: Studies in the Postmodern Theory of Education. Volume 406

    ERIC Educational Resources Information Center

    Sanelli, Maria, Ed.; Rodriquez, Louis, Ed.

    2012-01-01

    "Teaching about Frederick Douglass" will stimulate conversation among liberal arts and education professionals as well as inform public school teachers about the life and times of Frederick Douglass. Tension exists at many institutions of higher education between liberal arts faculties who do not completely understand the function of education…

  6. Wavelet transform-based methods for denoising of Coulter counter signals

    NASA Astrophysics Data System (ADS)

    Jagtiani, Ashish V.; Sawant, Rupesh; Carletta, Joan; Zhe, Jiang

    2008-06-01

    A process based on discrete wavelet transforms is developed for denoising and baseline correction of measured signals from Coulter counters. Given signals from a particular Coulter counting experiment, which detect passage of particles through a fluid-filled microchannel, the process uses a cross-validation procedure to pick appropriate parameters for signal denoising; these parameters include the choice of the particular wavelet, the number of levels of decomposition, the threshold value and the threshold strategy. The process is demonstrated on simulated and experimental single channel data obtained from a particular multi-channel Coulter counter processing. For these example experimental signals from 20 µm polymethacrylate and Cottonwood/Eastern Deltoid pollen particles and the simulated signals, denoising is aimed at removing Gaussian white noise, 60 Hz power line interference and low frequency baseline drift. The process can be easily adapted for other Coulter counters and other sources of noise. Overall, wavelets are presented as a tool to aid in accurate detection of particles in Coulter counters.

  7. 77 FR 30004 - Notice to All Interested Parties of the Termination of the Receivership of 10003, Douglass...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-05-21

    ... From the Federal Register Online via the Government Publishing Office FEDERAL DEPOSIT INSURANCE CORPORATION Notice to All Interested Parties of the Termination of the Receivership of 10003, Douglass National Bank, Kansas City, MO Notice is hereby given that the Federal Deposit Insurance...

  8. "Comments on Coulter and Smith": The Issue of Authorial Surplus in Narrative Research

    ERIC Educational Resources Information Center

    Smith, Michael W.

    2009-01-01

    Advocates of narrative research often contend that it is superior to nonnarrative research, both qualitative and quantitative, because they believe it is better able to represent multiple perspectives and foster multiple interpretations. The author of this comment article on Coulter and Smith (2009) draws on literary theory and an analysis of the…

  9. "Comments on Coulter and Smith": Relational Ontological Commitments in Narrative Research

    ERIC Educational Resources Information Center

    Clandinin, D. Jean; Murphy, M. Shaun

    2009-01-01

    In this comment article on Coulter and Smith (2009), the authors raise concerns that focusing exclusively on issues of representation may lead readers to misunderstandings about narrative research. The authors argue that narrative ways of thinking about the phenomena under study are interwoven with narrative research methodologies. Drawing on…

  10. "Comments on Coulter and Smith": Narrative Researchers as Witnesses of Injustice and Agents of Social Change?

    ERIC Educational Resources Information Center

    Barone, Tom

    2009-01-01

    In commenting on Coulter and Smith (2009), the author explores issues related to the place of the political in education research and in literature, but especially in forms of narrative research that possess both scientific and literary dimensions. More specifically, the author examines four sets of issues related to the researching and writing of…

  11. The African-American grandmother in autobiographical works by Frederick Douglass, Langston Hughes, and Maya Angelou.

    PubMed

    Hill-Lubin, M A

    1991-01-01

    Using the autobiographies of Frederick Douglass, Langston Hughes, and Maya Angelou, this article demonstrates that the portrait of the African-American grandmother is one of action, involvement, hope, and dignity. In examining the works, we observe her functioning in three areas: as the preserver and most tenacious survivor of the African extended family; second, as repository and distributor of the family history, wisdom, and black lore; this role places her at the foundation of the Black, oral and written, literary and creative traditions; and third, as the retainer and transmitter of values and ideals that support and enhance her humanity, her family, and her community. This function emphasizes her spirituality. It is suggested that the grandmother, having played an important role in the growth, development, and artistic flowering of the autobiographer, can become a model and source of empowerment for future generations.

  12. Experimental Air Embolism: Measurement of Microbubbles Using the Coulter Counter®

    PubMed Central

    Grulke, D. C.; Marsh, N. A.; Hills, B. A.

    1973-01-01

    Microbubbles in the range 20-250 μm were produced with fine hypodermic needles (0·001, 0·002 and 0·003 inch internal diameter) and were measured using a conventional Coulter Counter. Various bubble sizes could be obtained by varying combinations of needle size, gas pressure, liquid surfactant content and liquid flow rate. Bubbles produced and measured in this way were found to have a very narrow size distribution (80% of the bubbles falling within ± 2 μm of the mean radius) and could be generated at relatively constant frequencies. Over the entire bubble size range, the Coulter Counter method correlated well with two other bubble measuring methods: terminal rise velocity and volume flow rate of gas divided by bubble frequency. It is suggested that this method will enable the introduction of a known number of accurately sized microbubbles into the circulation for the purpose of studying experimental gas embolism. ImagesFig. 2 PMID:4783166

  13. PHD2 in tumour angiogenesis

    PubMed Central

    Chan, D A; Giaccia, A J

    2010-01-01

    Originally identified as the enzymes responsible for catalysing the oxidation of specific, conserved proline residues within hypoxia-inducible factor-1α (HIF-1α), the additional roles for the prolyl hydroxylase domain (PHD) proteins have remained elusive. Of the four identified PHD enzymes, PHD2 is considered to be the key oxygen sensor, as knockdown of PHD2 results in elevated HIF protein. Several recent studies have highlighted the importance of PHD2 in tumourigenesis. However, there is conflicting evidence as to the exact role of PHD2 in tumour angiogenesis. The divergence seems to be because of the contribution of stromal-derived PHD2, and in particular the involvement of endothelial cells, vs tumour-derived PHD2. This review summarises our current understanding of PHD2 and tumour angiogenesis, focusing on the influences of PHD2 on vascular normalisation and neovascularisation. PMID:20461086

  14. Size distributions of fly ash using Coulter Multisizer: Use of multiple orifices and fitting to truncated log-normal distributions. [Coulter Multisizer

    SciTech Connect

    Ghosal, S.; Ebert, J.L.; Self, S.A.

    1991-11-01

    Fly ash particles, which are predominantly spherical and glassy, are produced by melting of the mineral inclusions in the coal during combustion. Particle diameters can range from sub-micrometer (micron or {mu}m) to greater than 100 {mu}m. The size distribution of fly ash is needed to determine its role in the radiation transfer process in pulverized coal combustors. The Coulter Multisizer is an useful instrument for sizing powders with a broad size distribution. A single Multisizer orifice can size particles only within a specific size range limited at the lower end to a few percent of orifice diameter by sensitivity and at the upper end by increasing non-linearity of the signal-volume relation. A scheme for combining data obtained using orifices of different diameters is described. The manufacturers state that the smallest particle which can be sized accurately is nominally 2% of the diameter of the orifice. However, it was found that the data for particles less than 4% of the orifice diameter were not reliable. In order to use the smaller orifices, the larger particles have to be removed from the sample. A wet-sieving apparatus, designed for accurate separation of the particles by size, is described. A log-normal distribution function, truncated outside the measurement limits, fits the size distribution data well. Size parameters for fly ashes of six representative US coals are presented.

  15. A micromachined high throughput Coulter counter for bioparticle detection and counting

    NASA Astrophysics Data System (ADS)

    Zhe, Jiang; Jagtiani, Ashish; Dutta, Prashanta; Hu, Jun; Carletta, Joan

    2007-02-01

    We describe a micromachined Coulter counter with multiple sensing microchannels for quantitative measurement of polymethacrylate particles and pollen. A unique design with sensing microelectrodes in the center of the microchannels is demonstrated. This design creates isolation resistances among channels, and thus circumvents the crosstalk caused by automatic electrical connection among microchannels. When implemented using microfluidic channels, this design is appropriate for the sensing of microscale particles in deionized water or in dilute electrolyte solution. Our design has multiple channels operating in parallel, but integrated with just one sample reservoir and one power source. The results with a four-channel device show that this device is capable of differentiating and counting micro polymethacrylate particles and Juniper pollen rapidly. Moreover, the device throughput is improved significantly in comparison to a single-channel device. The concept can be extended to a large number of sensing channels in a single chip for significant improvement in throughput.

  16. Ph.D. shortage

    NASA Astrophysics Data System (ADS)

    The late 1990s will see a shortage of Ph.D. graduates, according to the Association of American Universities, Washington, D.C. AAU's new comprehensive study, “The Ph.D. Shortage: The Federal Role,” reports that competition for new Ph.D.s is already intense and can only intensify because demand is greater than supply in both academic and nonacademic markets.Doctoral education plays an increasingly important role in U.S. research and development programs. Students have a pivotal part in doing research and enriching it with new ideas. The AAU report says that graduate students are “major determinants of the creativity and productivity of U.S. academic research, the source of more than 50% of the nation's basic research.’ The market for doctoral education extends beyond the university. In 1985, about 43% of all Ph.D.s employed in this country were working outside higher education; the demand for doctorate recipients in nonacademic sectors continues to grow.

  17. Evidence for P-Glycoprotein Involvement in Cell Volume Regulation Using Coulter Sizing in Flow Cytometry.

    PubMed

    Pasquier, Jennifer; Rioult, Damien; Abu-Kaoud, Nadine; Hoarau-Véchot, Jessica; Marin, Matthieu; Le Foll, Frank

    2015-06-24

    The regulation of cell volume is an essential function that is coupled to a variety of physiological processes such as receptor recycling, excitability and contraction, cell proliferation, migration, and programmed cell death. Under stress, cells undergo emergency swelling and respond to such a phenomenon with a regulatory volume decrease (RVD) where they release cellular ions, and other osmolytes as well as a concomitant loss of water. The link between P-glycoprotein, a transmembrane transporter, and cell volume regulation is controversial, and changes in cells volume are measured using microscopy or electrophysiology. For instance, by using the patch-clamp method, our team demonstrated that chloride currents activated in the RVD were more intense and rapid in a breast cancer cell line overexpressing the P-glycoprotein (P-gp). The Cell Lab Quanta SC is a flow cytometry system that simultaneously measures electronic volume, side scatter and three fluorescent colors; altogether this provides unsurpassed population resolution and accurate cell counting. Therefore, here we propose a novel method to follow cellular volume. By using the Coulter-type channel of the cytometer Cell Lab Quanta SC MPL (multi-platform loading), we demonstrated a role for the P-gp during different osmotic treatments, but also a differential activity of the P-gp through the cell cycle. Altogether, our data strongly suggests a role of P-gp in cell volume regulation.

  18. Prospective, Multi-Center Evaluation of the Beckman Coulter Prostate Health Index Using WHO Calibration

    PubMed Central

    Loeb, Stacy; Sokoll, Lori J.; Broyles, Dennis L.; Bangma, Chris H.; van Schaik, Ron H.N.; Klee, George G.; Wei, John T.; Sanda, Martin G.; Partin, Alan W.; Slawin, Kevin M.; Marks, Leonard S.; Mizrahi, Isaac A.; Shin, Sanghyuk S.; Cruz, Amabelle B.; Chan, Daniel W.; Roberts, William L.; Catalona, William J.

    2014-01-01

    Purpose Reported prostate-specific antigen (PSA) values may differ substantially between assays with the Hybritech and World Health Organization (WHO) standardization. [-2]proPSA (p2PSA) and the Beckman Coulter prostate health index (phi) are newly approved serum markers, which are associated with prostate cancer risk and aggressiveness. Our objective was to study the influence of assay standardization on these markers. Materials and Methods PSA, % free PSA (%fPSA), and p2PSA were measured using the Hybritech calibration in 892 men undergoing prostate biopsy from a prospective multicenter study. Phi was calculated as: [p2PSA/ fPSA) × (square root of PSA)]. Performance characteristics of phi for prostate cancer detection were then determined using re-calculated WHO calibration PSA values. Results The median phi was significantly higher in men with prostate cancer compared to those with negative biopsies using the WHO values (47.4 vs 39.8, p<0.001). Phi offered improved discrimination of prostate cancer detection on biopsy (AUC 0.704) compared to %fPSA or total PSA using the WHO calibration. Conclusions Phi can be calculated using Hybritech or WHO standardized assays, and significantly improved the prediction of biopsy outcome over %fPSA or PSA alone. PMID:23206426

  19. Evidence for P-Glycoprotein Involvement in Cell Volume Regulation Using Coulter Sizing in Flow Cytometry

    PubMed Central

    Pasquier, Jennifer; Rioult, Damien; Abu-Kaoud, Nadine; Hoarau-Véchot, Jessica; Marin, Matthieu; Le Foll, Frank

    2015-01-01

    The regulation of cell volume is an essential function that is coupled to a variety of physiological processes such as receptor recycling, excitability and contraction, cell proliferation, migration, and programmed cell death. Under stress, cells undergo emergency swelling and respond to such a phenomenon with a regulatory volume decrease (RVD) where they release cellular ions, and other osmolytes as well as a concomitant loss of water. The link between P-glycoprotein, a transmembrane transporter, and cell volume regulation is controversial, and changes in cells volume are measured using microscopy or electrophysiology. For instance, by using the patch-clamp method, our team demonstrated that chloride currents activated in the RVD were more intense and rapid in a breast cancer cell line overexpressing the P-glycoprotein (P-gp). The Cell Lab Quanta SC is a flow cytometry system that simultaneously measures electronic volume, side scatter and three fluorescent colors; altogether this provides unsurpassed population resolution and accurate cell counting. Therefore, here we propose a novel method to follow cellular volume. By using the Coulter-type channel of the cytometer Cell Lab Quanta SC MPL (multi-platform loading), we demonstrated a role for the P-gp during different osmotic treatments, but also a differential activity of the P-gp through the cell cycle. Altogether, our data strongly suggests a role of P-gp in cell volume regulation. PMID:26114386

  20. Gaussian particle flow implementation of PHD filter

    NASA Astrophysics Data System (ADS)

    Zhao, Lingling; Wang, Junjie; Li, Yunpeng; Coates, Mark J.

    2016-05-01

    Particle filter and Gaussian mixture implementations of random finite set filters have been proposed to tackle the issue of jointly estimating the number of targets and their states. The Gaussian mixture PHD (GM-PHD) filter has a closed-form expression for the PHD for linear and Gaussian target models, and extensions using the extended Kalman filter or unscented Kalman Filter have been developed to allow the GM-PHD filter to accommodate mildly nonlinear dynamics. Errors resulting from linearization or model mismatch are unavoidable. A particle filter implementation of the PHD filter (PF-PHD) is more suitable for nonlinear and non-Gaussian target models. The particle filter implementations are much more computationally expensive and performance can suffer when the proposal distribution is not a good match to the posterior. In this paper, we propose a novel implementation of the PHD filter named the Gaussian particle flow PHD filter (GPF-PHD). It employs a bank of particle flow filters to approximate the PHD; these play the same role as the Gaussian components in the GM-PHD filter but are better suited to non-linear dynamics and measurement equations. Using the particle flow filter allows the GPF-PHD filter to migrate particles to the dense regions of the posterior, which leads to higher efficiency than the PF-PHD. We explore the performance of the new algorithm through numerical simulations.

  1. Initial performance evaluation of the UniCel® DxH 800 Coulter® cellular analysis system

    PubMed Central

    HEDLEY, B D; KEENEY, M; CHIN-YEE, I; BROWN, W

    2011-01-01

    The Beckman Coulter UniCel® DxH 800 is a hematology analyzer incorporating new electronic and mechanical design with advanced algorithm technology to perform CBC, white blood cell (WBC) differential, nucleated red blood cell (NRBC), and reticulocyte analysis. Evaluation of this instrument was performed in our 800-bed tertiary care hospital and specifically centered upon the correlation of WBC, NRBC, and platelet (PLT) enumeration when compared to a predicate analyzer, the Coulter® LH 780, and flow cytometry (FCM) reference methods. Of particular interest were those samples with morphologically confirmed interference and extreme leukocytosis (evaluated with respect to red blood cell parameter correction). The sample set (n = 272) consisted of morphologically normal and hematologically abnormal patients. Correlation of the WBC, PLT, and NRBC showed r2 values of 0.994, 0.985, and 0.910 for the DxH 800 vs. FCM, respectively. The presence of interfering particles did not affect the accuracy of the DxH 800 with respect to WBC counts. The DxH 800 showed accurate PLT and NRBC counts in the clinically significant low range when compared to FCM. Compared to the LH 780, flagging rates were significantly reduced (NRBC flag), or equivalent (WBC, PLT flag) on the DxH 800. The DxH 800 demonstrated higher sensitivity and specificity for PLTs and NRBCs and achieved a lower NRBC false negative rate compared to the LH 780. The UniCel® DxH 800 represents a significant improvement to previous impedance analyzers in accurately detecting the presence of NRBCs at counts >1/100 WBC. Furthermore, it provides accurate PLT and WBC counts in the presence of interference and improved NRBC flagging efficiency when compared to the LH 780. Correction of red blood cell parameters is appropriate and accurate in cases of extreme leukocytosis. PMID:20491996

  2. Size distributions of fly ash using Coulter Multisizer: Use of multiple orifices and fitting to truncated log-normal distributions

    SciTech Connect

    Ghosal, S.; Ebert, J.L.; Self, S.A.

    1991-11-01

    Fly ash particles, which are predominantly spherical and glassy, are produced by melting of the mineral inclusions in the coal during combustion. Particle diameters can range from sub-micrometer (micron or {mu}m) to greater than 100 {mu}m. The size distribution of fly ash is needed to determine its role in the radiation transfer process in pulverized coal combustors. The Coulter Multisizer is an useful instrument for sizing powders with a broad size distribution. A single Multisizer orifice can size particles only within a specific size range limited at the lower end to a few percent of orifice diameter by sensitivity and at the upper end by increasing non-linearity of the signal-volume relation. A scheme for combining data obtained using orifices of different diameters is described. The manufacturers state that the smallest particle which can be sized accurately is nominally 2% of the diameter of the orifice. However, it was found that the data for particles less than 4% of the orifice diameter were not reliable. In order to use the smaller orifices, the larger particles have to be removed from the sample. A wet-sieving apparatus, designed for accurate separation of the particles by size, is described. A log-normal distribution function, truncated outside the measurement limits, fits the size distribution data well. Size parameters for fly ashes of six representative US coals are presented.

  3. Clinical utility of Beckman-Coulter Gen's reticulocyte analysis in the study of anemia of chronic disease (ACD).

    PubMed

    Rodrigues, Ana; Ortega, Carlos; Santos, Luís; Teixeira, Alexandre; Dinis, Maria Joáo; Vasconcelos, Iponina; Lacerda, Jorge; Fonseca, Elisa

    2007-01-01

    The aim of this study is to analyze the reticulocyte parameters (classical and research parameters) acquired by the Beckman Coulter GEN'S blood counter (GEN'S; Brea, CA, USA) to establish the "reticulocyte profile" characteristics of patients with anemia of chronic disease (ACD). The reticulocyte parameters and profile provided by the GEN'S were studied in 38 anemic patients who fulfilled the diagnostic criteria for the ACD, and the results were compared with those of 38 healthy controls in a multivariate statistical analysis using the Student t-test and the receiver operating characteristics (ROC) curve analysis.Statistically significant (P <.05) differences between the 2 population groups were observed in several of the reticulocyte parameters provided by the GEN'S: mean volume of the reticulocyte population (MRV) (high), percentage of high light scatter reticulocytes HLR% (high), mean volume of the whole sphered red cell and reticulocyte population (MSCV) (high) MCV-MSCV (low) with the highest diagnostic value, as measured by the area under the ROC curve (>0.9), for the IRF (high) and the reticulocyte population data: mean channel scatter retics (high) and the mean channel conductivity retics (high). This study establishes the reticulocyte parameters and reticulocyte profile as provided by the GEN'S and characteristic of patients with ACD as compared with normal subjects. This should provide the basis for further studies comparing the reticulocyte profile of patients with ACD with those found in other types of anemia.

  4. Using the Mount Pinatubo Volcanic Eruption to Determine Climate Sensitivity: Comments on "Climate Forcing by the Volcanic Eruption of Mount Pinatubo" by David H. Douglass and Robert S. Knox

    SciTech Connect

    Wigley, T L; Ammann, C M; Santer, B D; Taylor, K E

    2005-04-22

    [1] Douglass and Knox [2005], hereafter referred to as DK, present an analysis of the observed cooling following the 1991 Mt. Pinatubo eruption and claim that these data imply a very low value for the climate sensitivity (equivalent to 0.6 C equilibrium warming for a CO{sub 2} doubling). We show here that their analysis is flawed and their results are incorrect.

  5. Measurement of isolated myocyte volume using the Coulter models Z2 and ZM/C256: a comparison of instrument function.

    PubMed

    Said, S; Tamura, T; Gerdes, A M

    1998-09-01

    Changes in cardiac structure that depart from normal have generally been termed "remodeling". Assessment of ventricular remodeling at the cellular level should include measurement of myocyte dimensions. A well-established and reliable method to assess myocyte remodeling uses isolated cells and the Coulter Counter/Channelyzer system. The new Coulter Model Z2 has numerous modifications and improvements from the Model Z predecessor(s) interfaced to a pulse-height analyzer (e.g., channelyzer). Improvements of the Model Z2 over older instruments include: (i) elimination of the mercury manometer with accompanying oil-displacement pump; (ii) reduced size and weight; (iii) a higher degree of mechanization and automation; (iv) inclusion of an advanced comprehensive statistical package and (v) a substantial reduction in cost. The purpose of this study was to determine if the newly modified instrument produces the same results as the previous instrument combinations, which were shown to produce reliable cell volume data from irregularly shaped cells such as cardiac myocytes.

  6. What My Ph.D. Taught Me

    ERIC Educational Resources Information Center

    Levenstein, Jessica

    2013-01-01

    The author started in the Ph.D. program in comparative literature at Princeton in 1992, a year after she graduated from college. She fell in love with mythology and the classical traditions and find herself teaching literature. In the remainder of her time at Princeton, she precepted for four or five more classes, got the chance to join the…

  7. The panacea toolbox of a PhD biomedical student.

    PubMed

    Skaik, Younis

    2014-01-01

    Doing a PhD (doctor of philosophy) for the sake of contribution to knowledge should give the student an immense enthusiasm through the PhD period. It is the time in one's life that one spends to "hit the nail on the head" in a specific area and topic of interest. A PhD consists mostly of hard work and tenacity; however, luck and genius might also play a little role. You can pass all PhD phases without having both luck and genius. The PhD student should have pre-PhD and PhD toolboxes, which are "sine quibus non" for getting successfully a PhD degree. In this manuscript, the toolboxes of the PhD student are discussed.

  8. GM-PHD filter multitarget tracking in sonar images

    NASA Astrophysics Data System (ADS)

    Clark, Daniel; Vo, Ba-Ngu; Bell, Judith

    2006-05-01

    The Gaussian Mixure Probability Hypothesis Density (GM-PHD) Multi-target Tracker was developed as an extension to the GM-PHD filter to provide track continuity. The algorithm is demonstrated on forward-looking sonar data with clutter and is compared with the results from the Particle PHD filter.

  9. PhD Students' Work Conditions and Study Environment in University- and Industry-Based PhD Programmes

    ERIC Educational Resources Information Center

    Kolmos, A.; Kofoed, L. B.; Du, X. Y.

    2008-01-01

    During the last 10 years, new models of funding and training PhD students have been established in Denmark in order to integrate industry into the entire PhD education. Several programmes have been conducted where it is possible to co-finance PhD scholarships or to become an employee as an industrial PhD in a company. An important question is what…

  10. Normal and homogeneous red blood cell populations over a wide range of hyper-iso-hypotonic media. III. Corrected volumes in Coulter Counter measurements.

    PubMed

    Mela, M; Eskelinen, S

    1984-12-01

    The volumes of human erythrocytes after rapid and gradual swelling in hypotonic NaCl media were measured using a Coulter Counter ZB at temperatures of +4 degrees C and +20 degrees C together with potassium leakage, the degree of hemolysis and the 'returning volume', i.e., the volume in an isotonic solution to which the cells will return from that in a hypotonic solution. The methodological and systematic errors in the volume measurements were corrected by taking into account the shape dependence of the Coulter Counter and the change in cell population during hemolysis, whereafter the measured cell volume values and the comparison between them become more reliable. The curves for cell volume as an inverse function of osmotic pressure appeared to be non-linear. The slopes were small at first but showed a rapid increase as the cells approached their maximal volume. The critical hemolytic volume was approx. 8% higher at +20 degrees C after both rapid and gradual swelling than at +4 degrees C and approx. 4% higher after a gradual swelling as compared with a rapid swelling both at +4 degrees C and +20 degrees C. A decrease in temperature resulted in an increase in the critical osmotic pressure both in rapid and gradual hemolysis, but did not greatly affect the amount of prelytic K+ leakage. The critical osmotic pressure was smaller in gradual hemolysis than in rapid hemolysis and the prelytic K+ leakage was doubled at both +4 degrees C and +20 degrees C. The shifts in osmotic fragility as a function of temperature may be due to differences in the visco-elastic properties of the cell membrane, but the shifts in osmotic fragility as a function of swelling rate may be connected with differences in potassium leakage and membrane stretch.

  11. Not Your Father's Ph.D.

    ERIC Educational Resources Information Center

    Withrow, Brandon G.

    2008-01-01

    This article describes how the author, a devoted blogger, confronts his fear that his virtual life is damaging his career prospects in academe. As a new Ph.D. in religious studies, the author has every reason to believe he will find a tenure-track job. He has read the numbers and know that, on average, job candidates spend two to five years in…

  12. Reactivation of hepatic EPO synthesis in mice after PHD loss.

    PubMed

    Minamishima, Yoji Andrew; Kaelin, William G

    2010-07-23

    The kidney controls erythropoietin production in adults, and the anemia that can accompany renal failure is a major medical problem. The liver controls erythropoietin production during fetal life but is silenced shortly after birth. Erythropoietin transcription is controlled by hypoxia-inducible factor (HIF), which is inhibited by three prolyl hydroxylases (PHD1, PHD2, and PHD3). Systemic PHD2 inactivation has been found to increase renal, but not hepatic, erythropoietin production. In contrast, we show here that simultaneous genetic inactivation of all three PHD paralogs in mice reactivates hepatic erythropoietin production and stimulates red blood synthesis, suggesting that pan-PHD inhibitory drugs might be useful for the treatment of anemia caused by chronic kidney disease.

  13. Understanding Non-Traditional PhD Students Habitus--Implications for PhD Programmes

    ERIC Educational Resources Information Center

    Naidoo, Devika

    2015-01-01

    Against the background of vast changes in doctoral education and the emergence of non-traditional doctoral programmes, this paper investigates the habitus of non-traditional PhD students at a South African university. Bourdieu's conceptual tool of habitus informed the study. In-depth and open-ended interviews were conducted with 10 non-traditional…

  14. Cellular oxygen sensing: Importins and exportins are mediators of intracellular localisation of prolyl-4-hydroxylases PHD1 and PHD2

    SciTech Connect

    Steinhoff, Amrei; Pientka, Friederike Katharina; Moeckel, Sylvia; Kettelhake, Antje; Hartmann, Enno; Koehler, Matthias; Depping, Reinhard

    2009-10-02

    Hypoxia-inducible factors are crucial in the regulatory process of oxygen homeostasis of vertebrate cells. Inhibition of prolyl hydroxylation of HIF-{alpha} subunits by prolyl-hydroxylases (PHD1, PHD2 and PHD3) leads to transcription of a greater number of hypoxia responsive genes. We have investigated the subcellular distribution and the molecular mechanisms regulating the intracellular allocation of PHD1 and PHD2. As reported earlier we find PHD1 located exclusively in the nucleus. We demonstrate that nuclear import of PHD1 occurs importin {alpha}/{beta} dependently and relies on a nuclear localisation signal (NLS). By contrast PHD2 is cycling between nucleus and cytoplasm, and nuclear import seems to be independent of 'classical' importin {alpha}/{beta} receptors. Furthermore, we reveal that the exit of PHD2 from the nucleus requires CRM1 and the N-terminal 100 amino acids of the protein. Our findings provide new insights into the mechanisms of the regulation of the oxygen sensor cascade of PHDs in different cellular compartments.

  15. Molecular Cloning of phd1 and Comparative Analysis of phd1, 2, and 3 Expression in Xenopus laevis

    PubMed Central

    Han, Dandan; Wen, Luan; Chen, Yonglong

    2012-01-01

    Intensive gene targeting studies in mice have revealed that prolyl hydroxylase domain proteins (PHDs) play important roles in murine embryonic development; however, the expression patterns and function of these genes during embryogenesis of other vertebrates remain largely unknown. Here we report the molecular cloning of phd1 and systematic analysis of phd1, phd2, and phd3 expression in embryos as well as adult tissues of Xenopus laevis. All three phds are maternally provided during Xenopus early development. The spatial expression patterns of phds genes in Xenopus embryos appear to define a distinct synexpression group. Frog phd2 and phd3 showed complementary expression in adult tissues with phd2 transcription levels being high in the eye, brain, and intestine, but low in the liver, pancreas, and kidney. On the contrary, expression levels of phd3 are high in the liver, pancreas, and kidney, but low in the eye, brain, and intestine. All three phds are highly expressed in testes, ovary, gall bladder, and spleen. Among three phds, phd3 showed strongest expression in heart. PMID:22645445

  16. Biomedical PhD education--an international perspective.

    PubMed

    Mulvany, Michael J

    2013-05-01

    The PhD, otherwise known as the doctor of philosophy or Dr. Phil., is an internationally recognized degree, indicating that the PhD graduate has received training in research under supervision. Traditionally, the PhD was the route to an academic career, with most successful PhD graduates receiving tenured university positions. However, over the past 20-30 years, and particularly the past 10 years, the situation has changed dramatically. Governments in many countries have invested massively in PhD education, believing that trained researchers will contribute to the 'knowledge society', and thus increase the competitiveness of their countries in the future economies of the world. Thus, only a small fraction of PhD graduates now end up in academic research. Yet, the PhD remains a research degree, and indeed, institutions have become heavily dependent on PhD students for their research output. The situation has thus created a paradox. On the one hand, it has become essential for institutions to have many PhD students and for the research performed to be of the highest level. On the other hand, the careers of PhD students are not necessarily going to be directly related to the research performed during their PhD studies. The purpose of this article is to explore how this seeming paradox is being addressed in biomedicine and to show that far from being inconsistent that the two aspects are in fact complementary. The article is based on the author's experience as Head of Aarhus Graduate School of Health Sciences 2002-2011 and his work with graduate schools across Europe and internationally through the organization ORPHEUS.

  17. Tracking the PhD Students' Daily Computer Use

    ERIC Educational Resources Information Center

    Sim, Kwong Nui; van der Meer, Jacques

    2015-01-01

    This study investigated PhD students' computer activities in their daily research practice. Software that tracks computer usage (Manic Time) was installed on the computers of nine PhD students, who were at their early, mid and final stage in doing their doctoral research in four different discipline areas (Commerce, Humanities, Health Sciences and…

  18. Research Collaboration and Commercialization: The PhD Candidate Perspective

    ERIC Educational Resources Information Center

    Dooley, Lawrence; Kenny, Breda

    2015-01-01

    This paper explores PhD students' perceptions of their entrepreneurial and commercial capabilities, their attitude towards university supports and the extent to which they engage in external collaboration. The study concentrated on current PhD researchers at one university in Ireland as a unit of analysis and provides encouraging evidence from the…

  19. The PhD Viva: A Space for Academic Development

    ERIC Educational Resources Information Center

    Share, Michelle

    2016-01-01

    This study examined the viva experiences of 87 social science PhD graduates from three Irish higher education institutions through a questionnaire that assessed outcome, preparation, conduct and post-viva. The majority were awarded their PhD with minor corrections, considered their viva as a summative assessment, and emphasised its purpose as…

  20. The Undergraduate Origins of PhD Economists Revisited

    ERIC Educational Resources Information Center

    Stock, Wendy A.; Siegfried, John J.

    2015-01-01

    The authors update prior analyses of the undergraduate origins of individuals who earn a PhD in economics in the United States. They include the list of the top institutions worldwide graduating the largest number of undergraduates who subsequently earn an economics PhD from a U.S. university and lists of American institutions with the largest…

  1. A Renaissance in Engineering PhD Education

    ERIC Educational Resources Information Center

    Akay, Adnan

    2008-01-01

    This paper addresses the role of engineering PhD education and its relationship to innovation and technology, and the need to reconsider how we educate PhD engineers. Much of the effort on engineering education in the last two decades focused on undergraduate education with a few exceptions that relate to master degree programs. Doctoral education…

  2. The Importance of Having a Ph.D., Career Advice

    Technology Transfer Automated Retrieval System (TEKTRAN)

    A presentation on the importance of having a PhD to motivate Initiative to Maximize Student Diversity Program (IMSD) undergrads towards conducting research, pursuing careers in the biomedical field, applying to grad school, and getting a Ph.D., based upon ARS scientist's experiences as a student, a ...

  3. Rethinking PhD Learning Incorporating Communities of Practice

    ERIC Educational Resources Information Center

    Shacham, Miri; Od-Cohen, Yehudit

    2009-01-01

    This paper grows from research which focuses on the learning characteristics of PhD students, incorporating communities of practice both during their studies and beyond completion of their PhD, and drawing on theories of adult learning and lifelong learning. It shows how professional discourse enhances academic discourse through student engagement…

  4. ['Sandwich PhD': considerations for a successful experience abroad].

    PubMed

    Salvetti, Marina de Goes; Bueno, Mariana; Gastaldo, Denise; Kimura, Amélia Fumiko; Pimenta, Cibele Andrucioli de Mattos

    2013-03-01

    International PhD internship, named "Sandwich PhD" in Brazil is an opportunity to improve research abilities, to become known in academic area and to establish and/or increase work opportunities in an international context. In this article, we describe key factors regarding the planning and development of the "Sandwich PhD" as experienced by professors and students involved in the collaboration between the School of Nursing, University of São Paulo and Lawrence S. Bloomberg Faculty of Nursing, University of Toronto, Canada. We also present the participation of PhD students' network as an alternative to the "Sandwich PhD". An international experience, when well-planned and developed correctly, promotes students' personal and professional development and favors the internationalization of Brazilian graduate programs and research groups.

  5. Young PHD's in Human Space Flight

    NASA Technical Reports Server (NTRS)

    Wilson, Eleanor

    2002-01-01

    The Cooperating Hampton Roads Organizations for Minorities in Engineering (CHROME) in cooperation with the NASA Office of Space Flight, Human Exploration and Development of Space Enterprise sponsored a summer institute, Young PHD#s (Persons Having Dreams) in Human Space Flight. This 3-day institute used the curriculum of a workshop designed for space professionals, 'Human Space Flight-Analysis and Design: An Integrated, Systematic Approach.' The content was tailored to a high school audience. This institute seeks to stimulate the interest of pre-college students in space flight and motivate them to pursue further experiences in this field. Additionally, this institute will serve as a pilot model for a pre- collegiate training program that can be replicated throughout the country. The institute was complemented with a trip to the Goddard Space Flight Center.

  6. Launching a Geoscience Career: Insights Gained from MS PHD'S Beyond the PhD

    NASA Astrophysics Data System (ADS)

    Guzman, W. I.; Johnson, A.; Williamson Whitney, V.; Jansma, P. E.; Huggans, M. J.; Ricciardi, L.

    2013-05-01

    The Beyond the PhD (B-PhD) Professional Development Program is the newest addition to the Minorities Striving and Pursuing Higher Degrees of Success (MS PHD'S®) Professional Development Program in Earth System Science. This exciting new program is designed to facilitate the development of a new community of underrepresented minority (URM) doctoral candidates and recent doctorate degree recipients in Earth system science (ESS)-related fields. Building upon MS PHD'S extensive professional development activities provided to URM undergraduate and graduate students, B-PhD's vision is to encourage and support URM doctoral students and early career PhD's in becoming part of the global workforce. (Since its inception in 2003, MSPHD'S supports 213 participants of which 42 have achieved the doctoral degree and another 71 are enrolled in doctoral programs.) By providing customized support and advocacy for participants, B-PhD facilitates smoother and informed transitions from graduate school to postdoctoral and tenure-track positions, as well as other "first" jobs in academia, government, industry, and non-profit organizations. In 2011, the first conference for 18 doctoral candidate and recent graduates was hosted at the University of Texas at Arlington's (UTA) College of Science. Using a format of guest speakers, brown bag discussions, and interactive breakout sessions, participants engaged in sessions entitled "Toolkits for Success in Academia, Business and Industry, Federal Government and Non-Profits", "Defining Short, Mid and Long Term Career Goals", "Accessing and Refining Skill Sets and Other Door Openers", "International Preparation and Opportunities", "Paying it Forward/Lifting as You Climb", and "Customized Strategies for Next Steps". This presentation will discuss outcomes from this pilot project, the use of social media to track and support ongoing B-PhD activities, and objectives for future B-PhD workshops.

  7. Italia-Netherland PhD Program: the I.O. PhD Research Program.

    PubMed

    Bellissima, Valentina; Borghesi, Alessandro; Bozzetti, Valentina; Dessì, Angelica; Fabiano, Adele; Risso, Francesco M; Salvo, Vincenzo; Satriano, Angela; Silvagni, Davide; Varrica, Alessandro; van Bel, Frank; Visser, Gerard H A; Vles, Hans Js; Zimmermann, Luc J I; Gavilanes, Antonio D W; Gazzolo, Diego

    2011-10-01

    In the framework of long-term scientific collaboration among the founder members coming from Holland and Italy there was a growing consensus to activate a philosophical doctorate (PhD) program, involving young Italian researchers in the field of perinatal medicine, neonatology and pediatrics. The aims were to promote excellence in research, offering to young Italian physicians the opportunity to maturate an International research experience leading to PhD degree, and to promote human and technological improvement energies in perinatal, neonatal and pediatrics research. Thus, an official collaboration among the Dutch Universities from Maastricht and Utrecht and the Italian Children's Hospital from Alessandria, has been activated on March 1st 2010, finalized to the PhD program. The experimental phase included the selection of projects and relative candidates after an interview-selection focusing on their scientific attitudes and the availability on their research projects. Candidates' selection started on May 2010 and on September 29th ten projects and candidates have been approved by the scientific commission. Research topics included: perinatal asphyxia, aging and the origin of adulthood neurodegenerative disease, neuroprotective strategies, biochemical pulmonology, intrauterine growth retardation and perinatal teratology. To date, all projects have been approved by local Ethics Committee from the University/Hospital of origin of the candidates. Five manuscripts have been published and/or submitted to international Journals regarding pneumology, perinatal asphyxia and teratology, whilst about 60-70% of data regarding clinical studies have already been collected.

  8. Meet EPA Ecologist Paul Mayer, Ph.D.

    EPA Pesticide Factsheets

    EPA ecologist Paul Mayer, Ph.D. works in EPA's Groundwater and Ecosystem Restoration division where he studies riparian zones (the area along rivers and streams where the habitats are influenced by both the land and water) and stream restoration

  9. Meet EPA Scientist Heriberto Cabezas, Ph.D.

    EPA Pesticide Factsheets

    Heriberto Cabezas, Ph.D. is currently the Senior Science Advisor to the Sustainable Technology Division in EPA's National Risk Management Research Lab, where he works to advance the application of science and technologies to address sustainability.

  10. Meet EPA Microbiologist Eric Villegas, Ph.D.

    EPA Pesticide Factsheets

    Eric Villegas, Ph.D. is a research microbiologist in EPA's Office of Research and Development. His recent work focuses on next generation sequencing technology to better understand risks associated with waterborne parasites.

  11. Brenda K. Edwards, PhD | DCCPS/NCI/NIH

    Cancer.gov

    Brenda K. Edwards, PhD, has been with the Surveillance Research Program (SRP) and its predecessor organizations at the National Cancer Institute (NCI) since 1989, serving as SRP’s Associate Director from 1990-2011.

  12. Meet EPA Biologist Laura Jackson, Ph.D.

    EPA Pesticide Factsheets

    Research Biologist Laura Jackson, Ph.D., has worked for the EPA for 22 years, leading research initiatives in a diversity of disciplines, including environmental monitoring, land use planning, and the impacts that urbanization has on an area's ecology

  13. Meet EPA Natural Resource Economist Marisa Mazzotta, Ph.D.

    EPA Pesticide Factsheets

    Marisa Mazzotta, Ph.D. currently works as an Economist at EPA's Atlantic Ecology Division. Her research focuses on the public's valuation and prioritization of natural resources, and the relationship between ecological changes and economic benefits.

  14. Meet EPA Scientist Susan Yee, Ph.D.

    EPA Pesticide Factsheets

    Susan Yee, Ph.D., is an ecologist at EPA's Gulf Ecology Division. She is working on the Puerto Rico Sustainable Communities program, developing decision support tools to evaluate how alternative decisions impact coastal ecosystem goods and services

  15. Meet EPA Scientist Jordan West, Ph.D.

    EPA Pesticide Factsheets

    Jordan West, Ph.D. is an aquatic ecologist at EPA. Her areas of expertise include freshwater & marine ecology, climate change impacts and adaptation, resilience and threshold theory, environmental risk assessment, expert elicitation & stakeholder processes

  16. Meet EPA Biologist Mitch Kostich, Ph.D.

    EPA Pesticide Factsheets

    EPA biologist, Mitch Kostich, Ph.D., conducts research to identify risks from exposures to chemical contaminants in water. His research uses technologies to prioritize contaminants in the environment based on the potential risks they pose to life

  17. Meet EPA Scientist Tim Shafer, Ph.D.

    EPA Pesticide Factsheets

    Tim Shafer earned his bachelor’s degree in biology and chemistry from Hope College in Holland, MI, in 1986 and his Ph.D. in pharmacology and environmental toxicology from Michigan State University in 1991.

  18. Meet EPA Chemist Quincy Teng, Ph.D.

    EPA Pesticide Factsheets

    EPA research chemist Quincy Teng, Ph.D., focuses on the application of metabolomics—a relatively new, specialized field of biochemistry focused on studying small molecules known as metabolites—on environmental and life sciences.

  19. Ashley Felix, Ph.D., M.P.H.

    Cancer.gov

    NCI Cancer Prevention Fellowship Program (CPFP) alumna, Ashley Felix, Ph.D., M.P.H., details her transition from pre-med student to an epidemiologist who focuses on studying the causes and prevention of disease.

  20. Meet EPA Environmental Engineer Terra Haxton, Ph.D.

    EPA Pesticide Factsheets

    EPA Environmental Engineer Terra Haxton, Ph.D., uses computer simulation models to protect drinking water. She investigates approaches to help water utilities be better prepared to respond to contamination incidents in their distribution systems.

  1. Meet EPA Scientist Dermont Bouchard, Ph.D.

    EPA Pesticide Factsheets

    EPA Scientist Dermont Bouchard, Ph.D., is working to better understand how tiny nanomaterials might be released into the environment. His research helps regulators and other decision-makers lower risks and better protect human health and the environment

  2. Meet EPA Scientist Valerie Zartarian, Ph.D.

    EPA Pesticide Factsheets

    Senior exposure scientist and research environmental engineer Valerie Zartarian, Ph.D. helps build computer models and other tools that advance our understanding of how people interact with chemicals.

  3. Meet EPA Scientist Jody Shoemaker, Ph.D.

    EPA Pesticide Factsheets

    EPA research chemist Jody Shoemaker, Ph.D., works to support Agency efforts to protect drinking water. She helps develop methods for analyzing organic chemicals on the Drinking Water Contaminant Candidate List (CCL).

  4. Meet EPA Engineer Shawn Ryan, Ph.D.

    EPA Pesticide Factsheets

    Shawn Ryan, Ph.D. is a chemical engineer at EPA's National Homeland Security Research Center. He has worked at EPA for 12 years, nine of which have been devoted to leading research to support decontamination and consequence management.

  5. Meet EPA Chemist Linda Sheldon, Ph.D.

    EPA Pesticide Factsheets

    Environmental chemist Linda Sheldon, Ph.D, is the Associate Director for Human Heath in the National Exposure Research Laboratory. She studies environmental exposure, particularly focusing on children's environments and their contact with chemicals.

  6. Meet EPA Scientist Jeff Szabo, Ph.D.

    EPA Pesticide Factsheets

    EPA scientist Jeff Szabo, Ph.D., has worked for the EPA’s National Homeland Security Research Center since 2005. He conducts and manages water security research projects at EPA’s Test and Evaluation facility.

  7. Meet EPA Scientist Blake Schaeffer, Ph.D.

    EPA Pesticide Factsheets

    EPA research ecologist Blake Schaeffer, Ph.D. focuses on ways to use satellite remote sensing technology to monitor water quality. His research interests broadly include deriving water quality parameters in coasts, estuaries, and lakes using satellites

  8. Meet EPA Scientist Michael Nye, Ph.D.

    EPA Pesticide Factsheets

    Michael Nye, Ph.D., is a social scientist who studies natural risk, socio-demographic change and sustainable behavior. Prior to joining EPA, he worked for the UK Environment Agency in flood risk management and emergency preparedness

  9. NMR Structure Note: PHD Domain from Human SHPRH

    PubMed Central

    Machado, Luciana E. F.; Pustovalova, Yulia; Kile, Andrew C.; Pozhidaeva, Alexandra; Cimprich, Karlene A.; Almeida, Fabio C. L.; Bezsonova, Irina; Korzhnev, Dmitry M.

    2013-01-01

    SHPRH (SNF2, histone linker, PHD, RING, helicase) is a SWI2/SNF2-family ATP-dependent chromatin remodeling factor, and one of E3 ubiquitin ligases responsible for Ubc13-Mms2-dependent K63 poly-ubiquitination of PCNA (proliferating cell nuclear antigen) that promotes error-free DNA damage tolerance in eukaryotes. In contrast to its functional homologues, S. cerevisiae Rad5 and human HLTF (helicase like transcription factor), SHPRH contains a PHD (plant homeodomain) finger embedded in the ‘minor’ insert region of the core helicase-like domain. PHD fingers are often found in proteins involved in chromatin remodeling and transcription regulation, and are generally considered as ‘readers’ of methylation state of histone tails, primarily the lysine 4 (K4) residue of histone H3 (H3K4). Here we report the solution NMR structure of the SHPRH PHD domain and investigate whether this domain is capable of recognizing H3K4 modifications. The domain adopts a canonical PHD-finger fold with a central two-stranded anti-parallel β-sheet flanked on both sides by the two interleaved zinc-binding sites. Despite the presence of a subset of aromatic residues characteristic for PHD-fingers that preferentially bind methylated H3K4, NMR titration experiments reveal that SHPRH PHD does not specifically interact with the H3-derived peptides irrespective of K4 methylation. This result suggests that the SHPRH PHD domain might have evolved a different function other than recognizing histone modifications. PMID:23907177

  10. The PhD in Writing Accompanied by an Exegesis

    ERIC Educational Resources Information Center

    Arnold, Josie

    2005-01-01

    The position of this paper is to further the discussion on what constitutes academic assessment in the PhD by artefact and exegesis. In doing so, it explores some of the ideas that arose in setting up the PhD in creative writing at Swinburne University of Technology. Thus, I: (1) survey some of the questions that arise about the journeys made by…

  11. Structural insight into histone recognition by the ING PHD fingers.

    PubMed

    Champagne, Karen S; Kutateladze, Tatiana G

    2009-05-01

    The Inhibitor of Growth (ING) tumor suppressors are implicated in oncogenesis, control of DNA damage repair, cellular senescence and apoptosis. All members of the ING family contain unique amino-terminal regions and a carboxy-terminal plant homeodomain (PHD) finger. While the amino-terminal domains associate with a number of protein effectors including distinct components of histone deacetylase (HDAC) and histone acetyltransferase (HAT) complexes, the PHD finger binds strongly and specifically to histone H3 trimethylated at lysine 4 (H3K4me3). In this review we describe the molecular mechanism of H3K4me3 recognition by the ING1-5 PHD fingers, analyze the determinants of the histone specificity and compare the biological activities and structures within subsets of PHD fingers. The atomic-resolution structures of the ING PHD fingers in complex with a H3K4me3 peptide reveal that the histone tail is bound in a large and deep binding site encompassing nearly one-third of the protein surface. An extensive network of intermolecular hydrogen bonds, hydrophobic and cation-pi contacts, and complementary surface interactions coordinate the first six residues of the H3K4me3 peptide. The trimethylated Lys4 occupies an elongated groove, formed by the highly conserved aromatic and hydrophobic residues of the PHD finger, whereas the adjacent groove accommodates Arg2. The two grooves are connected by a narrow channel, the small size of which defines the PHD finger's specificity, excluding interactions with other modified histone peptides. Binding of the ING PHD fingers to H3K4me3 plays a critical role in regulating chromatin acetylation. The ING proteins function as tethering molecules that physically link the HDAC and HAT enzymatic complexes to chromatin. In this review we also highlight progress recently made in understanding the molecular basis underlying biological and tumorigenic activities of the ING tumor suppressors.

  12. Cardiopulmonary phenotype associated with human PHD2 mutation.

    PubMed

    Talbot, Nick P; Smith, Thomas G; Balanos, George M; Dorrington, Keith L; Maxwell, Patrick H; Robbins, Peter A

    2017-04-01

    Oxygen-dependent regulation of the erythropoietin gene is mediated by the hypoxia-inducible factor (HIF) family of transcription factors. When oxygen is plentiful, HIF undergoes hydroxylation by a family of oxygen-dependent prolyl hydroxylase domain (PHD) proteins, promoting its association with the von Hippel-Lindau (VHL) ubiquitin E3 ligase and subsequent proteosomal degradation. When oxygen is scarce, the PHD enzymes are inactivated, leading to HIF accumulation and upregulation not only of erythropoietin expression, but also the expression of hundreds of other genes, including those coordinating cardiovascular and ventilatory adaptation to hypoxia. Nevertheless, despite the identification of over 50 mutations in the PHD-HIF-VHL pathway in patients with previously unexplained congenital erythrocytosis, there are very few reports of associated cardiopulmonary abnormalities. We now report exaggerated pulmonary vascular and ventilatory responses to acute hypoxia in a 35-year-old man with erythrocytosis secondary to heterozygous mutation in PHD2, the most abundant of the PHD isoforms. We compare this phenotype with that reported in patients with the archetypal disorder of cellular oxygen sensing, Chuvash polycythemia, and discuss the possible clinical implications of our findings, particularly in the light of the emerging role for small molecule PHD inhibitors in clinical practice.

  13. Correction of patient results for Beckman Coulter LX-20 assays affected by interference due to hemoglobin, bilirubin or lipids: a practical approach.

    PubMed

    Vermeer, Henricus J; Steen, Gerard; Naus, André J M; Goevaerts, Berrie; Agricola, Pauline T; Schoenmakers, Christian H H

    2007-01-01

    The influence of interference by hemolysis, icterus and lipemia on the results of routine chemistries may lead to wrong interpretations. On Synchron LX-20 instruments (Beckman Coulter) serum or plasma indices can be used as reliable semi-quantitative measures of the magnitude of such interference. In an article recently published in this journal, we presented the results of a multicenter study carried out in Dutch hospitals in which we determined cutoff indices for analytes above which analytically significant interference exists. Clinically significant interference cutoff indices were also derived for these analytes. In this article, we describe the handling of patient samples with clinically significant interference by hemolysis, icterus or lipemia. We investigated several possible approaches for correction of the result: dilution of the interference; mathematical correction in the case of hemolysis; treatment with ferrocyanide to destroy bilirubin; and removal of lipids in lipemic patient samples. We concluded, that mathematical correction of potassium or lactate dehydrogenase results in hemolytic samples can only be carried out if intravascular hemolysis is ruled out. Hemoglobin quantification in serial patient samples, combined with measurement of haptoglobin, represents a useful tool to rule out in vivo hemolysis. We derived an algorithm for this situation. We do not simply recommend mathematical correction, unless it is clinically acceptable. We present formulas for potassium and lactate dehydrogenase: corrected potassium=measured potassium-(hemolytic index increment x 0.14); corrected lactate dehydrogenase=measured lactate dehydrogenase-(hemolytic index increment x 75). The dilution studies indicated that dilution is only applicable for bilirubin, C-reactive protein and iron. The results of treatment with ferrocyanide were poor, and we do not recommend this method. Removal of lipids using high-speed centrifugation or LipoClear (StatSpin Inc.), a non

  14. The Production Rate and Employment of Ph.D. Astronomers

    NASA Astrophysics Data System (ADS)

    Metcalfe, Travis S.

    2008-02-01

    In an effort to encourage self-regulation of the astronomy job market, I examine the supply of, and demand for, astronomers over time. On the supply side, I document the production rate of Ph.D. astronomers from 1970 to 2006 using the UMI Dissertation Abstracts database, along with data from other independent sources. I compare the long-term trends in Ph.D. production with federal astronomy research funding over the same time period, and I demonstrate that additional funding is correlated with higher subsequent Ph.D. production. On the demand side, I monitor the changing patterns of employment using statistics about the number and types of jobs advertised in the AAS Job Register from 1984 to 2006. Finally, I assess the sustainability of the job market by normalizing this demand by the annual Ph.D. production. The most recent data suggest that there are now annual advertisements for about one postdoctoral job, half a faculty job, and half a research/support position for every new domestic Ph.D. recipient in astronomy and astrophysics. The average new astronomer might expect to hold up to 3 jobs before finding a steady position.

  15. Cubature Information SMC-PHD for Multi-Target Tracking.

    PubMed

    Liu, Zhe; Wang, Zulin; Xu, Mai

    2016-05-09

    In multi-target tracking, the key problem lies in estimating the number and states of individual targets, in which the challenge is the time-varying multi-target numbers and states. Recently, several multi-target tracking approaches, based on the sequential Monte Carlo probability hypothesis density (SMC-PHD) filter, have been presented to solve such a problem. However, most of these approaches select the transition density as the importance sampling (IS) function, which is inefficient in a nonlinear scenario. To enhance the performance of the conventional SMC-PHD filter, we propose in this paper two approaches using the cubature information filter (CIF) for multi-target tracking. More specifically, we first apply the posterior intensity as the IS function. Then, we propose to utilize the CIF algorithm with a gating method to calculate the IS function, namely CISMC-PHD approach. Meanwhile, a fast implementation of the CISMC-PHD approach is proposed, which clusters the particles into several groups according to the Gaussian mixture components. With the constructed components, the IS function is approximated instead of particles. As a result, the computational complexity of the CISMC-PHD approach can be significantly reduced. The simulation results demonstrate the effectiveness of our approaches.

  16. Dido3 PHD Modulates Cell Differentiation and Division

    PubMed Central

    Gatchalian, Jovylyn; Fütterer, Agnes; Rothbart, Scott B.; Tong, Qiong; Rincon-Arano, Hector; de Diego, Ainhoa Sánchez; Groudine, Mark; Strahl, Brian D.; Martínez-A, Carlos; van Wely, Karel H.M.; Kutateladze, Tatiana G.

    2014-01-01

    SUMMARY Death Inducer Obliterator 3 (Dido3) is implicated in the maintenance of stem cell genomic stability and tumorigenesis. Here, we show that Dido3 regulates the expression of stemness genes in embryonic stem cells through its plant homeodomain (PHD) finger. Binding of Dido3 PHD to histone H3K4me3 is disrupted by threonine phosphorylation that triggers Dido3 translocation from chromatin to the mitotic spindle. The crystal structure of Dido3 PHD in complex with H3K4me3 reveals an atypical aromatic-cage-like binding site that contains a histidine residue. Biochemical, structural, and mutational analyses of the binding mechanism identified the determinants of specificity and affinity and explained the inability of homologous PHF3 to bind H3K4me3. Together, our findings reveal a link between the transcriptional control in embryonic development and regulation of cell division. PMID:23831028

  17. The Training and Work of Ph.D. Physical Scientists

    NASA Astrophysics Data System (ADS)

    Smith, S. J.; Schweitzer, A. E.

    2003-05-01

    Doctoral education has often been viewed as the pinnacle of the formal education system. How useful is doctoral training in one's later career? In an NSF-funded project, we set out to perform a study of the training, careers, and work activities of Ph.D. physical scientists. The study included both in-depth interviews and a survey sent out to a sample of Ph.D. holders 4-8 years after graduation. Come and find out the results of this study: What skills are most Ph.D. physical scientists using? What should graduate programs be teaching? Are Ph.D.'s who are working in their specific field of training happier than their counterparts working different jobs? What skills and preparation lead to future job satisfaction, perhaps the most important indicator of the "success" of graduate education? A preprint and further details can be found at the project web site at: spot.colorado.edu/ phdcarer.

  18. An analysis of Ph.D. examiners' reports in engineering

    NASA Astrophysics Data System (ADS)

    Prieto, Elena; Holbrook, Allyson; Bourke, Sid

    2016-03-01

    In recent years, there have been increasing calls for an overall transformation of the nature of engineering Ph.D. programs and the way theses are assessed. There exists a need to understand the examination process to ensure the best quality outcome for candidates in engineering. The work we present in this paper uses data collected between 2003 and 2010 for a total of 1220 Australian Ph.D. theses by analysing examiner reports. Our analysis indicates that Ph.D. theses in engineering, N = 106, differ considerably from those in other fields in areas such as gender of candidates and examiners and the examiners' geographical location. We also found that assessment areas such as significance and contribution of the thesis, publications arising from the thesis, breadth, depth and recency of the literature review and communication and editorial correctness are areas in which the proportion of text of engineering examiners' comments differs significantly from other fields.

  19. Mid-Career PhD Physicists: Academia & Beyond

    NASA Astrophysics Data System (ADS)

    White, Susan

    2017-01-01

    What jobs do mid-career PhD physicists hold? In a first-ever study, we collected data in 2011 from over 1,500 physics PhD recipients from the classes of 1996, 1997, 2000, and 2001. About 45% of the physics PhD recipients in these classes immediately took jobs that were not temporary, and over 40% accepted postdocs. How does taking a postdoc affect mid-career employment? What is the relationship between first job (after any postdocs) and mid-career employment? How do physicists' actual jobs compare with what they thought they would be doing when they graduated? Using our initial employment and mid-career data, I will answer these questions and more.

  20. Harvard College Observatory: Shapley's Factory for PhD Degrees?

    NASA Astrophysics Data System (ADS)

    Welther, B. L.

    2000-12-01

    When Harlow Shapley assumed the Directorship of Harvard College Observatory in 1921, there was no program in place there to train the next generation of astronomers. In 1923, using the Pickering Fund for women assistants, Shapley hired a young English woman, Cecilia Payne, to work on stellar spectra. Just two short years later, Payne completed her research and wrote a celebrated thesis on stellar atmospheres. Because Harvard University was not prepared to confer a PhD degree on a woman at that time, Payne presented her thesis to Radcliffe College. Thus, in 1925 she became the first person to receive a PhD in astronomy for a research project at HCO. By 1933, a PhD in Astronomy had been conferred on eight graduate students who had undertaken research projects at HCO: four men who received their degree from Harvard, and four women, from Radcliffe. In subsequent years, however, the equal distribution of degrees for men and women quickly changed. When the 30th degree was bestowed in 1943, only 10 of the candidates were women. By 1955, when the 60th degree was conferred, only 14 women had received a PhD. In just two decades, then, the ratio of women astronomers had steadily dropped from a solid 50% at the height of the Shapley era to slightly less than 25% at his retirement. Also, until the mid-1960s, the women astronomers still had to apply to Radcliffe for their PhD degrees. This paper will briefly examine the funding and research topics of some of the HCO PhD candidates in the Shapley Era (1921-1955). It will also highlight some of their subsequent contributions to 20th-century American Astronomy.

  1. The Ph.D. Surplus - Realities and Illusions.

    ERIC Educational Resources Information Center

    Hansen, Harold P.

    Every 6 years the number of Ph.D.'s produced doubles. At this point about 1 percent of the babies born 27 years ago gets a Ph.D. This production rate will probably increase to 6 percent of the adult population. With the present situation in higher education, which includes an average retirement after 40 years of service, the supply already…

  2. Meet EPA Ecologist Michael Murrell, Ph.D.

    EPA Pesticide Factsheets

    Michael Murrel, Ph.D., is a EPA research ecologist working on the Gulf of Mexico Hypoxia Project, helping develop models of the northern Gulf to quantify the links between freshwater flowing into the Gulf from the land, nutrients, and hypoxia—“dead zones”

  3. Promoting Creativity in PhD Supervision: Tensions and Dilemmas

    ERIC Educational Resources Information Center

    Whitelock, Denise; Faulkner, Dorothy; Miell, Dorothy

    2008-01-01

    In this paper we argue that the processes of collaborative creativity are just as important within the sociocultural context of PhD supervisory practice, as they are in other organizational and educational settings. In order to test this claim a series of interviews with supervisors and students were undertaken to uncover the pedagogic processes…

  4. Vance Berger, PhD | Division of Cancer Prevention

    Cancer.gov

    Dr. Vance Berger completed his PhD in statistics at Rutgers University in 1995, and then began working at the FDA. This is where he developed his research focus on biases and threats to the validity of medical studies, especially clinical trials. In 1999, Dr. Berger joined the NCI, and has remained ever since. |

  5. Measures for Ph.D. Evaluation: The Recruitment Process

    ERIC Educational Resources Information Center

    D'Agostino, Antonella; Fruzzetti, Stefania; Ghellini, Giulio; Neri, Laura

    2011-01-01

    In the last years the quality of Higher Education (HE) system and its evaluation have been key issues of the political and scientific debate on education policies all over Europe. In the wide landscape that involves the entire HE system we draw attention on the third level of its organization, i.e. the Ph.D. In particular, this paper discusses the…

  6. The PhD Project: How Successful Is It?

    ERIC Educational Resources Information Center

    Schwartz, Bill N.; Williams, Satina V.; Walden, W. Darrell

    2011-01-01

    The PhD Project's mission to diversify the work force by increasing the diversity of business school faculty is quite admirable, but is the Project successful? To gather insights toward responding to that question and to offer suggestions, we reviewed three of the Project's objectives that relate most closely to minority doctoral students and…

  7. Online Ph.D. Program Delivery Models and Student Success

    ERIC Educational Resources Information Center

    Jorissen, Shari L.; Keen, James P.; Riedel, Eric S.

    2015-01-01

    The purpose of this study was to provide information to an online university that offers Ph.D. programs in three formats: knowledge area modules (or KAM, a type of faculty-led, self-directed doctoral study), course-based model, and mixed model (a combination of the KAM and course-based models). The investigators sought to determine why students…

  8. PHD2 regulates arteriogenic macrophages through TIE2 signalling

    PubMed Central

    Hamm, Alexander; Veschini, Lorenzo; Takeda, Yukiji; Costa, Sandra; Delamarre, Estelle; Squadrito, Mario Leonardo; Henze, Anne-Theres; Wenes, Mathias; Serneels, Jens; Pucci, Ferdinando; Roncal, Carmen; Anisimov, Andrey; Alitalo, Kari; De Palma, Michele; Mazzone, Massimiliano

    2013-01-01

    Occlusion of the main arterial route redirects blood flow to the collateral circulation. We previously reported that macrophages genetically modified to express low levels of prolyl hydroxylase domain protein 2 (PHD2) display an arteriogenic phenotype, which promotes the formation of collateral vessels and protects the skeletal muscle from ischaemic necrosis. However, the molecular mechanisms underlying this process are unknown. Here, we demonstrate that femoral artery occlusion induces a switch in macrophage phenotype through angiopoietin-1 (ANG1)-mediated Phd2 repression. ANG blockade by a soluble trap prevented the downregulation of Phd2 expression in macrophages and their phenotypic switch, thus inhibiting collateral growth. ANG1-dependent Phd2 repression initiated a feed-forward loop mediated by the induction of the ANG receptor TIE2 in macrophages. Gene silencing and cell depletion strategies demonstrate that TIE2 induction in macrophages is required to promote their proarteriogenic functions, enabling collateral vessel formation following arterial obstruction. These results indicate an indispensable role for TIE2 in sustaining in situ programming of macrophages to a proarteriogenic, M2-like phenotype, suggesting possible new venues for the treatment of ischaemic disorders. PMID:23616286

  9. Gender Differences in Research Patterns among PhD Economists

    ERIC Educational Resources Information Center

    Barbezat, Debra A.

    2006-01-01

    This study is based on a 1996 survey of PhD economists working in the academic and nonacademic sectors since 1989. Despite a raw gender difference in all types of research output, the male dummy variable proves statistically significant in predicting only one publication measure. In a full sample and faculty subsample, number of years since…

  10. The Production Rate and Employment of Ph.D. Astronomers

    NASA Astrophysics Data System (ADS)

    Metcalfe, Travis S.

    2007-05-01

    As in many sciences, the production rate of new Ph.D. astronomers is decoupled from the global demand for trained scientists. As noted by Thronson (1991, PASP, 103, 90), overproduction appears to be built into the system, making the mathematical formulation of surplus astronomer production similar to that for industrial pollution models -- an unintended side effect of the process. Following Harris (1994, ASP Conf., 57, 12), I document the production of Ph.D. astronomers from 1990 to 2005 using the online Dissertation Abstracts database. To monitor the changing patterns of employment, I examine the number of postdoctoral, tenure-track, and other jobs advertised in the AAS Job Register during this same period. Although the current situation is clearly unsustainable, it was much worse a decade ago with nearly 7 new Ph.D. astronomers in 1995 for every new tenure-track job. While the number of new permanent positions steadily increased throughout the late 1990's, the number of new Ph.D. recipients gradually declined. After the turn of the century, the production of new astronomers leveled off, but new postdoctoral positions grew dramatically. There has also been recent growth in the number of non-tenure-track lecturer, research, and support positions. This is just one example of a larger cultural shift to temporary employment that is happening throughout society -- it is not unique to astronomy.

  11. How Broad Liberal Arts Training Produces Phd Economists: Carleton's Story

    ERIC Educational Resources Information Center

    Bourne, Jenny; Grawe, Nathan D.

    2015-01-01

    Several recent studies point to strong performance in economics PhD programs of graduates from liberal arts colleges. While every undergraduate program is unique and the likelihood of selection bias combines with small sample sizes to caution against drawing strong conclusions, the authors reflect on their experience at Carleton College to…

  12. Karl Krueger, PhD | Division of Cancer Prevention

    Cancer.gov

    Dr. Karl Krueger received a PhD in biochemistry from Vanderbilt University and continued his research training at NIH as a postdoctoral fellow before joining the faculty at Georgetown University School of Medicine. His research throughout this period focused on different aspects of drug receptors and their role in the nervous system. |

  13. Richard Mazurchuk, PhD | Division of Cancer Prevention

    Cancer.gov

    Dr. Richard Mazurchuk received a BS in Physics and MS and PhD in Biophysics from SUNY Buffalo. His research focused on developing novel multi-modality imaging techniques, contrast (enhancing) agents and methods to assess the efficacy of experimental therapeutics. |

  14. An Analysis of Ph.D. Examiners' Reports in Engineering

    ERIC Educational Resources Information Center

    Prieto, Elena; Holbrook, Allyson; Bourke, Sid

    2016-01-01

    In recent years, there have been increasing calls for an overall transformation of the nature of engineering Ph.D. programs and the way theses are assessed. There exists a need to understand the examination process to ensure the best quality outcome for candidates in engineering. The work we present in this paper uses data collected between 2003…

  15. Christos Patriotis, PhD | Division of Cancer Prevention

    Cancer.gov

    Dr. Christos Patriotis obtained his MSc in Biochemistry from the University of Sofia, Bulgaria in 1985 and his PhD in Molecular Biology from the Bulgarian Academy of Sciences in 1990. Postdoctoral training focused on signal transduction and tumor cell biology. |

  16. Robert Shoemaker, PhD | Division of Cancer Prevention

    Cancer.gov

    Dr. Robert Shoemaker obtained his PhD in human genetics from the Graduate School of Public Health of the University of Pittsburgh in 1975. Following postdoctoral experience at the Armed Forces Institute of Pathology he moved to the Children's Hospital Medical Center of Akron. His research on pediatric tumors led to an interest in the genetics of drug resistance and new drug discovery. |

  17. Asad Umar, DVM, PhD | Division of Cancer Prevention

    Cancer.gov

    Dr. Asad Umar received his PhD in Biochemistry and Immunology at the Johns Hopkins University in Baltimore, MD, in 1993. He conducted his postdoctoral training in the laboratories of Patricia Gearhart in Baltimore, MD and Thomas Kunkel at the National Institutes of Environmental Health Sciences in Research Triangle Park, NC. Dr. |

  18. Peer Mentorship and Transformational Learning: PhD Student Experiences

    ERIC Educational Resources Information Center

    Preston, Jane P.; Ogenchuk, Marcella J.; Nsiah, Joseph K.

    2014-01-01

    The purpose of the paper is to describe our peer mentorship experiences and explain how these experiences fostered transformational learning during our PhD graduate program in educational administration. As a literature backdrop, we discuss characteristics of traditional forms of mentorship and depict how our experiences of peer mentorship was…

  19. Supervising the PhD: A Guide to Success.

    ERIC Educational Resources Information Center

    Delamont, Sara; Atkinson, Paul; Parry, Odette

    This handbook is a practical guide for the novice and experienced supervisor of Ph.D. students focusing on the British system. The book is organized to follow the progress of a student from starting out to a career after the viva voce examination. The chapters are: (1) "A Most Persuasive Piece of Argument"; (2) "Caught and Held by a…

  20. International PhD Students in Australian Universities: Financial Support, Course Experience and Career Plans

    ERIC Educational Resources Information Center

    Harman, G.

    2003-01-01

    Using data from a social survey of PhD students in two major Australian universities supplemented by student interviews, this article reports on the financial support, course experience and career plans of international PhD students. While most international PhD students hold scholarships which include stipends, a minority of students experience…

  1. Trust Me, I'm a Doctor: A PhD Survival Guide

    ERIC Educational Resources Information Center

    Deconinck, Koen

    2015-01-01

    So, you have decided to do a PhD … now what? In this essay, the author provides some advice for beginning PhD students, basically sharing what he would tell his younger self. Doing a PhD is a transformative experience, but the process is challenging, not merely on an intellectual level but also psychologically. To overcome these challenges, one…

  2. "A 'Problem' to Be Managed?" Completing a PhD in the Arts and Humanities

    ERIC Educational Resources Information Center

    Owler, Kathryn

    2010-01-01

    Driven largely by efficiency imperatives, many universities have come to adopt a managerialist approach to research over the last several years. University administrators have become actively concerned with the traditionally long times taken to complete a PhD and high attrition rates. Consequently, the PhD, and PhD students' experience of struggle…

  3. Undertaking Individual Transdisciplinary PhD Research for Sustainable Development: Case Studies from South Africa

    ERIC Educational Resources Information Center

    van Breda, John; Musango, Josephine; Brent, Alan

    2016-01-01

    Purpose: This paper aims to improve the understanding of individual transdisciplinary PhD research in a developing country context, focusing on three individual PhD case studies in South Africa. Design/Methodology/Approach: Multiple-case method was used, and three completed transdisciplinary PhD research efforts undertaken at the Stellenbosch…

  4. Solution structure of an atypical PHD finger in BRPF2 and its interaction with DNA.

    PubMed

    Liu, Lei; Qin, Su; Zhang, Jiahai; Ji, Peng; Shi, Yunyu; Wu, Jihui

    2012-10-01

    Plant homeodomain (PHD) finger is found to be a versatile reader that functions in recruiting transcription factors and chromatin modification complexes. Bromodomain- and PHD finger-containing (BRPF) proteins are identified as scaffold component in a couple of histone acetyltransferase (HATs) complexes but the biological function of PHD fingers, composing the motif called PZPM (PHD/Zn-knuckle/PHD Motif), in BRPF proteins is far from being well understood. Here we report the three-dimensional solution structure of the second PHD finger of PZPM in human BRPF2. According to the structure, BRPF2 PHD2 possesses a two-strand β sheet which is different from any other PHD fingers. Functionally, this PHD finger can potentially bind DNA non-specifically with an evolutionarily conserved and positively charged surface. We provide the structural and interaction information of this atypical PHD finger and categorize this BRPF2 PHD2 into a new subset of PHD finger. Moreover our work also shed light on the functional aspect of the PZPM.

  5. Developing Discourses of Knowledge and Understanding: Longitudinal Studies of Ph.D. Supervision

    ERIC Educational Resources Information Center

    Kandiko, Camille B.; Kinchin, Ian M.

    2013-01-01

    Competing notions of what a Ph.D. has been, is and should be are undercurrents in doctoral education. A longitudinal study of Ph.D. supervision based on interviews and concept mapping was used to surface understandings of the purpose of a Ph.D. This research tracks change over time for both the student and the supervisor. The data were analysed…

  6. Postgraduate research training: the PhD and MD thesis.

    PubMed

    Higginson, I; Corner, J

    1996-04-01

    Higher research degrees, such as the PhD, MPhil and MD, have existed within universities for 80 years or more, although the differences between the MD and PhD remain confused. A higher research degree training provides individuals with greater research knowledge and skills, and benefits the specialty. Concern exists about the levels of supervision sometimes provided, failure to complete degrees, and the variable levels of research knowledge and skills attained. We propose that higher research degrees in palliative care have four functions: extending personal scholarship, generating knowledge, training for the individual and contributing to the growth of the specialty. Such an approach may include: a formalised first year with taught components such as in research MSc programmes, formal supervision and progress assessment. In palliative care, clinical and academic approaches need greater integration. Multiprofessional learning is essential. To allow individuals to undertake higher research degree programmes, fellowships or specific funding are needed.

  7. Lynn Sorbara, PhD | Division of Cancer Prevention

    Cancer.gov

    Dr. Lynn Sorbara earned her PhD from Albert Einstein College of Medicine in 1986. Her thesis research was in the areas of the mechanism of action of the drug, Taxol, and of multidrug resistance. After postdoctoral fellowships at the Rockefeller University and the Mount Sinai College of Medicine in Manhattan, she came to the NIH as a Senior Staff Fellow in the Diabetes Branch of NIDDK. |

  8. Vernon Steele, PhD, MPH | Division of Cancer Prevention

    Cancer.gov

    Dr. Vernon Steele is a Program Director and Group Leader for the Chemoprevention Agent Development Research Group in the NCI Division of Cancer Prevention. He earned his MS and PhD degrees in Radiation Biology at the University of Rochester in 1975 studying radiation effects on cell differentiation. He recently received his Masters of Public Health degree from Johns Hopkins University focusing on environmental toxicology. |

  9. Young Kim, PhD | Division of Cancer Prevention

    Cancer.gov

    Young S Kim, PhD, joined the Division of Cancer Prevention at the National Cancer Institute in 1998 as a Program Director who oversees and monitors NCI grants in the area of Nutrition and Cancer. She serves as an expert in nutrition, molecular biology, and genomics as they relate to cancer prevention. Dr. Kim assists with research initiatives that will advance nutritional science and lead to human health benefits. |

  10. Iranian PhD student wins human-rights prize

    NASA Astrophysics Data System (ADS)

    Cartwright, Jon

    2013-11-01

    A physicist imprisoned in Iran while on a break from his PhD studies in the US has been awarded a human-rights prize. Omid Kokabee, who had been based at the University of Texas in Austin, has been given the Andrei Sakharov Prize from the American Physical Society (APS) for "his courage in refusing to use his physics knowledge to work on projects that he deemed harmful to humanity, in the face of extreme physical and psychological pressure".

  11. The Research Doctorate in Nursing: The PhD.

    PubMed

    Rice, David

    2016-03-01

    When nurses are considering an advanced degree beyond the master's level of educational preparation, a number of considerations may direct the decision-making process. The doctorate of philosophy (PhD) in nursing is a research degree that will well serve nurses who have the desire to apply theory and develop formal programs of research, become faculty of nursing, combine clinical practice with formal research, and advance through professional leadership in the ranks of hospitals and health systems organizations. 
.

  12. Hala Azzam, PhD, MPH | Division of Cancer Prevention

    Cancer.gov

    Dr. Hala Azzam is a Cancer Epidemiologist in the Cancer Prevention Fellowship Program (CPFP) in the Division of Cancer Prevention within the National Cancer Institute. She received her Bachelor's degree in molecular biology from Kings College London University, her PhD in anatomy and cell biology from Georgetown University Lombardi Cancer Center, and her MPH in epidemiology from Johns Hopkins University. She is also a CPFP alumna. |

  13. Interaction Gaps in PhD Education and ICT as a Way Forward: Results from a Study in Sweden

    ERIC Educational Resources Information Center

    Aghaee, Naghmeh; Jobe, William Byron; Karunaratne, Thashmee; Smedberg, Åsa; Hansson, Henrik; Tedre, Matti

    2016-01-01

    Many research studies have highlighted the low completion rate and slow progress in PhD education. Universities strive to improve throughput and quality in their PhD education programs. In this study, the perceived problems of PhD education are investigated from PhD students' points of view, and how an Information and Communication Technology…

  14. The Added Value of a PhD in Medicine--PhD Students' Perceptions of Acquired Competences

    ERIC Educational Resources Information Center

    Anttila, Henrika; Lindblom-Ylänne, Sari; Lonka, Kristi; Pyhältö, Kirsi

    2015-01-01

    PhD in the field of medicine is more common than in any other domain. Many medical doctors are driven towards PhD, but also students with other backgrounds (usually MSc) are conducting a PhD in medical schools. Higher education has invested a lot in developing generic and research competences. Still little is known about how PhD students…

  15. PHD3 Stabilizes the Tight Junction Protein Occludin and Protects Intestinal Epithelial Barrier Function*

    PubMed Central

    Chen, Ying; Zhang, Hai-Sheng; Fong, Guo-Hua; Xi, Qiu-Lei; Wu, Guo-Hao; Bai, Chen-Guang; Ling, Zhi-Qiang; Fan, Li; Xu, Yi-Ming; Qin, Yan-Qing; Yuan, Tang-Long; Sun, Heng; Fang, Jing

    2015-01-01

    Prolyl hydroxylase domain proteins (PHDs) control cellular adaptation to hypoxia. PHDs are found involved in inflammatory bowel disease (IBD); however, the exact role of PHD3, a member of the PHD family, in IBD remains unknown. We show here that PHD3 plays a critical role in maintaining intestinal epithelial barrier function. We found that genetic ablation of Phd3 in intestinal epithelial cells led to spontaneous colitis in mice. Deletion of PHD3 decreases the level of tight junction protein occludin, leading to a failure of intestinal epithelial barrier function. Further studies indicate that PHD3 stabilizes occludin by preventing the interaction between the E3 ligase Itch and occludin, in a hydroxylase-independent manner. Examination of biopsy of human ulcerative colitis patients indicates that PHD3 is decreased with disease severity, indicating that PHD3 down-regulation is associated with progression of this disease. We show that PHD3 protects intestinal epithelial barrier function and reveal a hydroxylase-independent function of PHD3 in stabilizing occludin. These findings may help open avenues for developing a therapeutic strategy for IBD. PMID:26124271

  16. The MEKK1 PHD ubiquitinates TAB1 to activate MAPKs in response to cytokines.

    PubMed

    Charlaftis, Nikolaos; Suddason, Tesha; Wu, Xuefeng; Anwar, Saba; Karin, Michael; Gallagher, Ewen

    2014-11-03

    Unlike the other MAP3Ks, MEKK1 (encoded by Map3k1) contains a PHD motif. To understand the role of this motif, we have created a knockin mutant of mouse Map3k1 (Map3k1(m) (PHD)) with an inactive PHD motif. Map3k1(m) (PHD) ES cells demonstrate that the MEKK1 PHD controls p38 and JNK activation during TGF-β, EGF and microtubule disruption signalling, but does not affect MAPK responses to hyperosmotic stress. Protein microarray profiling identified the adaptor TAB1 as a PHD substrate, and TGF-β- or EGF-stimulated Map3k1(m) (PHD) ES cells exhibit defective non-canonical ubiquitination of MEKK1 and TAB1. The MEKK1 PHD binds and mediates the transfer of Lys63-linked poly-Ub, using the conjugating enzyme UBE2N, onto TAB1 to regulate TAK1 and MAPK activation by TGF-β and EGF. Both the MEKK1 PHD and TAB1 are critical for ES-cell differentiation and tumourigenesis. Map3k1(m) (PHD) (/+) mice exhibit aberrant cardiac tissue, B-cell development, testis and T-cell signalling.

  17. Applied PhD Research in a Work-Based Environment: An Activity Theory-Based Analysis

    ERIC Educational Resources Information Center

    Granata, S. N.; Dochy, F.

    2016-01-01

    Activity theory is used to compare PhD undertaken at university, that is, academic PhD, with PhD performed in collaboration with industry, that is, semi-industrial PhD. The research is divided into a literature review and a case study. Semi-industrial and academic PhD are modelled as activity systems, and differences are highlighted in terms of…

  18. What Took Them So Long? Explaining PhD Delays among Doctoral Candidates

    PubMed Central

    van de Schoot, Rens; Yerkes, Mara A.; Mouw, Jolien M.; Sonneveld, Hans

    2013-01-01

    A delay in PhD completion, while likely undesirable for PhD candidates, can also be detrimental to universities if and when PhD delay leads to attrition/termination. Termination of the PhD trajectory can lead to individual stress, a loss of valuable time and resources invested in the candidate and can also mean a loss of competitive advantage. Using data from two studies of doctoral candidates in the Netherlands, we take a closer look at PhD duration and delay in doctoral completion. Specifically, we address the question: Is it possible to predict which PhD candidates will experience delays in the completion of their doctorate degree? If so, it might be possible to take steps to shorten or even prevent delay, thereby helping to enhance university competitiveness. Moreover, we discuss practical do's and don'ts for universities and graduate schools to minimize delays. PMID:23935895

  19. Pyrithione Zn selectively inhibits hypoxia-inducible factor prolyl hydroxylase PHD3.

    PubMed

    Na, Yu-Ran; Woo, Dustin J; Kim, So Yeon; Yang, Eun Gyeong

    2016-04-01

    Increasing evidence emphasizes the role of the hypoxia-inducible factor (HIF) prolyl hydroxylase (PHD) isoforms in regulating non-HIF substrates, but isoform selective PHD inhibitors under physiological conditions have not yet been reported. Here we have identified pyrithione Zn (PZ) as a potent, isoform-selective PHD3 inhibitor. The IC50 value of PZ was determined as 0.98 μM for PHD3, while it did not show any inhibitory activity toward full length and truncated PHD2 up to 1 mM. The selective efficacy of PZ was further demonstrated at the cellular level by observing inhibition of the PHD3-dependent DNA damage response pathway without stabilization of HIF-1α.

  20. What took them so long? Explaining PhD delays among doctoral candidates.

    PubMed

    van de Schoot, Rens; Yerkes, Mara A; Mouw, Jolien M; Sonneveld, Hans

    2013-01-01

    A delay in PhD completion, while likely undesirable for PhD candidates, can also be detrimental to universities if and when PhD delay leads to attrition/termination. Termination of the PhD trajectory can lead to individual stress, a loss of valuable time and resources invested in the candidate and can also mean a loss of competitive advantage. Using data from two studies of doctoral candidates in The Netherlands, we take a closer look at PhD duration and delay in doctoral completion. Specifically, we address the question: Is it possible to predict which PhD candidates will experience delays in the completion of their doctorate degree? If so, it might be possible to take steps to shorten or even prevent delay, thereby helping to enhance university competitiveness. Moreover, we discuss practical do's and don'ts for universities and graduate schools to minimize delays.

  1. MS PHD'S Professional Development Program: A Scientific Renaissance in Cyberspace

    NASA Astrophysics Data System (ADS)

    Powell, J. M.; Williamson, V. A.; Griess, C. A.; Pyrtle, A. J.

    2004-12-01

    This study is a component of a four-year investigation of MS PHD'S Professional Development Program's virtual community through the lenses of underrepresented minority students in Earth system science and engineering fields. In this presentation, the development, assessment and projected utilization of the ongoing study will be discussed. The overall goal of this study is to examine the effectiveness of virtual team building methods and understand how the development of a communal cyberinfrastructure acts as an integral part of the emergence of a Scientific Renaissance. The exemplar, Minorities Striving and Pursuing Higher Degrees of Success in Earth System Science (MS PHD'S), provides professional development experiences to facilitate the advancement of students of color achieving outstanding Earth system careers. Undergraduate and graduate students are supported through access to scientific conferences, mentorship and virtual community building. Framed by critical theory, this ethnographic exploration uses a mixed methods research design to record, observe, and analyze both the processes and products of the website, listserv and synchronous web-based dialogue. First, key findings of the formative evaluation and annual reports of the successfully implemented 2003 MS PHD'S Pilot Project are presented. These findings inform future evaluations of the use of technological resources and illustrate how this public space provides peer support and enriched research opportunities. Quantitative methods such as statistical analysis, academic and professional tracking and evaluative tools for scientific content and competency are complimented by qualitative methods that include observations, heuristic case studies and focus group interviews. The findings of this ongoing investigation will provide insight on how national organizations, higher education practitioners, community-based support systems and underrepresented minorities in the sciences promote diversity by developing

  2. Leonard F. Peltier, MD, PhD, 1920-2003.

    PubMed

    Reckling, Frederick W; Lo Vecchio, Janolyn G; Reckling, JoAnn B

    2004-05-01

    Leonard F. Peltier, MD, PhD, was an orthopaedic surgeon, academician, administrator, laboratory investigator, historian, and mentor. His career spanned nearly six decades, beginning with graduate education at the University of Minnesota (UM) under the auspices of Owen H. Wangensteen, MD, PhD. In addition to obtaining a PhD in physiology in the UM Graduate School, he completed general and orthopaedic surgery residencies and attained board certification in each specialty. He served in the US Army Occupation Force Medical Corps in Germany just after World War II. In 1957, at 37 years old, he assumed the chairmanship of the orthopaedic training program at the University of Kansas. In 1971, he couldn't resist the opportunity to become one of the founding members of the "start-up" University of Arizona College of Medicine, accepting an appointment as chair of the new orthopaedic training program, where he remained until his retirement in 1990. He took clinical problems to the laboratory, and made important scientific contributions, particularly in the area of fat embolism and in using calcium sulfate (plaster of Paris) to fill bone defects. He served on governing boards of national professional organizations and presided over the American Association for the Surgery of Trauma from 1980-1981. Throughout his career, he was fascinated by, and published extensively in, the history of medicine arena. Known fondly as "the professor" to many of his residents and colleagues, he had a pragmatic, honest, upbeat, and often humorous approach to life's challenges, valuing personal integrity above other virtues. He explored various eclectic interests far beyond his professional contributions while maintaining his family as a central priority. With his exemplary productivity and interests in the surgical and laboratory sciences, history of medicine, appreciation of fine arts, and perceptive and effective interactions with family, friends, patients, and colleagues, the memory of Leonard

  3. A Two-Level Structural Equation Model for Evaluating the External Effectiveness of PhD

    ERIC Educational Resources Information Center

    Chiandotto, Bruno; Masserini, Lucio

    2011-01-01

    In recent years the number of PhDs in Italy has significantly grown and purposes of PhD courses have expanded from the traditional ones. The analysis of the contribution of PhD title for job placement and employment condition of PhDs is an important tool for evaluating the quality and the effectiveness of PhD courses. For this reason, knowledge of…

  4. The Purpose of the PhD: Theorising the Skills Acquired by Students

    ERIC Educational Resources Information Center

    Mowbray, Susan; Halse, Christine

    2010-01-01

    In the past decade there has been a marked push for the development of employability skills to be part of the PhD process. This push is generally by stakeholders from above and outside the PhD process, i.e. government and industry, who view skills as a "summative product" of the PhD. In contrast, our study interviewed stakeholders inside…

  5. Macrophage skewing by Phd2 haplodeficiency prevents ischaemia by inducing arteriogenesis.

    PubMed

    Takeda, Yukiji; Costa, Sandra; Delamarre, Estelle; Roncal, Carmen; Leite de Oliveira, Rodrigo; Squadrito, Mario Leonardo; Finisguerra, Veronica; Deschoemaeker, Sofie; Bruyère, Françoise; Wenes, Mathias; Hamm, Alexander; Serneels, Jens; Magat, Julie; Bhattacharyya, Tapan; Anisimov, Andrey; Jordan, Benedicte F; Alitalo, Kari; Maxwell, Patrick; Gallez, Bernard; Zhuang, Zhen W; Saito, Yoshihiko; Simons, Michael; De Palma, Michele; Mazzone, Massimiliano

    2011-10-09

    PHD2 serves as an oxygen sensor that rescues blood supply by regulating vessel formation and shape in case of oxygen shortage. However, it is unknown whether PHD2 can influence arteriogenesis. Here we studied the role of PHD2 in collateral artery growth by using hindlimb ischaemia as a model, a process that compensates for the lack of blood flow in case of major arterial occlusion. We show that Phd2 (also known as Egln1) haplodeficient (Phd2(+/-)) mice displayed preformed collateral arteries that preserved limb perfusion and prevented tissue necrosis in ischaemia. Improved arteriogenesis in Phd2(+/-) mice was due to an expansion of tissue-resident, M2-like macrophages and their increased release of arteriogenic factors, leading to enhanced smooth muscle cell (SMC) recruitment and growth. Both chronic and acute deletion of one Phd2 allele in macrophages was sufficient to skew their polarization towards a pro-arteriogenic phenotype. Mechanistically, collateral vessel preconditioning relied on the activation of canonical NF-κB pathway in Phd2(+/-) macrophages. These results unravel how PHD2 regulates arteriogenesis and artery homeostasis by controlling a specific differentiation state in macrophages and suggest new treatment options for ischaemic disorders.

  6. AIRE-PHD fingers are structural hubs to maintain the integrity of chromatin-associated interactome.

    PubMed

    Gaetani, Massimiliano; Matafora, Vittoria; Saare, Mario; Spiliotopoulos, Dimitrios; Mollica, Luca; Quilici, Giacomo; Chignola, Francesca; Mannella, Valeria; Zucchelli, Chiara; Peterson, Pärt; Bachi, Angela; Musco, Giovanna

    2012-12-01

    Mutations in autoimmune regulator (AIRE) gene cause autoimmune polyendocrinopathy candidiasis ectodermal dystrophy. AIRE is expressed in thymic medullary epithelial cells, where it promotes the expression of peripheral-tissue antigens to mediate deletional tolerance, thereby preventing self-reactivity. AIRE contains two plant homeodomains (PHDs) which are sites of pathological mutations. AIRE-PHD fingers are important for AIRE transcriptional activity and presumably play a crucial role in the formation of multimeric protein complexes at chromatin level which ultimately control immunological tolerance. As a step forward the understanding of AIRE-PHD fingers in normal and pathological conditions, we investigated their structure and used a proteomic SILAC approach to assess the impact of patient mutations targeting AIRE-PHD fingers. Importantly, both AIRE-PHD fingers are structurally independent and mutually non-interacting domains. In contrast to D297A and V301M on AIRE-PHD1, the C446G mutation on AIRE-PHD2 destroys the structural fold, thus causing aberrant AIRE localization and reduction of AIRE target genes activation. Moreover, mutations targeting AIRE-PHD1 affect the formation of a multimeric protein complex at chromatin level. Overall our results reveal the importance of AIRE-PHD domains in the interaction with chromatin-associated nuclear partners and gene regulation confirming the role of PHD fingers as versatile protein interaction hubs for multiple binding events.

  7. Multivalent recognition of histone tails by the PHD fingers of CHD5.

    PubMed

    Oliver, Samuel S; Musselman, Catherine A; Srinivasan, Rajini; Svaren, John P; Kutateladze, Tatiana G; Denu, John M

    2012-08-21

    The chromodomain, helicase, DNA-binding protein 5 (CHD5) is a chromatin remodeling enzyme which is implicated in tumor suppression. In this study, we demonstrate the ability of the CHD5 PHD fingers to specifically recognize the unmodified N-terminus of histone H3. We use two distinct modified peptide-library platforms (beads and glass slides) to determine the detailed histone binding preferences of PHD(1) and PHD(2) alone and the tandem PHD(1-2) construct. Both domains displayed similar binding preferences for histone H3, where modification (e.g., methylation, acetylation, and phosphorylation) at H3R2, H3K4, H3T3, H3T6, and H3S10 disrupts high-affinity binding, and the three most N-terminal amino acids (ART) are crucial for binding. The tandem CHD5-PHD(1-2) displayed similar preferences to those displayed by each PHD finger alone. Using NMR, surface plasmon resonance, and two novel biochemical assays, we demonstrate that CHD5-PHD(1-2) simultaneously engages two H3 N-termini and results in a 4-11-fold increase in affinity compared with either PHD finger alone. These studies provide biochemical evidence for the utility of tandem PHD fingers to recruit protein complexes at targeted genomic loci and provide the framework for understanding how multiple chromatin-binding modules function to interpret the combinatorial PTM capacity written in chromatin.

  8. Exploring PHD fingers and H3K4me0 interactions with molecular dynamics simulations and binding free energy calculations: AIRE-PHD1, a comparative study.

    PubMed

    Spiliotopoulos, Dimitrios; Spitaleri, Andrea; Musco, Giovanna

    2012-01-01

    PHD fingers represent one of the largest families of epigenetic readers capable of decoding post-translationally modified or unmodified histone H3 tails. Because of their direct involvement in human pathologies they are increasingly considered as a potential therapeutic target. Several PHD/histone-peptide structures have been determined, however relatively little information is available on their dynamics. Studies aiming to characterize the dynamic and energetic determinants driving histone peptide recognition by epigenetic readers would strongly benefit from computational studies. Herein we focus on the dynamic and energetic characterization of the PHD finger subclass specialized in the recognition of histone H3 peptides unmodified in position K4 (H3K4me0). As a case study we focused on the first PHD finger of autoimmune regulator protein (AIRE-PHD1) in complex with H3K4me0. PCA analysis of the covariance matrix of free AIRE-PHD1 highlights the presence of a "flapping" movement, which is blocked in an open conformation upon binding to H3K4me0. Moreover, binding free energy calculations obtained through Molecular Mechanics/Poisson-Boltzmann Surface Area (MM/PBSA) methodology are in good qualitative agreement with experiments and allow dissection of the energetic terms associated with native and alanine mutants of AIRE-PHD1/H3K4me0 complexes. MM/PBSA calculations have also been applied to the energetic analysis of other PHD fingers recognizing H3K4me0. In this case we observe excellent correlation between computed and experimental binding free energies. Overall calculations show that H3K4me0 recognition by PHD fingers relies on compensation of the electrostatic and polar solvation energy terms and is stabilized by non-polar interactions.

  9. I-determinants for a successful PhD or postdoctoral outcome

    PubMed Central

    Sørensen, Henrik Toft

    2016-01-01

    Many resources are invested in research training, but very little literature exists on predictors for a successful PhD and postdoctoral training outcome. A PhD program has two overall objectives: to extend knowledge about a hopefully important health topic and to provide extensive training to improve the PhD student’s skills through learning research methods and collaboration. A substantial number of PhD students may run into some kind of problem in the course of their PhD program. In this article, some determinants all starting with an “I” and indicative of a good PhD outcome are reported. The successful PhD student can be described as having an Interest in the PhD program, an Incentive for the program, and an Idea of what he or she wants to investigate, showing Initiative, and having high personal Integrity and good Interpersonal relationships. When these so-called I-determinants are present, the likelihood of success in a PhD program is high. More evidence is available for selection of candidates for postdoctoral appointments since it is known that the postdoctoral candidate has completed a PhD program, published papers in peer-reviewed journals, and received awarded grants. However, other characteristics determine a successful transition of the postdoctoral candidate into a research leader. These determinants are Identity, Independence and Image, Implementation ability in terms of being able to implement decisions and projects, working with Innovative and Important topics, having In-depth knowledge of the research topic, being Interactive and Integrated with the scientific community, and Internationally oriented. In conclusion, regardless of the framework of research, the personal characteristics of a researcher play a very important role in the quality of research. Application of some of the principles mentioned in this article might allow decision to reach a more evidence-based way to recruit PhD students and postdoctorals. PMID:27574466

  10. The role of prolyl hydroxylase domain protein (PHD) during rosiglitazone-induced adipocyte differentiation.

    PubMed

    Kim, Juyoung; Kwak, Hyun Jeong; Cha, Ji-Young; Jeong, Yun-Seung; Rhee, Sang Dahl; Cheon, Hyae Gyeong

    2014-01-31

    Rosiglitazone, a well known insulin sensitizer, stimulates adipocyte differentiation via the activation of peroxisome proliferator-activated receptor γ (PPARγ). Previous two-dimensional proteomics studies using C3H10T1/2 murine mesenchymal pluripotent stem cells revealed that prolyl hydroxylase domain protein (PHD) levels significantly increased during rosiglitazone-induced adipocyte differentiation (RIAD). In this study, we investigated the functional role played by PHD during RIAD. Three PHD isoforms (PHD1, 2, and 3) were found to be up-regulated in C3H10T1/2 cells during RIAD, whereas PHD knockdown and treatment with PHD inhibitors (dimethyloxalyl glycine or ethyl-3,4-dihydroxybenzoate) blocked RIAD. PHD inhibition was found to be associated with increases in the levels of anti-adipogenic proteins such as GATA-3, KLF-2, and transcriptional coactivator with PDZ binding motif (TAZ), with their reduced ubiquitination, suggesting that PHDs evoke the ubiquitination/proteasomal degradation of anti-adipogenic proteins. On the other hand, MG-132 (a proteasomal inhibitor) prevented the degradation of anti-adipogenic proteins and retarded RIAD. PPARγ antagonists (bisphenol A diglycidyl ether or GW9662) blunted the effects of rosiglitazone on PHD regulation. Furthermore, putative PPARγ binding sites were identified in the promoter region of PHDs by ChIP-PCR, implying that rosiglitazone may induce PHD up-regulation directly by PPARγ activation. Consistent with in vitro results, oral administration of rosiglitazone to ob/ob mice for 2 weeks increased adipose PHD levels and decreased anti-adipogenic protein levels by increasing their ubiquitination. These results suggest that rosiglitazone increases PHD expression in a PPARγ-dependent manner and that this leads to the commitment of anti-adipogenic proteins to the ubiquitination-proteasomal pathway and to the subsequent induction of adipocyte differentiation.

  11. I-determinants for a successful PhD or postdoctoral outcome.

    PubMed

    Sørensen, Henrik Toft

    2016-01-01

    Many resources are invested in research training, but very little literature exists on predictors for a successful PhD and postdoctoral training outcome. A PhD program has two overall objectives: to extend knowledge about a hopefully important health topic and to provide extensive training to improve the PhD student's skills through learning research methods and collaboration. A substantial number of PhD students may run into some kind of problem in the course of their PhD program. In this article, some determinants all starting with an "I" and indicative of a good PhD outcome are reported. The successful PhD student can be described as having an Interest in the PhD program, an Incentive for the program, and an Idea of what he or she wants to investigate, showing Initiative, and having high personal Integrity and good Interpersonal relationships. When these so-called I-determinants are present, the likelihood of success in a PhD program is high. More evidence is available for selection of candidates for postdoctoral appointments since it is known that the postdoctoral candidate has completed a PhD program, published papers in peer-reviewed journals, and received awarded grants. However, other characteristics determine a successful transition of the postdoctoral candidate into a research leader. These determinants are Identity, Independence and Image, Implementation ability in terms of being able to implement decisions and projects, working with Innovative and Important topics, having In-depth knowledge of the research topic, being Interactive and Integrated with the scientific community, and Internationally oriented. In conclusion, regardless of the framework of research, the personal characteristics of a researcher play a very important role in the quality of research. Application of some of the principles mentioned in this article might allow decision to reach a more evidence-based way to recruit PhD students and postdoctorals.

  12. Minorities Striving and Pursuing Higher Degrees of Success in Earth System Science (MS PHD'S) Beyond the PhD Professional Development Program: A Pilot Project

    NASA Astrophysics Data System (ADS)

    Johnson, A.; Jearld, A.; Williamson Whitney, V.; Huggans, M.; Ricciardi, L.; Thomas, S. H.; Jansma, P. E.

    2012-12-01

    In 2011 the Minorities Striving and Pursuing Higher Degrees of Success in Earth System Science (MS PHD'S)® initiative launched its newest activity entitled the MS PHD'S "Beyond the PhD (B-PhD) Professional Development Program." This exciting new program was designed to facilitate the development of a new community of underrepresented minority (URM) doctoral candidates and recent doctorate degree recipients in Earth system science (ESS)-related fields. The MS PHD'S B-PhD provides customized support and advocacy for MS PHD'S B-PhD participants in order to facilitate smoother and informed transitions from graduate school, to postdoctoral and tenure-track positions, as well as other "first" jobs in government, industry, and non-profit organizations. In November 2011 the first cohort of MS PHD'S B-PhD participants engaged in intensive sessions on the following topics: "Toolkits for Success for Academia, Business/Industry, Federal Government and Non-Profits", "Defining Short, Mid and Long Term Career Goals", "Accessing and Refining Skill Sets and Other Door Openers", "International Preparation and Opportunities", "Paying it Forward/Lifting as You Climb", and "Customized Strategies for Next Steps". This pilot event, which was hosted by the University of Texas at Arlington's (UTA) College of Science, also provided opportunities for participants to serve as guest lecturers in the UTA's Colleges of Science and Engineering and included one-on-one discussions with MS PHD'S B-PhD mentors and guest speakers who are well established within their individual ESS fields. Insights regarding opportunities, challenges and obstacles commonly faced by URMs within the ESS fields, as well as strategies for success were shared by MS PHD'S B-PhD mentors and guest speakers. Survey results indicate that MS PHD'S B-PhD participants appreciated not only the material covered during this pilot activity, but also appreciated the opportunity to become part of a community of young URM ESS

  13. Searching for "A Third Space": A Creative Pathway towards International PhD Students' Academic Acculturation

    ERIC Educational Resources Information Center

    Elliot, Dely Lazarte; Baumfield, Vivienne; Reid, Kate

    2016-01-01

    Undertaking a PhD is a challenging endeavour. Pursuing a doctoral education in a "foreign" context tends to increase the demands of this intellectual venture. The nature of research-based PhD programmes, often characterised by a lack of formal curricula where academic supervision lasts several years, may add another layer of complexity.…

  14. Examiner Comment on the Literature Review in Ph.D. Theses

    ERIC Educational Resources Information Center

    Holbrook, Allyson; Bourke, Sid; Fairbairn, Hedy; Lovat, Terry

    2007-01-01

    The review of literature, so central to scholarly work and disciplined inquiry, is expected of the Ph.D. student, but how far along the road are they expected to travel? This article investigates the expectations of "the literature" in research and scholarship at Ph.D. level from the examiner and assessment perspective. The analysis…

  15. Learning from a Lived Experience of a PhD: A Reflexive Ethnography of Two Journeys

    ERIC Educational Resources Information Center

    Aziato, Lydia

    2015-01-01

    Introduction: Nurses globally have strived to obtain a Doctor of Philosophy Degree (PhD) especially those in academia. Few publications have focused on lived experiences of nurses especially those reporting failed attempts. Thus, this paper presents how lessons learnt from a failed attempt of a PhD in Nursing was used to achieve an outstanding…

  16. Digital Doctorates? An Exploratory Study of PhD Candidates' Use of Online Tools

    ERIC Educational Resources Information Center

    Dowling, Robyn; Wilson, Michael

    2017-01-01

    Online environments are transforming learning, including doctoral education. Yet the ways in which the PhD experience is shaped and transformed through these digital modes of engagement is seldom addressed, and not systematically understood. In this article, we explore PhD students' perceptions and use of digital tools. Drawing on the results of…

  17. Differing Motivations and Requirements in PhD Student Cohorts: A Case Study

    ERIC Educational Resources Information Center

    Naylor, Ryan; Chakravarti, Sumone; Baik, Chi

    2016-01-01

    The PhD student experience is an increasingly important area of education research in Australia and internationally. Although many factors supporting the PhD experience have been identified, there has been a tendency towards examining the issue through a cohort-wide lens, in which the nuances of experience of smaller groups and individuals may be…

  18. Creating Entrepreneurial Networks: Academic Entrepreneurship, Mobility and Collaboration during PhD Education

    ERIC Educational Resources Information Center

    Bienkowska, Dzamila; Klofsten, Magnus

    2012-01-01

    Network-building activities of PhD students are an important area of study in furthering our understanding of academic entrepreneurship. This paper focuses on PhD students' participation in network-building activities defined as mobility and collaboration, as well as own interest in and perceived grade of support for commercialisation from various…

  19. Delivering an Organizational Leadership PhD Program at a Distance: University of Oklahoma

    ERIC Educational Resources Information Center

    Rodgers, Joseph Lee; Williams, T. H. Lee

    2011-01-01

    In this chapter, the authors identify and review a number of key features in the successful development and maintenance of a PhD program delivered at a distance. The University of Oklahoma's PhD program in organizational leadership was developed in the early 1990s and delivered (primarily, but not completely) to military personnel and families…

  20. Research(er) at Home: Auto/Ethnography of (My) PhD

    ERIC Educational Resources Information Center

    Benová, Kamila

    2014-01-01

    This article deals with the PhD phase of tertiary higher education (in Slovakia), which is here considered as the specific phase of the academic career. It tries to answer the question: what is the PhD, in the context of research, theoretically and methodologically approached as a critical ethnography of higher education. It is focused on the…

  1. Content Analysis of the Ph.D vs. Ed.D. Dissertation.

    ERIC Educational Resources Information Center

    Coorough, Calleen; Nelson, Jack

    Typically, the Ph.D. degree is said to be more research-oriented, whereas the Ed.D. degree is aimed more at the educational practitioner. The two degrees were compared with regard to research design, statistics, target populations for inference of findings, and other characteristics. A sample of 1,007 Ph.D. and 960 Ed.D dissertations was selected…

  2. Supervisor Selection or Allocation and Continuity of Supervision: Ph.D. Students' Progress and Outcomes

    ERIC Educational Resources Information Center

    Ives, Glenice; Rowley, Glenn

    2005-01-01

    This article reports part of an Australian longitudinal study which examined the patterns evident in the relationships Ph.D. students and supervisors developed and the ways they worked together. The participants were 21 Ph.D. students and their main supervisors. Data were collected via interviews conducted between 1995 and 1998. Three interviews…

  3. The Undergraduate Origins of PhD Economists: The Berkeley Experience

    ERIC Educational Resources Information Center

    Olney, Martha L.

    2015-01-01

    The University of California, Berkeley sends more undergraduate students to economics PhD programs than any other public university. While this fact is surely a function of its size, there may be lessons from the Berkeley experience that others could adopt. To investigate why Berkeley generates so many economics PhD students, the author convened…

  4. Innovation in PhD Completion: The Hardy Shall Succeed (And Be Happy!)

    ERIC Educational Resources Information Center

    Kearns, Hugh; Gardiner, Maria; Marshall, Kelly

    2008-01-01

    What is it that makes a PhD such a difficult process, and prevents candidates from completing on time? In this paper, we propose that self-sabotaging behaviours, including overcommitting, procrastination and perfectionism, have a role to play. At Flinders University, we have developed a program in which we work with PhD students to help to reduce…

  5. A Qualitative Study of the Experiences of Gatekeeping among PhD Counselor Educators

    ERIC Educational Resources Information Center

    Erbes, Carol A.

    2013-01-01

    The purpose of this study was to examine the gatekeeping experiences of a group of PhD counselor educators, by utilizing a phenomenological approach. This design was chosen as it could best examine the lived experiences of the participants. Nine PhD counselor educators participated in this study through a series of two interviews. All of the…

  6. Assessing the Quality of PhD Dissertations. A Survey of External Committee Members

    ERIC Educational Resources Information Center

    Kyvik, Svein; Thune, Taran

    2015-01-01

    This article reports on a study of the quality assessment of doctoral dissertations, and asks whether examiner characteristics influence assessment of research quality in PhD dissertations. Utilising a multi-dimensional concept of quality of PhD dissertations, we look at differences in assessment of research quality, and particularly test whether…

  7. Jeanne Murphy, PhD, CNM, [F] | Division of Cancer Prevention

    Cancer.gov

    Jeanne Murphy, PhD, CNM is a postdoctoral Cancer Prevention Fellow in the Breast and Gynecologic Cancer Research Group in the Division of Cancer Prevention. She comes to BGCRG with a PhD from Johns Hopkins University School of Nursing. She also completed a graduate certificate in Health Disparities and Health Inequality at Johns Hopkins Bloomberg School of Public Health. |

  8. Enhancing the Industrial PhD Programme as a Policy Tool for University-Industry Cooperation

    ERIC Educational Resources Information Center

    Roolaht, Tõnu

    2015-01-01

    The changing role of universities in society includes the increasing expectation that academic institutions should engage in collaboration with companies. Industrial PhD programmes are educational tools for building bridges between the academic sector and industry. In these programmes, the PhD student studies and carries out research while being…

  9. NASA Graduate Student Researchers Program Ronald E. McNair PhD Program

    NASA Technical Reports Server (NTRS)

    Howard, Sunnie

    1998-01-01

    The NASA Ronald E. McNair PHD Program was funded in September 1995. Implementation began during the spring of 1996. The deferment of the actual program initial semester enabled the program to continue support through the fall semester of 1998. This was accomplished by a no-cost extension from August 15, 1998 through December 31, 1998. There were 12 fellows supported by the program in 1996, 15 fellows in 1997, and 15 fellows 1998. Current program capacity is 15 fellows per funding support. Support for the academic outreach component began in spring 1998. The program was named the "Good Enough" Crew Activity (GECA) in honor of Dr. McNair's philosophy of everyone being good enough to achieve anything they want bad enough. The program currently enrolls 65 students from the third through the eight grades. The program is held 12 Saturdays per semester. The time is 9:00 AM to 12:30 PM each Saturday Morning. Program direction and facilitation is jointly administered with the PHD fellows and the Saturday Academy staff. Dr. John Kelly, REM-PHD Principal Investigator serves in a program oversight and leadership capacity. Ms. Sunnie Howard, The NASA REM-PHD Administrative Coordinator serves in an administrative and logistical capacity. Mr. Aaron Hatch, the NASA-AMES Liaison Officer, serve@'in a consultative and curriculum review capacity. The first recognition activity will be held on December 12, 1998, with the students, parents, faculty, PHD fellows, and other local student support services persons. Program outreach efforts are jointly supported by the NASA REM-PHD Program and the National Space Grant College and Fellowship Program. The Ph.D. program reached its first milestone in May 1998. North Carolina A&T State University graduated the first Ph.D. fellows. The first three Ph.D. Alumni were Ronald E. McNair PHD Program Fellows. It is hoped that this is just the beginning of a highly acclaimed doctoral program. The ultimate program success will be recognized when the

  10. Multi-Target Detection from Full-Waveform Airborne Laser Scanner Using Phd Filter

    NASA Astrophysics Data System (ADS)

    Fuse, T.; Hiramatsu, D.; Nakanishi, W.

    2016-06-01

    We propose a new technique to detect multiple targets from full-waveform airborne laser scanner. We introduce probability hypothesis density (PHD) filter, a type of Bayesian filtering, by which we can estimate the number of targets and their positions simultaneously. PHD filter overcomes some limitations of conventional Gaussian decomposition method; PHD filter doesn't require a priori knowledge on the number of targets, assumption of parametric form of the intensity distribution. In addition, it can take a similarity between successive irradiations into account by modelling relative positions of the same targets spatially. Firstly we explain PHD filter and particle filter implementation to it. Secondly we formulate the multi-target detection problem on PHD filter by modelling components and parameters within it. At last we conducted the experiment on real data of forest and vegetation, and confirmed its ability and accuracy.

  11. Mentored peer reviewing for PhD faculty and students.

    PubMed

    Xu, Jiayun; Kim, Kyounghae; Kurtz, Melissa; Nolan, Marie T

    2016-02-01

    There is a need for scholars to be prepared as peer reviewers in order to ensure the continual publication of quality science. However, developing the skills to craft a constructive critique can be difficult. In this commentary, we discuss the use of a group peer review mentoring model for PhD students to gain experience in peer review from a faculty member who is experienced in peer review. Central to this model, was the opportunity for each student and faculty mentor to openly discuss their critique of the manuscript. Through this enriching experience, novice researchers were able to learn the elements of a good peer review, better determine a manuscript's substantive contribution to science, and advance the quality of their own manuscript writing.

  12. PHD2: from hypoxia regulation to disease progression.

    PubMed

    Meneses, Ana M; Wielockx, Ben

    2016-01-01

    Oxygen represents one of the major molecules required for the development and maintenance of life. An adequate response to hypoxia is therefore required for the functioning of the majority of living organisms and relies on the activation of the hypoxia-inducible factor (HIF) pathway. HIF prolyl hydroxylase domain-2 (PHD2) has long been recognized as the major regulator of this response, controlling a myriad of outcomes that range from cell death to proliferation. However, this enzyme has been associated with more pathways, making the role of this protein remarkably complex under distinct pathologies. While a protective role seems to exist in physiological conditions such as erythropoiesis; the picture is more complex during pathologies such as cancer. Since the regulation of this enzyme and its closest family members is currently considered as a possible therapy for various diseases, understanding the different particular roles of this protein is essential.

  13. The Harvard-MIT PHD Program in Bioastronautics

    NASA Astrophysics Data System (ADS)

    Young, Laurence R.; Natapoff, Alan

    2008-06-01

    The National Space Biomedical Research Institute (NSBRI)1 supports a PhD program in Space Life Sciences with a specialty in Bioastronautics at MIT. (A sibling program operates at TAMU.) It gives broad training in life sciences, emphasizes hands-on field experience, provides access to laboratories in the Harvard-MIT community for thesis research, and prepares students for many options in space biomedicine. The Program trains prospective leaders in the field able to manage the challenges of design for the life-hostile space environment. Beyond subject and thesis work, students participate in a summer internship and a clinical preceptorship at a NASA center--and an introduction to clinical medicine and medical engineering.

  14. PHD2: from hypoxia regulation to disease progression

    PubMed Central

    Meneses, Ana M; Wielockx, Ben

    2016-01-01

    Oxygen represents one of the major molecules required for the development and maintenance of life. An adequate response to hypoxia is therefore required for the functioning of the majority of living organisms and relies on the activation of the hypoxia-inducible factor (HIF) pathway. HIF prolyl hydroxylase domain-2 (PHD2) has long been recognized as the major regulator of this response, controlling a myriad of outcomes that range from cell death to proliferation. However, this enzyme has been associated with more pathways, making the role of this protein remarkably complex under distinct pathologies. While a protective role seems to exist in physiological conditions such as erythropoiesis; the picture is more complex during pathologies such as cancer. Since the regulation of this enzyme and its closest family members is currently considered as a possible therapy for various diseases, understanding the different particular roles of this protein is essential. PMID:27800508

  15. Prolyl-4-Hydroxylase 3 (PHD3) Expression Is Downregulated during Epithelial-to-Mesenchymal Transition

    PubMed Central

    Place, Trenton L.; Nauseef, Jones T.; Peterson, Maina K.; Henry, Michael D.; Mezhir, James J.; Domann, Frederick E.

    2013-01-01

    Prolyl-4-hydroxylation by the intracellular prolyl-4-hydroxylase enzymes (PHD1-3) serves as a master regulator of environmental oxygen sensing. The activity of these enzymes is tightly tied to tumorigenesis, as they regulate cell metabolism and angiogenesis through their control of hypoxia-inducible factor (HIF) stability. PHD3 specifically, is gaining attention for its broad function and rapidly accumulating array of non-HIF target proteins. Data from several recent studies suggest a role for PHD3 in the regulation of cell morphology and cell migration. In this study, we aimed to investigate this role by closely examining the relationship between PHD3 expression and epithelial-to-mesenchymal transition (EMT); a transcriptional program that plays a major role in controlling cell morphology and migratory capacity. Using human pancreatic ductal adenocarcinoma (PDA) cell lines and Madin-Darby Canine Kidney (MDCK) cells, we examined the correlation between several markers of EMT and PHD3 expression. We demonstrated that loss of PHD3 expression in PDA cell lines is highly correlated with a mesenchymal-like morphology and an increase in cell migratory capacity. We also found that induction of EMT in MDCK cells resulted in the specific downregulation of PHD3, whereas the expression of the other HIF-PHD enzymes was not affected. The results of this study clearly support a model by which the basal expression and hypoxic induction of PHD3 is suppressed by the EMT transcriptional program. This may be a novel mechanism by which migratory or metastasizing cells alter signaling through specific pathways that are sensitive to regulation by O2. The identification of downstream pathways that are affected by the suppression of PHD3 expression during EMT may provide important insight into the crosstalk between O2 and the migratory and metastatic potential of tumor cells. PMID:24367580

  16. The role of PHD2 mutations in the pathogenesis of erythrocytosis

    PubMed Central

    Gardie, Betty; Percy, Melanie J; Hoogewijs, David; Chowdhury, Rasheduzzaman; Bento, Celeste; Arsenault, Patrick R; Richard, Stéphane; Almeida, Helena; Ewing, Joanne; Lambert, Frédéric; McMullin, Mary Frances; Schofield, Christopher J; Lee, Frank S

    2014-01-01

    The transcription of the erythropoietin (EPO) gene is tightly regulated by the hypoxia response pathway to maintain oxygen homeostasis. Elevations in serum EPO level may be reflected in an augmentation in the red cell mass, thereby causing erythrocytosis. Studies on erythrocytosis have provided insights into the function of the oxygen-sensing pathway and the critical proteins involved in the regulation of EPO transcription. The α subunits of the hypoxia-inducible transcription factor are hydroxylated by three prolyl hydroxylase domain (PHD) enzymes, which belong to the iron and 2-oxoglutarate-dependent oxygenase superfamily. Sequence analysis of the genes encoding the PHDs in patients with erythrocytosis has revealed heterozygous germline mutations only occurring in Egl nine homolog 1 (EGLN1, also known as PHD2), the gene that encodes PHD2. To date, 24 different EGLN1 mutations comprising missense, frameshift, and nonsense mutations have been described. The phenotypes associated with the patients carrying these mutations are fairly homogeneous and typically limited to erythrocytosis with normal to elevated EPO. However, exceptions exist; for example, there is one case with development of concurrent paraganglioma (PHD2-H374R). Analysis of the erythrocytosis-associated PHD2 missense mutations has shown heterogeneous results. Structural studies reveal that mutations can affect different domains of PHD2. Some are close to the hypoxia-inducible transcription factor α/2-oxoglutarate or the iron binding sites for PHD2. In silico studies demonstrate that the mutations do not always affect fully conserved residues. In vitro and in cellulo studies showed varying effects of the mutations, ranging from mild effects to severe loss of function. The exact mechanism of a potential tumor-suppressor role for PHD2 still needs to be elucidated. A knockin mouse model expressing the first reported PHD2-P317R mutation recapitulates the phenotype observed in humans (erythrocytosis with

  17. Identification of the phd gene cluster responsible for phenylpropanoid utilization in Corynebacterium glutamicum.

    PubMed

    Kallscheuer, Nicolai; Vogt, Michael; Kappelmann, Jannick; Krumbach, Karin; Noack, Stephan; Bott, Michael; Marienhagen, Jan

    2016-02-01

    Phenylpropanoids as abundant, lignin-derived compounds represent sustainable feedstocks for biotechnological production processes. We found that the biotechnologically important soil bacterium Corynebacterium glutamicum is able to grow on phenylpropanoids such as p-coumaric acid, ferulic acid, caffeic acid, and 3-(4-hydroxyphenyl)propionic acid as sole carbon and energy sources. Global gene expression analyses identified a gene cluster (cg0340-cg0341 and cg0344-cg0347), which showed increased transcription levels in response to phenylpropanoids. The gene cg0340 (designated phdT) encodes for a putative transporter protein, whereas cg0341 and cg0344-cg0347 (phdA-E) encode enzymes involved in the β-oxidation of phenylpropanoids. The phd gene cluster is transcriptionally controlled by a MarR-type repressor encoded by cg0343 (phdR). Cultivation experiments conducted with C. glutamicum strains carrying single-gene deletions showed that loss of phdA, phdB, phdC, or phdE abolished growth of C. glutamicum with all phenylpropanoid substrates tested. The deletion of phdD (encoding for putative acyl-CoA dehydrogenase) additionally abolished growth with the α,β-saturated phenylpropanoid 3-(4-hydroxyphenyl)propionic acid. However, the observed growth defect of all constructed single-gene deletion strains could be abolished through plasmid-borne expression of the respective genes. These results and the intracellular accumulation of pathway intermediates determined via LC-ESI-MS/MS in single-gene deletion mutants showed that the phd gene cluster encodes for a CoA-dependent, β-oxidative deacetylation pathway, which is essential for the utilization of phenylpropanoids in C. glutamicum.

  18. Modelling Research: A Collaborative Approach to Helping PhD Students Develop Higher-Level Research Skills

    ERIC Educational Resources Information Center

    Garcia-Perez, Alexeis; Ayres, Robert

    2012-01-01

    A high proportion of PhD candidates in science and engineering fail to complete their degrees. This paper reports the results of a series of workshops where experienced researchers and supervisors were brought together with PhD students to discuss and develop a model of the PhD process. The objective was to help students develop a more rounded and…

  19. Genome-wide identification, classification and expression analysis of the PHD-finger protein family in Populus trichocarpa.

    PubMed

    Wu, Shengnan; Wu, Min; Dong, Qing; Jiang, Haiyang; Cai, Ronghao; Xiang, Yan

    2016-01-01

    The plant homeobox domain (PHD) proteins are widespread in eukaryotes, and play important roles in regulating chromatin and transcription. Comprehensive analyses of PHD-finger proteins have been performed in animals, but few plant PHD-finger proteins involved in growth and development have been characterized functionally. In this study, we conducted a genome-wide survey of PHD-finger proteins in Populus trichocarpa by describing the phylogenetic relationship, gene structure, and chromosomal location and microarray analyses of each predicted PHD-finger family member. We identified 73 PHD-finger genes (PtPHD1-73) and classified them into eleven subfamilies (A-K) by phylogenetic analysis. Seventy-two of the 73 genes were unevenly distributed on all 19 chromosomes, with seven segmental duplication events. Analysis of the Ka (non-synonymous substitution rate)/Ks (synonymous substitution rate) ratios suggested that the duplicated genes of the PHD-finger family mainly underwent purifying selection with restrictive functional divergence after the duplication events. Expression profiles analysis indicated that 67 PHD-finger genes were differentially expressed in various tissues. Quantitative real-time RT-PCR (qRT-PCR) analyses of nine selected PtPHD genes under high salinity, drought and cold stresses were also performed to explore their stress-related expression patterns. The results of this study provide a thorough overview of poplar PHD-finger proteins and will be valuable for further functional research of poplar PHD-finger genes to unravel their biological roles.

  20. Loss of PHD3 allows tumours to overcome hypoxic growth inhibition and sustain proliferation through EGFR

    PubMed Central

    Henze, Anne-Theres; Garvalov, Boyan K.; Seidel, Sascha; Cuesta, Angel M.; Ritter, Mathias; Filatova, Alina; Foss, Franziska; Dopeso, Higinio; Essmann, Clara L.; Maxwell, Patrick H.; Reifenberger, Guido; Carmeliet, Peter; Acker-Palmer, Amparo; Acker, Till

    2014-01-01

    Solid tumours are exposed to microenvironmental factors such as hypoxia that normally inhibit cell growth. However, tumour cells are capable of counteracting these signals through mechanisms that are largely unknown. Here we show that the prolyl hydroxylase PHD3 restrains tumour growth in response to microenvironmental cues through the control of EGFR. PHD3 silencing in human gliomas or genetic deletion in a murine high-grade astrocytoma model markedly promotes tumour growth and the ability of tumours to continue growing under unfavourable conditions. The growth-suppressive function of PHD3 is independent of the established PHD3 targets HIF and NF-κB and its hydroxylase activity. Instead, loss of PHD3 results in hyperphosphorylation of epidermal growth factor receptor (EGFR). Importantly, epigenetic/genetic silencing of PHD3 preferentially occurs in gliomas without EGFR amplification. Our findings reveal that PHD3 inactivation provides an alternative route of EGFR activation through which tumour cells sustain proliferative signalling even under conditions of limited oxygen availability. PMID:25420773

  1. Academic and research misconduct in the PhD: issues for students and supervisors.

    PubMed

    Mitchell, Theresa; Carroll, Jude

    2008-02-01

    There are many pressures upon PhD students not least the requirement to make an original or significant contribution to knowledge. Some students, confronted with complex research processes, might adopt practices that compromise standards that are unacceptable within a research community. These practices challenge the PhD student-supervisor relationship and have implication for the individual, the supervisory team, the institution, the awarding body and the wider research context. Discussion relating to misconduct within the PhD is of international importance if the aim is to encourage and facilitate rigorous research practice. Cases involving academic and research misconduct, especially those occurring at PhD level, are likely to become more frequent as numbers of PhD students increase and will demand appropriate, defensible responses from supervisors. Misconduct during PhD study can be difficult to resolve because of lack of clarity in definitions, supervisor naiveté and failure to acknowledge students' decision making limitations. Using scenarios from the first author's supervisory practice to illustrate issues of concern for students and supervisors during PhD supervision, the authors aim to illuminate the importance of engagement with regulatory bodies; problems of knowledge and understanding transfer; culturally specific issues and meanings of academic theft.

  2. Haematopoietic malignancies caused by dysregulation of a chromatin-binding PHD finger

    SciTech Connect

    Wang, Gang G.; Song, Jikui; Wang, Zhanxin; Dormann, Holger L.; Casadio, Fabio; Li, Haitao; Luo, Jun-Li; Patel, Dinshaw J.; Allis, C. David

    2009-07-21

    Histone H3 lysine4 methylation (H3K4me) has been proposed as a critical component in regulating gene expression, epigenetic states, and cellular identities. The biological meaning of H3K4me is interpreted by conserved modules including plant homeodomain (PHD) fingers that recognize varied H3K4me states. The dysregulation of PHD fingers has been implicated in several human diseases, including cancers and immune or neurological disorders. Here we report that fusing an H3K4-trimethylation (H3K4me3)-binding PHD finger, such as the carboxy-terminal PHD finger of PHF23 or JARID1A (also known as KDM5A or RBBP2), to a common fusion partner nucleoporin-98 (NUP98) as identified in human leukaemias, generated potent oncoproteins that arrested haematopoietic differentiation and induced acute myeloid leukaemia in murine models. In these processes, a PHD finger that specifically recognizes H3K4me3/2 marks was essential for leukaemogenesis. Mutations in PHD fingers that abrogated H3K4me3 binding also abolished leukaemic transformation. NUP98-PHD fusion prevented the differentiation-associated removal of H3K4me3 at many loci encoding lineage-specific transcription factors (Hox(s), Gata3, Meis1, Eya1 and Pbx1), and enforced their active gene transcription in murine haematopoietic stem/progenitor cells. Mechanistically, NUP98-PHD fusions act as 'chromatin boundary factors', dominating over polycomb-mediated gene silencing to 'lock' developmentally critical loci into an active chromatin state (H3K4me3 with induced histone acetylation), a state that defined leukaemia stem cells. Collectively, our studies represent, to our knowledge, the first report that deregulation of the PHD finger, an 'effector' of specific histone modification, perturbs the epigenetic dynamics on developmentally critical loci, catastrophizes cellular fate decision-making, and even causes oncogenesis during mammalian development.

  3. Haematopoietic malignancies caused by dysregulation of a chromatin-binding PHD finger.

    PubMed

    Wang, Gang G; Song, Jikui; Wang, Zhanxin; Dormann, Holger L; Casadio, Fabio; Li, Haitao; Luo, Jun-Li; Patel, Dinshaw J; Allis, C David

    2009-06-11

    Histone H3 lysine 4 methylation (H3K4me) has been proposed as a critical component in regulating gene expression, epigenetic states, and cellular identities1. The biological meaning of H3K4me is interpreted by conserved modules including plant homeodomain (PHD) fingers that recognize varied H3K4me states. The dysregulation of PHD fingers has been implicated in several human diseases, including cancers and immune or neurological disorders. Here we report that fusing an H3K4-trimethylation (H3K4me3)-binding PHD finger, such as the carboxy-terminal PHD finger of PHF23 or JARID1A (also known as KDM5A or RBBP2), to a common fusion partner nucleoporin-98 (NUP98) as identified in human leukaemias, generated potent oncoproteins that arrested haematopoietic differentiation and induced acute myeloid leukaemia in murine models. In these processes, a PHD finger that specifically recognizes H3K4me3/2 marks was essential for leukaemogenesis. Mutations in PHD fingers that abrogated H3K4me3 binding also abolished leukaemic transformation. NUP98-PHD fusion prevented the differentiation-associated removal of H3K4me3 at many loci encoding lineage-specific transcription factors (Hox(s), Gata3, Meis1, Eya1 and Pbx1), and enforced their active gene transcription in murine haematopoietic stem/progenitor cells. Mechanistically, NUP98-PHD fusions act as 'chromatin boundary factors', dominating over polycomb-mediated gene silencing to 'lock' developmentally critical loci into an active chromatin state (H3K4me3 with induced histone acetylation), a state that defined leukaemia stem cells. Collectively, our studies represent, to our knowledge, the first report that deregulation of the PHD finger, an 'effector' of specific histone modification, perturbs the epigenetic dynamics on developmentally critical loci, catastrophizes cellular fate decision-making, and even causes oncogenesis during mammalian development.

  4. A Knock-in Mouse Model of Human PHD2 Gene-associated Erythrocytosis Establishes a Haploinsufficiency Mechanism*

    PubMed Central

    Arsenault, Patrick R.; Pei, Fei; Lee, Rebecca; Kerestes, Heddy; Percy, Melanie J.; Keith, Brian; Simon, M. Celeste; Lappin, Terence R. J.; Khurana, Tejvir S.; Lee, Frank S.

    2013-01-01

    The central pathway for controlling red cell mass is the PHD (prolyl hydroxylase domain protein):hypoxia-inducible factor (HIF) pathway. HIF, which is negatively regulated by PHD, activates numerous genes, including ones involved in erythropoiesis, such as the ERYTHROPOIETIN (EPO) gene. Recent studies have implicated PHD2 as the key PHD isoform regulating red cell mass. Studies of humans have identified erythrocytosis-associated, heterozygous point mutations in the PHD2 gene. A key question concerns the mechanism by which human mutations lead to phenotypes. In the present report, we generated and characterized a mouse line in which a P294R knock-in mutation has been introduced into the mouse Phd2 locus to model the first reported human PHD2 mutation (P317R). Phd2P294R/+ mice display a degree of erythrocytosis equivalent to that seen in Phd2+/− mice. The Phd2P294R/+-associated erythrocytosis is reversed in a Hif2a+/−, but not a Hif1a+/− background. Additional studies using various conditional knock-outs of Phd2 reveal that erythrocytosis can be induced by homozygous and heterozygous knock-out of Phd2 in renal cortical interstitial cells using a Pax3-Cre transgene or by homozygous knock-out of Phd2 in hematopoietic progenitors driven by a Vav1-Cre transgene. These studies formally prove that a missense mutation in PHD2 is the cause of the erythrocytosis, show that this occurs through haploinsufficiency, and point to multifactorial control of red cell mass by PHD2. PMID:24121508

  5. The intrinsically disordered domain of the antitoxin Phd chaperones the toxin Doc against irreversible inactivation and misfolding.

    PubMed

    De Gieter, Steven; Konijnenberg, Albert; Talavera, Ariel; Butterer, Annika; Haesaerts, Sarah; De Greve, Henri; Sobott, Frank; Loris, Remy; Garcia-Pino, Abel

    2014-12-05

    The toxin Doc from the phd/doc toxin-antitoxin module targets the cellular translation machinery and is inhibited by its antitoxin partner Phd. Here we show that Phd also functions as a chaperone, keeping Doc in an active, correctly folded conformation. In the absence of Phd, Doc exists in a relatively expanded state that is prone to dimerization through domain swapping with its active site loop acting as hinge region. The domain-swapped dimer is not capable of arresting protein synthesis in vitro, whereas the Doc monomer is. Upon binding to Phd, Doc becomes more compact and is secured in its monomeric state with a neutralized active site.

  6. Systematic Analysis of the Maize PHD-Finger Gene Family Reveals a Subfamily Involved in Abiotic Stress Response.

    PubMed

    Wang, Qianqian; Liu, Jinyang; Wang, Yu; Zhao, Yang; Jiang, Haiyang; Cheng, Beijiu

    2015-09-30

    Plant homeodomain (PHD)-finger proteins were found universally in eukaryotes and known as key players in regulating transcription and chromatin structure. Many PHD-finger proteins have been well studied on structure and function in animals. Whereas, only a few of plant PHD-finger factors had been characterized, and majority of PHD-finger proteins were functionally unclear. In this study, a complete comprehensive analysis of maize PHD family is presented. Sixty-seven PHD-finger genes in maize were identified and further divided into ten groups according to phylogenetic analysis that was supported by motif and intron/exon analysis. These genes were unevenly distributed on ten chromosomes and contained 12 segmental duplication events, suggesting that segmental duplications were the major contributors in expansion of the maize PHD family. The paralogous genes mainly experienced purifying selection with restrictive functional divergence after the duplication events on the basis of the Ka/Ks ratio. Gene digital expression analysis showed that the PHD family had a wide expression profile in maize development. In addition, 15 potential stress response genes were detected by promoter cis-element and expression analysis. Two proteins ZmPHD14 and ZmPHD19 were located in the nucleus. These results provided a solid base for future functional genome study of the PHD-finger family in maize and afforded important clues for characterizing and cloning potentially important candidates in response to abiotic stresses.

  7. A New Venture in Graduate Education: Co-Op Ph.D. Programme in Chemical Engineering.

    ERIC Educational Resources Information Center

    Fahidy, Thomas Z.

    1980-01-01

    Describes a cooperative Ph.D. program at the University of Waterloo, Ontario, Canada, in which industrial and governmental employers participate with the Department of Chemical Engineering in training chemical engineers. (CS)

  8. Craig Reynolds, Ph.D., to Retire as NCI Associate Director for Frederick | Poster

    Cancer.gov

    On December 2, Craig Reynolds, Ph.D., director, Office of Scientific Operations, and NCI associate director for Frederick, will put the finishing touches on a 37-year career with the National Cancer Institute.

  9. Improved Bearings-Only Multi-Target Tracking with GM-PHD Filtering

    PubMed Central

    Zhang, Qian; Song, Taek Lyul

    2016-01-01

    In this paper, an improved nonlinear Gaussian mixture probability hypothesis density (GM-PHD) filter is proposed to address bearings-only measurements in multi-target tracking. The proposed method, called the Gaussian mixture measurements-probability hypothesis density (GMM-PHD) filter, not only approximates the posterior intensity using a Gaussian mixture, but also models the likelihood function with a Gaussian mixture instead of a single Gaussian distribution. Besides, the target birth model of the GMM-PHD filter is assumed to be partially uniform instead of a Gaussian mixture. Simulation results show that the proposed filter outperforms the GM-PHD filter embedded with the extended Kalman filter (EKF) and the unscented Kalman filter (UKF). PMID:27626423

  10. Improved Bearings-Only Multi-Target Tracking with GM-PHD Filtering.

    PubMed

    Zhang, Qian; Song, Taek Lyul

    2016-09-10

    In this paper, an improved nonlinear Gaussian mixture probability hypothesis density (GM-PHD) filter is proposed to address bearings-only measurements in multi-target tracking. The proposed method, called the Gaussian mixture measurements-probability hypothesis density (GMM-PHD) filter, not only approximates the posterior intensity using a Gaussian mixture, but also models the likelihood function with a Gaussian mixture instead of a single Gaussian distribution. Besides, the target birth model of the GMM-PHD filter is assumed to be partially uniform instead of a Gaussian mixture. Simulation results show that the proposed filter outperforms the GM-PHD filter embedded with the extended Kalman filter (EKF) and the unscented Kalman filter (UKF).

  11. Diverse functions of PHD fingers of the MLL/KMT2 subfamily.

    PubMed

    Ali, Muzaffar; Hom, Robert A; Blakeslee, Weston; Ikenouye, Larissa; Kutateladze, Tatiana G

    2014-02-01

    Five members of the KMT2 family of lysine methyltransferases, originally named the mixed lineage leukemia (MLL1-5) proteins, regulate gene expression during embryogenesis and development. Each KMT2A-E contains a catalytic SET domain that methylates lysine 4 of histone H3, and one or several PHD fingers. Over the past few years a growing number of studies have uncovered diverse biological roles of the KMT2A-E PHD fingers, implicating them in binding to methylated histones and other nuclear proteins, and in mediating the E3 ligase activity and dimerization. Mutations in the PHD fingers or deletion of these modules are linked to human diseases including cancer and Kabuki syndrome. In this work, we summarize recently identified biological functions of the KMT2A-E PHD fingers, discuss mechanisms of their action, and examine preference of these domains for histone and non-histone ligands.

  12. Authoring a PhD Patrick Dunleavy Authoring a PhD Palgrave Macmillan No of pages: 300 £16.99 1403905843 1403905843 [Formula: see text].

    PubMed

    2003-10-01

    This is a clever book. The author has recognised that potential PhD students are offered thorough advice regarding their chosen topic as well as areas such as data analysis, but when it comes to the crucial area of authoring skills advice can be scant or non-existent. This is clearly an oversight on the part of many educational establishments; the skills required in authoring a 'big book' style of PhD of some 80,000 to 100,000 words from conceptualisation through to completion are not innate.

  13. Articulating Expectations for PhD Candidature upon Commencement: Ensuring Supervisor/Student "Best Fit"

    ERIC Educational Resources Information Center

    Moxham, Lorna; Dwyer, Trudy; Reid-Searl, Kerry

    2013-01-01

    The journey towards completion of a PhD is a bumpy one for many. One of the major factors that influence successful and on-time thesis completion is the relationship that the PhD candidate has with her or his supervisor. This paper presents results from research undertaken using a 12-item survey to collect data from a purposive sample: PhD…

  14. Structure of human Sp140 PHD finger: an atypical fold interacting with Pin1.

    PubMed

    Zucchelli, Chiara; Tamburri, Simone; Quilici, Giacomo; Palagano, Eleonora; Berardi, Andrea; Saare, Mario; Peterson, Pärt; Bachi, Angela; Musco, Giovanna

    2014-01-01

    Sp140 is a nuclear leukocyte-specific protein involved in primary biliary cirrhosis and a risk factor in chronic lymphocytic leukemia. The presence of several chromatin related modules such as plant homeodomain (PHD), bromodomain and SAND domain suggests a role in chromatin-mediated regulation of gene expression; however, its real function is still elusive. Herein we present the solution structure of Sp140-PHD finger and investigate its role as epigenetic reader in vitro. Sp140-PHD presents an atypical PHD finger fold which does not bind to histone H3 tails but is recognized by peptidylprolyl isomerase Pin1. Pin1 specifically binds to a phosphopeptide corresponding to the L3 loop of Sp140-PHD and catalyzes cis-trans isomerization of a pThr-Pro bond. Moreover co-immunoprecipitation experiments demonstrate FLAG-Sp140 interaction with endogenous Pin1 in vivo. Overall these data include Sp140 in the list of the increasing number of Pin1 binders and expand the regulatory potential of PHD fingers as versatile structural platforms for diversified interactions.

  15. Solution NMR structure and histone binding of the PHD domain of human MLL5.

    PubMed

    Lemak, Alexander; Yee, Adelinda; Wu, Hong; Yap, Damian; Zeng, Hong; Dombrovski, Ludmila; Houliston, Scott; Aparicio, Samuel; Arrowsmith, Cheryl H

    2013-01-01

    Mixed Lineage Leukemia 5 (MLL5) is a histone methyltransferase that plays a key role in hematopoiesis, spermatogenesis and cell cycle progression. In addition to its catalytic domain, MLL5 contains a PHD finger domain, a protein module that is often involved in binding to the N-terminus of histone H3. Here we report the NMR solution structure of the MLL5 PHD domain showing a variant of the canonical PHD fold that combines conserved H3 binding features from several classes of other PHD domains (including an aromatic cage) along with a novel C-terminal α-helix, not previously seen. We further demonstrate that the PHD domain binds with similar affinity to histone H3 tail peptides di- and tri-methylated at lysine 4 (H3K4me2 and H3K4me3), the former being the putative product of the MLL5 catalytic reaction. This work establishes the PHD domain of MLL5 as a bone fide 'reader' domain of H3K4 methyl marks suggesting that it may guide the spreading or further methylation of this site on chromatin.

  16. Hyperplasia of pulmonary neuroepithelial bodies (NEB) in lungs of prolyl hydroxylase -1(PHD-1) deficient mice.

    PubMed

    Pan, Jie; Yeger, Herman; Ratcliffe, Peter; Bishop, Tammie; Cutz, Ernest

    2012-01-01

    Pulmonary NEB, widely distributed within the airway mucosa of mammalian lungs, are presumed hypoxia sensitive airway O(2) sensors responding to changes in airway gas concentration. NEB cell hyperplasia has been reported after exposure to chronic hypoxia and in a variety of paediatric and adult lung disorders. Prolyl hydroxylases (PHD 1-3) regulate the stability of hypoxia-inducible factors (HIF's) in an O(2)-dependent manner and function as intrinsic oxygen sensors. To determine a possible role of PHD-1in NEB cells we have quantitated NEB's in lungs of neonatal (P2) and adult (2 months) PHD-1-deficient mice and compared them to wild type (WT) control mice. Lung tissues fixed in formalin and embedded in paraffin were processed for immunoperoxidase method and frozen sections for multilabel immunoflourescence using antibodies for NEB markers synaptophysin, synaptic vesicle protein 2 and the peptide CGRP. The frequency and size of NEB in lungs of PHD-1 deficient neonatal mice (P2) and at 2 months was increased significantly compared to WT controls (p < 0.01). The present data suggests an important role for PHD enzymes in NEB cell biology deserving further studies. Since the PHD-1 deficient mouse appears to be the first animal model showing NEB cell hyperplasia it may be useful for studies of NEB physiology and pathobiology.

  17. Inhibition of the oxygen sensor PHD2 in the liver improves survival in lactic acidosis by activating the Cori cycle.

    PubMed

    Suhara, Tomohiro; Hishiki, Takako; Kasahara, Masataka; Hayakawa, Noriyo; Oyaizu, Tomoko; Nakanishi, Tsuyoshi; Kubo, Akiko; Morisaki, Hiroshi; Kaelin, William G; Suematsu, Makoto; Minamishima, Yoji Andrew

    2015-09-15

    Loss of prolyl hydroxylase 2 (PHD2) activates the hypoxia-inducible factor-dependent hypoxic response, including anaerobic glycolysis, which causes large amounts of lactate to be released from cells into the circulation. We found that Phd2-null mouse embryonic fibroblasts (MEFs) produced more lactate than wild-type MEFs, as expected, whereas systemic inactivation of PHD2 in mice did not cause hyperlacticacidemia. This unexpected observation led us to hypothesize that the hypoxic response activated in the liver enhances the Cori cycle, a lactate-glucose carbon recycling system between muscle and liver, and thereby decreases circulating lactate. Consistent with this hypothesis, blood lactate levels measured after a treadmill or lactate tolerance test were significantly lower in Phd2-liver-specific knockout (Phd2-LKO) mice than in control mice. An in vivo (13)C-labeled lactate incorporation assay revealed that the livers of Phd2-LKO mice produce significantly more glucose derived from (13)C-labeled lactate than control mice, suggesting that blockade of PHD2 in the liver ameliorates lactic acidosis by activating gluconeogenesis from lactate. Phd2-LKO mice were resistant to lactic acidosis induced by injection of a lethal dose of lactate, displaying a significant elongation of survival. Moreover, oral administration of a PHD inhibitor improved survival in an endotoxin shock mice model. These data suggest that PHD2 is a potentially novel drug target for the treatment of lactic acidosis, which is a serious and often fatal complication observed in some critically ill patients.

  18. Professional Socialization for the Ph.D.: An Exploration of Career and Professional Development Preparedness and Readiness for Ph.D. Candidates

    ERIC Educational Resources Information Center

    Helm, Matt; Campa, Henry, III; Moretto, Kristin

    2012-01-01

    This study sought to uncover the career readiness and professional development needs of Ph.D. students at a large, Midwestern research university. Findings indicate that career goals of graduate students change over time, skill preparation for academic and non-academic careers continues to be inadequate for many students and professional…

  19. Preparing for Graduate-Level Training in Professional Psychology: Comparisons across Clinical PhD, Counseling PhD, and Clinical PsyD Programs

    ERIC Educational Resources Information Center

    Karazsia, Bryan T.; Smith, Lena

    2016-01-01

    In the present study, faculty who teach in clinical and counseling doctor of philosophy (PhD) or doctor of psychology (PsyD) programs completed surveys regarding preferences for prospective student preparations to graduate programs. Faculty expectations of minimum and ideal undergraduate training were highest for scientific methods, though…

  20. A PHD-polycomb repressive complex 2 triggers the epigenetic silencing of FLC during vernalization.

    PubMed

    De Lucia, Filomena; Crevillen, Pedro; Jones, Alexandra M E; Greb, Thomas; Dean, Caroline

    2008-11-04

    Vernalization, the acceleration of flowering by winter, involves cold-induced epigenetic silencing of Arabidopsis FLC. This process has been shown to require conserved Polycomb Repressive Complex 2 (PRC2) components including the Su(z)12 homologue, VRN2, and two plant homeodomain (PHD) finger proteins, VRN5 and VIN3. However, the sequence of events leading to FLC repression was unclear. Here we show that, contrary to expectations, VRN2 associates throughout the FLC locus independently of cold. The vernalization-induced silencing is triggered by the cold-dependent association of the PHD finger protein VRN5 to a specific domain in FLC intron 1, and this association is dependent on the cold-induced PHD protein VIN3. In plants returned to warm conditions, VRN5 distribution changes, and it associates more broadly over FLC, coincident with significant increases in H3K27me3. Biochemical purification of a VRN5 complex showed that during prolonged cold a PHD-PRC2 complex forms composed of core PRC2 components (VRN2, SWINGER [an E(Z) HMTase homologue], FIE [an ESC homologue], MSI1 [p55 homologue]), and three related PHD finger proteins, VRN5, VIN3, and VEL1. The PHD-PRC2 activity increases H3K27me3 throughout the locus to levels sufficient for stable silencing. Arabidopsis PHD-PRC2 thus seems to act similarly to Pcl-PRC2 of Drosophila and PHF1-PRC2 of mammals. These data show FLC silencing involves changed composition and dynamic redistribution of Polycomb complexes at different stages of the vernalization process, a mechanism with greater parallels to Polycomb silencing of certain mammalian loci than the classic Drosophila Polycomb targets.

  1. DELETION OR INHIBITION OF THE OXYGEN SENSOR PHD1 PROTECTS AGAINST ISCHEMIC STROKE VIA REPROGRAMMING OF NEURONAL METABOLISM

    PubMed Central

    Quaegebeur, Annelies; Segura, Inmaculada; Schmieder, Roberta; Verdegem, Dries; Decimo, Ilaria; Bifari, Francesco; Dresselaers, Tom; Eelen, Guy; Ghosh, Debapriva; Schoors, Sandra; Janaki Raman, Sudha Rani; Cruys, Bert; Govaerts, Kristof; De Legher, Carla; Bouché, Ann; Schoonjans, Luc; Ramer, Matt S.; Hung, Gene; Bossaert, Goele; Cleveland, Don W.; Himmelreich, Uwe; Voets, Thomas; Lemmens, Robin; Bennett, C. Frank; Robberecht, Wim; De Bock, Katrien; Dewerchin, Mieke; Fendt, Sarah-Maria; Ghesquière, Bart; Carmeliet, Peter

    2016-01-01

    Summary The oxygen-sensing prolyl hydroxylase domain proteins (PHDs) regulate cellular metabolism, but their role in neuronal metabolism during stroke is unknown. Here we report that PHD1 deficiency provides neuroprotection in a murine model of permanent brain ischemia. This was not due to an increased collateral vessel network, nor to enhanced neurotrophin expression. Instead, PHD1−/− neurons were protected against oxygen-nutrient deprivation by reprogramming glucose metabolism. Indeed, PHD1−/− neurons enhanced glucose flux through the oxidative pentose phosphate pathway by diverting glucose from glycolysis. As a result, PHD1−/− neurons increased their redox buffering capacity to scavenge oxygen radicals in ischemia. Intracerebroventricular injection of PHD1-antisense oligonucleotides reduced the cerebral infarct size and neurological deficits following stroke. These data identify PHD1 as a novel regulator of neuronal metabolism and a potential therapeutic target in ischemic stroke. PMID:26774962

  2. Deletion or Inhibition of the Oxygen Sensor PHD1 Protects against Ischemic Stroke via Reprogramming of Neuronal Metabolism.

    PubMed

    Quaegebeur, Annelies; Segura, Inmaculada; Schmieder, Roberta; Verdegem, Dries; Decimo, Ilaria; Bifari, Francesco; Dresselaers, Tom; Eelen, Guy; Ghosh, Debapriva; Davidson, Shawn M; Schoors, Sandra; Broekaert, Dorien; Cruys, Bert; Govaerts, Kristof; De Legher, Carla; Bouché, Ann; Schoonjans, Luc; Ramer, Matt S; Hung, Gene; Bossaert, Goele; Cleveland, Don W; Himmelreich, Uwe; Voets, Thomas; Lemmens, Robin; Bennett, C Frank; Robberecht, Wim; De Bock, Katrien; Dewerchin, Mieke; Ghesquière, Bart; Fendt, Sarah-Maria; Carmeliet, Peter

    2016-02-09

    The oxygen-sensing prolyl hydroxylase domain proteins (PHDs) regulate cellular metabolism, but their role in neuronal metabolism during stroke is unknown. Here we report that PHD1 deficiency provides neuroprotection in a murine model of permanent brain ischemia. This was not due to an increased collateral vessel network. Instead, PHD1(-/-) neurons were protected against oxygen-nutrient deprivation by reprogramming glucose metabolism. Indeed, PHD1(-/-) neurons enhanced glucose flux through the oxidative pentose phosphate pathway by diverting glucose away from glycolysis. As a result, PHD1(-/-) neurons increased their redox buffering capacity to scavenge oxygen radicals in ischemia. Intracerebroventricular injection of PHD1-antisense oligonucleotides reduced the cerebral infarct size and neurological deficits following stroke. These data identify PHD1 as a regulator of neuronal metabolism and a potential therapeutic target in ischemic stroke.

  3. Increased EPO Levels Are Associated With Bone Loss in Mice Lacking PHD2 in EPO-Producing Cells.

    PubMed

    Rauner, Martina; Franke, Kristin; Murray, Marta; Singh, Rashim Pal; Hiram-Bab, Sahar; Platzbecker, Uwe; Gassmann, Max; Socolovsky, Merav; Neumann, Drorit; Gabet, Yankel; Chavakis, Triantafyllos; Hofbauer, Lorenz C; Wielockx, Ben

    2016-10-01

    The main oxygen sensor hypoxia inducible factor (HIF) prolyl hydroxylase 2 (PHD2) is a critical regulator of tissue homeostasis during erythropoiesis, hematopoietic stem cell maintenance, and wound healing. Recent studies point toward a role for the PHD2-erythropoietin (EPO) axis in the modulation of bone remodeling, even though the studies produced conflicting results. Here, we used a number of mouse strains deficient of PHD2 in different cell types to address the role of PHD2 and its downstream targets HIF-1α and HIF-2α in bone remodeling. Mice deficient for PHD2 in several cell lineages, including EPO-producing cells, osteoblasts, and hematopoietic cells (CD68:cre-PHD2(f/f) ) displayed a severe reduction of bone density at the distal femur as well as the vertebral body due to impaired bone formation but not bone resorption. Importantly, using osteoblast-specific (Osx:cre-PHD2(f/f) ) and osteoclast-specific PHD2 knock-out mice (Vav:cre- PHD2(f/f) ), we show that this effect is independent of the loss of PHD2 in osteoblast and osteoclasts. Using different in vivo and in vitro approaches, we show here that this bone phenotype, including the suppression of bone formation, is directly linked to the stabilization of the α-subunit of HIF-2, and possibly to the subsequent moderate induction of serum EPO, which directly influenced the differentiation and mineralization of osteoblast progenitors resulting in lower bone density. Taken together, our data identify the PHD2:HIF-2α:EPO axis as a so far unknown regulator of osteohematology by controlling bone homeostasis. Further, these data suggest that patients treated with PHD inhibitors or EPO should be monitored with respect to their bone status. © 2016 American Society for Bone and Mineral Research.

  4. DNP and PhD Collaboration: Bringing Together Practice and Research Expertise as Predegree and Postdegree Scholars.

    PubMed

    Buchholz, Susan Weber; Yingling, Charles; Jones, Krista; Tenfelde, Sandi

    2015-01-01

    A deliberate course of predegree intraprofessional DNP and PhD student collaboration can yield relationships that will facilitate postdegree teamwork. Working together, DNP-prepared nurses can use their practice expertise, and PhD-prepared nurses can use their research expertise to improve and change health care. This article presents 3 contexts in which predegree collaboration can occur between DNP and PhD students. Postdegree DNP and PhD collaboration can occur in 2 contexts.

  5. Molecular evolution of the metazoan PHD-HIF oxygen-sensing system.

    PubMed

    Rytkönen, Kalle T; Williams, Tom A; Renshaw, Gillian M; Primmer, Craig R; Nikinmaa, Mikko

    2011-06-01

    Metazoans rely on aerobic energy production, which requires an adequate oxygen supply. During reduced oxygen supply (hypoxia), the most profound changes in gene expression are mediated by transcription factors known as hypoxia-inducible factors (HIFs). HIF alpha proteins are commonly posttranslationally regulated by prolyl-4-hydroxylase (PHD) enzymes, which are direct "sensors" of cellular oxygen levels. We examined the molecular evolution of the metazoan PHD-HIF oxygen-sensing system by constructing complete phylogenies for PHD and HIF alpha genes and used computational tools to characterize the molecular changes underlying the functional divergence of PHD and HIF alpha duplicates. The presence of PHDs in metazoan genomes predates the emergence of HIF alphas. Our analysis revealed an unexpected diversity of PHD genes and HIF alpha sequence characteristics in invertebrates, suggesting that the simple oxygen-sensing systems of Caenorhabditis and Drosophila may not be typical of other invertebrate bilaterians. We studied the early vertebrate evolution of the system by sequencing these genes in early-diverging cartilaginous fishes, elasmobranchs. Cartilaginous fishes appear to have three paralogs of both PHD and HIF alpha. The novel sequences were used as outgroups for a detailed molecular analysis of PHD and HIF alpha duplicates in a major air-breathing vertebrate lineage, the mammals, and a major water-breathing vertebrate lineage, the teleosts. In PHDs, functionally divergent amino acid sites were detected near the HIF alpha-binding channel and beta2beta3 loop that defines its substrate specificity. In HIF alphas, more functional divergence was found in teleosts than in mammals, especially in the HIF-1 alpha PAS domain and HIF-2 alpha oxygen-dependent degradation (ODD) domains, which interact with PHDs. Overall, in the vertebrates, elevated substitution rates in the HIF-2 alpha N-terminal ODD domain, together with a functional divergence associated with the known

  6. Cellular Oxygen Sensing: Crystal Structure of Hypoxia-Inducible Factor Prolyl Hydroxylase (PHD2)

    SciTech Connect

    McDonough,M.; Li, V.; Flashman, E.; Chowdhury, R.; Mohr, C.; Lienard, B.; Zondlo, J.; Oldham, N.; Clifton, I.; et al.

    2006-01-01

    Cellular and physiological responses to changes in dioxygen levels in metazoans are mediated via the posttranslational oxidation of hypoxia-inducible transcription factor (HIF). Hydroxylation of conserved prolyl residues in the HIF-{alpha} subunit, catalyzed by HIF prolyl-hydroxylases (PHDs), signals for its proteasomal degradation. The requirement of the PHDs for dioxygen links changes in dioxygen levels with the transcriptional regulation of the gene array that enables the cellular response to chronic hypoxia; the PHDs thus act as an oxygen-sensing component of the HIF system, and their inhibition mimics the hypoxic response. We describe crystal structures of the catalytic domain of human PHD2, an important prolyl-4-hydroxylase in the human hypoxic response in normal cells, in complex with Fe(II) and an inhibitor to 1.7 Angstroms resolution. PHD2 crystallizes as a homotrimer and contains a double-stranded {beta}-helix core fold common to the Fe(II) and 2-oxoglutarate-dependant dioxygenase family, the residues of which are well conserved in the three human PHD enzymes (PHD 1-3). The structure provides insights into the hypoxic response, helps to rationalize a clinically observed mutation leading to familial erythrocytosis, and will aid in the design of PHD selective inhibitors for the treatment of anemia and ischemic disease.

  7. Predicting the "graduate on time (GOT)" of PhD students using binary logistics regression model

    NASA Astrophysics Data System (ADS)

    Shariff, S. Sarifah Radiah; Rodzi, Nur Atiqah Mohd; Rahman, Kahartini Abdul; Zahari, Siti Meriam; Deni, Sayang Mohd

    2016-10-01

    Malaysian government has recently set a new goal to produce 60,000 Malaysian PhD holders by the year 2023. As a Malaysia's largest institution of higher learning in terms of size and population which offers more than 500 academic programmes in a conducive and vibrant environment, UiTM has taken several initiatives to fill up the gap. Strategies to increase the numbers of graduates with PhD are a process that is challenging. In many occasions, many have already identified that the struggle to get into the target set is even more daunting, and that implementation is far too ideal. This has further being progressing slowly as the attrition rate increases. This study aims to apply the proposed models that incorporates several factors in predicting the number PhD students that will complete their PhD studies on time. Binary Logistic Regression model is proposed and used on the set of data to determine the number. The results show that only 6.8% of the 2014 PhD students are predicted to graduate on time and the results are compared wih the actual number for validation purpose.

  8. MS PHD'S: A Synergistic Model for Diversifying the Earth Science Community

    NASA Astrophysics Data System (ADS)

    Ricciardi, L.; Johnson, A.; Williamson Whitney, V.; Ithier-Guzman, W.; Braxton, L.; Johnson, A.

    2013-05-01

    The Minorities Striving and Pursuing Higher Degrees of Success in Earth System Science (MS PHD'S) program focuses on increasing the number of underrepresented minorities (URM) receiving advanced degrees in Earth system sciences (ESS). Subscribing to Aristotle's philosophy that the "whole is greater than the sum of its parts", MS PHD'S uses a synergistic model of tiered mentoring practices, successful minority scientist role models, peer-to-peer community building activities, professional development training techniques, networking opportunities, and state of the art virtual communication tools to facilitate the retention and advancement of underrepresented ESS scientists. Using a three-phase program structure supported by a virtual community, URM students in ESS are afforded opportunities to establish mentoring relationships with successful scientists, build meaningful ties with URM peers and future colleagues, strengthen oral and written communication skills, engage in networking opportunities within premier scientific venues, and maintain continuity of networks formed through program participation. Established in 2003, MS PHD'S is now in its ninth cohort. From the original cohort of 24 participants, the program has grown to support 213 participants. Of these 213 participants, 42 have obtained the doctorate and are employed within the ESS workforce. Another 71 are enrolled in doctoral programs. Looking to the future with the purpose of continually furthering its synergistic philosophy, MS PHD'S has developed a new initiative, Beyond the PhD, designed to support and advance the representation of URM scientists within a global workforce.

  9. Employability of genetic counselors with a PhD in genetic counseling.

    PubMed

    Wallace, Jody P; Myers, Melanie F; Huether, Carl A; Bedard, Angela C; Warren, Nancy Steinberg

    2008-06-01

    The development of a PhD in genetic counseling has been discussed for more than 20 years, yet the perspectives of employers have not been assessed. The goal of this qualitative study was to gain an understanding of the employability of genetic counselors with a PhD in genetic counseling by conducting interviews with United States employers of genetic counselors. Study participants were categorized according to one of the following practice areas: academic, clinical, government, industry, laboratory, or research. All participants were responsible for hiring genetic counselors in their institutions. Of the 30 employers interviewed, 23 envisioned opportunities for individuals with a PhD degree in genetic counseling, particularly in academic and research settings. Performing research and having the ability to be a principal investigator on a grant was the primary role envisioned for these individuals by 22/30 participants. Employers expect individuals with a PhD in genetic counseling to perform different roles than MS genetic counselors with a master's degree. This study suggests there is an employment niche for individuals who have a PhD in genetic counseling that complements, and does not compete with, master's prepared genetic counselors.

  10. Preparing Postbaccalaureates for Entry and Success in Biomedical PhD Programs

    PubMed Central

    Hall, Joshua D.; Harrell, Jessica R.; Cohen, Kimberley W.; Miller, Virginia L.; Phelps, Patricia V.; Cook, Jeanette G.

    2016-01-01

    Certain racial and ethnic groups, individuals with disabilities, and those from low socioeconomic backgrounds remain underrepresented (UR) in the biomedical sciences. This underrepresentation becomes more extreme at each higher education stage. To support UR scholars during the critical transition from baccalaureate to PhD, we established an intensive, 1-yr postbaccalaureate training program. We hypothesized that this intervention would strengthen each participant’s competitiveness for leading PhD programs and build a foundation of skills and self-efficacy important for success during and after graduate school. Scholar critical analysis skills, lab technique knowledge, and Graduate Record Examination scores all improved significantly during the program. Scholars reported significant confidence growth in 21 of 24 categories related to success in research careers. In 5 yr, 91% (41/45) of scholars transitioned directly into PhD programs. Importantly, 40% (18/45) of participating postbaccalaureate scholars had previously been declined acceptance into graduate school; however, 17/18 of these scholars directly entered competitive PhD programs following our training program. Alumni reported they were “extremely well” prepared for graduate school, and 95% (39/41) are currently making progress to graduation with a PhD. In conclusion, we report a model for postbaccalaureate training that could be replicated to increase participation and success among UR scholars in the biomedical sciences. PMID:27496358

  11. Interoperability in digital electrocardiography: harmonization of ISO/IEEE x73-PHD and SCP-ECG.

    PubMed

    Trigo, Jesús D; Chiarugi, Franco; Alesanco, Alvaro; Martínez-Espronceda, Miguel; Serrano, Luis; Chronaki, Catherine E; Escayola, Javier; Martínez, Ignacio; García, José

    2010-11-01

    The ISO/IEEE 11073 (x73) family of standards is a reference frame for medical device interoperability. A draft for an ECG device specialization (ISO/IEEE 11073-10406-d02) has already been presented to the Personal Health Device (PHD) Working Group, and the Standard Communications Protocol for Computer-Assisted ElectroCardioGraphy (SCP-ECG) Standard for short-term diagnostic ECGs (EN1064:2005+A1:2007) has recently been approved as part of the x73 family (ISO 11073-91064:2009). These factors suggest the coordinated use of these two standards in foreseeable telecardiology environments, and hence the need to harmonize them. Such harmonization is the subject of this paper. Thus, a mapping of the mandatory attributes defined in the second draft of the ISO/IEEE 11073-10406-d02 and the minimum SCP-ECG fields is presented, and various other capabilities of the SCP-ECG Standard (such as the messaging part) are also analyzed from an x73-PHD point of view. As a result, this paper addresses and analyzes the implications of some inconsistencies in the coordinated use of these two standards. Finally, a proof-of-concept implementation of the draft x73-PHD ECG device specialization is presented, along with the conversion from x73-PHD to SCP-ECG. This paper, therefore, provides recommendations for future implementations of telecardiology systems that are compliant with both x73-PHD and SCP-ECG.

  12. Insights into the proline hydroxylase (PHD) family, molecular evolution and its impact on human health.

    PubMed

    Minervini, Giovanni; Quaglia, Federica; Tosatto, Silvio C E

    2015-09-01

    PHDs (proline hydroxylases) are a small protein family found in all organisms, considered the central regulator of the molecular hypoxia response due to PHDs being completely inactivated under low oxygen concentration. At physiological oxygen concentration, PHDs drive the degradation of the HIF-1α (hypoxia-inducible factor 1-α), which is responsible for upregulating the expression of genes involved in the cellular response to hypoxia. Hypoxia is a common feature of most tumors, in particular during metastasis development. Indeed, cancer reacts by activating pathways promoting new blood vessel formation and activating strategies aimed to improve survival. In this scenario, the PHD family regulates the activation of HIF-1α and cell-cycle regulation. Several PHD mutations were found in cancer patients, underlining their importance for human health. Here, we propose a Bayesian model able to predict the pathological effect of human PHD mutations and their correlation with cancer outcome. The model was developed through an integrative in silico approach, where data collected from the literature has been coupled with sequence evolution and structural analysis. The model was used to assess 135 human PHD variants. Finally, bioinformatics characterization was used to demonstrate how few amino acid changes are able to explain the functional specialization of PHD family members and their physiological role in human health.

  13. Preparing Postbaccalaureates for Entry and Success in Biomedical PhD Programs.

    PubMed

    Hall, Joshua D; Harrell, Jessica R; Cohen, Kimberley W; Miller, Virginia L; Phelps, Patricia V; Cook, Jeanette G

    2016-01-01

    Certain racial and ethnic groups, individuals with disabilities, and those from low socioeconomic backgrounds remain underrepresented (UR) in the biomedical sciences. This underrepresentation becomes more extreme at each higher education stage. To support UR scholars during the critical transition from baccalaureate to PhD, we established an intensive, 1-yr postbaccalaureate training program. We hypothesized that this intervention would strengthen each participant's competitiveness for leading PhD programs and build a foundation of skills and self-efficacy important for success during and after graduate school. Scholar critical analysis skills, lab technique knowledge, and Graduate Record Examination scores all improved significantly during the program. Scholars reported significant confidence growth in 21 of 24 categories related to success in research careers. In 5 yr, 91% (41/45) of scholars transitioned directly into PhD programs. Importantly, 40% (18/45) of participating postbaccalaureate scholars had previously been declined acceptance into graduate school; however, 17/18 of these scholars directly entered competitive PhD programs following our training program. Alumni reported they were "extremely well" prepared for graduate school, and 95% (39/41) are currently making progress to graduation with a PhD. In conclusion, we report a model for postbaccalaureate training that could be replicated to increase participation and success among UR scholars in the biomedical sciences.

  14. The PH-D proposal - A manned mission to Phobos and Deimos

    NASA Technical Reports Server (NTRS)

    Singer, S. F.

    1984-01-01

    The rationale for a manned mission to the satellites of Mars is discussed. The view has been expressed that NASA must define a major program to follow the Shuttle and to utilize it. However, such a program could not be initiated and proceed without public support, and to obtain this support, public interest would have to be excited. It is shown that, of a number of possible targets for manned exploration in the solar system, Mars appears to be the only possible candidate. Attention is given to a comparison of three Mars missions, a Mars 1984 mission, a manned landing on Mars surface, a manned landing on Phobos and Deimos (Ph-D project), putting men in Mars orbit, the capabilities of the Ph-D mission, a description of the spacecraft, a Ph-D project operations plan, and aspects of timing, technology, and costs.

  15. The Binding Specificity of the PHD-Finger Domain of VIN3 Moderates Vernalization Response.

    PubMed

    Kim, Dong-Hwan; Sung, Sibum

    2017-02-01

    Vernalization is a response to winter cold to initiate flowering in spring. VERNALIZATION INSENSITIVE3 (VIN3) is induced by winter cold and is essential to vernalization response in Arabidopsis (Arabidopsis thaliana). VIN3 encodes a PHD-finger domain that binds to modified histones in vitro. An alteration in the binding specificity of the PHD-finger domain of VIN3 results in a hypervernalization response. The hypervernalization response is achieved by increased enrichments of VIN3 and trimethylation of Histone H3 Lys 27 at the FLC locus without invoking the increased enrichment of Polycomb Repressive Complex 2. Our result shows that the binding specificity of the PHD-finger domain of VIN3 plays a role in mediating a proper vernalization response in Arabidopsis.

  16. Nurses in the clinical area: relevance of a PhD.

    PubMed

    Wilkes, Lesley M; Mohan, Shantala

    2008-01-01

    This project aimed to explore the application and relevance of a PhD to nurses working in the clinical area. The complexity of nursing practice requires clinical nurses to be competent as investigators and professional leaders who could help structure nursing practice in more efficient ways. Research proposes that a PhD offers Limited employment opportunities, is mainly research oriented and tends to direct a nurse away from the clinical field. A mixed method study design utilising surveys and interviews was chosen to collect data for this study. Participants were nurses with a doctoral degree working/having worked in a clinical area after obtaining their PhD Nurses were recruited through student databases from Australian universities that offer doctoral degrees in nursing and also by using a snowball sampling technique. The majority of the 19 nurses who participated in the study had: varied expectation of doing a PhD; maintained their clinical positions after obtaining their doctoral degree, considered that the degree helped them to obtain better jobs/promotions and acknowledged the value of the PhD in patient care, in improving research and informing health policy. This study has exposed the positive aspects of completing a PhD and identifies its constructive application in the clinical area. It is essential to provide support and opportunities for nurses working in the clinical area to pursue doctoral degrees in order to enable them to enhance knowledge and build confidence and leadership skills and contribute to the improvement of nursing practice and the continued development of the profession.

  17. Science PhD career preferences: levels, changes, and advisor encouragement.

    PubMed

    Sauermann, Henry; Roach, Michael

    2012-01-01

    Even though academic research is often viewed as the preferred career path for PhD trained scientists, most U.S. graduates enter careers in industry, government, or "alternative careers." There has been a growing concern that these career patterns reflect fundamental imbalances between the supply of scientists seeking academic positions and the availability of such positions. However, while government statistics provide insights into realized career transitions, there is little systematic data on scientists' career preferences and thus on the degree to which there is a mismatch between observed career paths and scientists' preferences. Moreover, we lack systematic evidence whether career preferences adjust over the course of the PhD training and to what extent advisors exacerbate imbalances by encouraging their students to pursue academic positions. Based on a national survey of PhD students at tier-one U.S. institutions, we provide insights into the career preferences of junior scientists across the life sciences, physics, and chemistry. We also show that the attractiveness of academic careers decreases significantly over the course of the PhD program, despite the fact that advisors strongly encourage academic careers over non-academic careers. Our data provide an empirical basis for common concerns regarding labor market imbalances. Our results also suggest the need for mechanisms that provide PhD applicants with information that allows them to carefully weigh the costs and benefits of pursuing a PhD, as well as for mechanisms that complement the job market advice advisors give to their current students.

  18. Measuring efficiency of university-industry Ph.D. projects using best worst method.

    PubMed

    Salimi, Negin; Rezaei, Jafar

    2016-01-01

    A collaborative Ph.D. project, carried out by a doctoral candidate, is a type of collaboration between university and industry. Due to the importance of such projects, researchers have considered different ways to evaluate the success, with a focus on the outputs of these projects. However, what has been neglected is the other side of the coin-the inputs. The main aim of this study is to incorporate both the inputs and outputs of these projects into a more meaningful measure called efficiency. A ratio of the weighted sum of outputs over the weighted sum of inputs identifies the efficiency of a Ph.D.

  19. Deconstructing doctoral dissertations: how many papers does it take to make a PhD?

    PubMed

    Hagen, Nils T

    2010-11-01

    A collection of coauthored papers is the new norm for doctoral dissertations in the natural and biomedical sciences, yet there is no consensus on how to partition authorship credit between PhD candidates and their coauthors. Guidelines for PhD programs vary but tend to specify only a suggested range for the number of papers to be submitted for evaluation, sometimes supplemented with a requirement for the PhD candidate to be the principal author on the majority of submitted papers. Here I use harmonic counting to quantify the actual amount of authorship credit attributable to individual PhD graduates from two Scandinavian universities in 2008. Harmonic counting corrects for the inherent inflationary and equalizing biases of routine counting methods, thereby allowing the bibliometrically identifiable amount of authorship credit in approved dissertations to be analyzed with unprecedented accuracy. Unbiased partitioning of authorship credit between graduates and their coauthors provides a post hoc bibliometric measure of current PhD requirements, and sets a de facto baseline for the requisite scientific productivity of these contemporary PhD's at a median value of approximately 1.6 undivided papers per dissertation. Comparison with previous census data suggests that the baseline has shifted over the past two decades as a result of a decrease in the number of submitted papers per candidate and an increase in the number of coauthors per paper. A simple solution to this shifting baseline syndrome would be to benchmark the amount of unbiased authorship credit deemed necessary for successful completion of a specific PhD program, and then monitor for departures from this level over time. Harmonic partitioning of authorship credit also facilitates cross-disciplinary and inter-institutional analysis of the scientific output from different PhD programs. Juxtaposing bibliometric benchmarks with current baselines may thus assist the development of harmonized guidelines and

  20. Top tips for PhD thesis examination: nurse clinicians, researchers and novices.

    PubMed

    Cleary, Michelle; Horsfall, Jan; Hunt, Glenn E

    2012-01-01

    Interestingly, there are very few guidelines in the literature to assist novice nurse PhD examiners. In this paper, we aim to provide information to nurses, researchers or early career academics who have little experience in assessing a university thesis. The article provides background information about recent changes in the university sector; overviews some research on experienced examiners views; presents factors that differentiate between high and low quality PhD theses; and outlines some pointers that may be useful when marking at the doctoral level.

  1. Prolyl Hydroxylase Domain-Containing Protein 2 (Phd2) Regulates Chondrocyte Differentiation and Secondary Ossification in Mice

    PubMed Central

    Cheng, Shaohong; Aghajanian, Patrick; Pourteymoor, Sheila; Alarcon, Catrina; Mohan, Subburaman

    2016-01-01

    Endochondral ossification plays an important role in the formation of the primary ossification centers (POCs) and secondary ossification centers (SOCs) of mammalian long bones. However, the molecular mechanisms that regulate POC and SOC formation are different. We recently demonstrated that Prolyl Hydroxylase Domain-containing Protein 2 (Phd2) is a key mediator of vitamin C effects on bone. We investigated the role of Phd2 on endochondral ossification of the epiphyses by conditionally deleting the Phd2 gene in osteoblasts and chondrocytes. We found that the deletion of Phd2 in osteoblasts did not cause changes in bone parameters in the proximal tibial epiphyses in 5 week old mice. In contrast, deletion of Phd2 in chondrocytes resulted in increased bone mass and bone formation rate (normalized to tissue volume) in long bone epiphyses, indicating that Phd2 expressed in chondrocytes, but not osteoblasts, negatively regulates secondary ossification of epiphyses. Phd2 deletion in chondrocytes elevated mRNA expression of hypoxia-inducible factor (HIF) signaling molecules including Hif-1α, Hif-2α, Vegfa, Vegfb, and Epo, as well as markers for chondrocyte hypertrophy and mineralization such as Col10, osterix, alkaline phosphatase, and bone sialoprotein. These data suggest that Phd2 expressed in chondrocytes inhibits endochondral ossification at the epiphysis by suppressing HIF signaling pathways. PMID:27775044

  2. 76 FR 11529 - Gregory Desobry, Ph.D.; Order Requiring Notification of Involvement in NRC-Licensed Activities

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-03-02

    ... From the Federal Register Online via the Government Publishing Office NUCLEAR REGULATORY COMMISSION Gregory Desobry, Ph.D.; Order Requiring Notification of Involvement in NRC-Licensed Activities I... Mr. Desobry, Ph.D., requests a hearing, that person shall set forth with particularity the manner...

  3. PhD Crisis Discourse: A Critical Approach to the Framing of the Problem and Some Australian "Solutions"

    ERIC Educational Resources Information Center

    Cuthbert, Denise; Molla, Tebeje

    2015-01-01

    A feature of HE reform discourse is the tendency to construct the rationale for reform in terms of averting calamity and risk. We refer to this risk talk as "crisis discourse." This study examines the formulation of PhD crisis discourse internationally and in Australia. We find that a key feature of PhD crisis discourse is that…

  4. Conditional Deletion of the Phd2 Gene in Articular Chondrocytes Accelerates Differentiation and Reduces Articular Cartilage Thickness

    PubMed Central

    Cheng, Shaohong; Pourteymoor, Sheila; Alarcon, Catrina; Mohan, Subburaman

    2017-01-01

    Based on our findings that PHD2 is a negative regulator of chondrocyte differentiation and that hypoxia signaling is implicated in the pathogenesis of osteoarthritis, we investigated the consequence of disruption of the Phd2 gene in chondrocytes on the articular cartilage phenotype in mice. Immunohistochemistry detected high expression of PHD2 in the superficial zone (SZ), while PHD3 and HIF-1α (target of PHD2) are mainly expressed in the middle-deep zone (MDZ). Conditional deletion of the Phd2 gene (cKO) in chondrocytes accelerated the transition of progenitors to hypertrophic (differentiating) chondrocytes as revealed by reduced SZ thickness, and increased MDZ thickness, as well as increased chondrocyte hypertrophy. Immunohistochemistry further revealed decreased levels of progenitor markers but increased levels of hypertrophy markers in the articular cartilage of the cKO mice. Treatment of primary articular chondrocytes, in vitro, with IOX2, a specific inhibitor of PHD2, promoted articular chondrocyte differentiation. Knockdown of Hif-1α expression in primary articular chondrocytes using lentiviral vectors containing Hif-1α shRNA resulted in reduced expression levels of Vegf, Glut1, Pgk1, and Col10 compared to control shRNA. We conclude that Phd2 is a key regulator of articular cartilage development that acts by inhibiting the differentiation of articular cartilage progenitors via modulating HIF-1α signaling. PMID:28349987

  5. The Benefits of Publishing Systematic Quantitative Literature Reviews for PhD Candidates and Other Early-Career Researchers

    ERIC Educational Resources Information Center

    Pickering, Catherine; Byrne, Jason

    2014-01-01

    Universities increasingly expect students to publish during a PhD candidature because it benefits the candidate, supervisor, institution, and wider community. Here, we describe a method successfully used by early-career researchers including PhD candidates to undertake and publish literature reviews--a challenge for researchers new to a field. Our…

  6. A Networked Pathway to the PhD: The African-Norwegian Case of Productive Learning Cultures

    ERIC Educational Resources Information Center

    Hattingh, Annemarie; Lillejord, Solvi

    2011-01-01

    How do PhD students become socialised into the professional world of academic work? This article pays attention to a "networked" support pathway towards a PhD. The network constitutes an international research collaboration through a programme called Productive Learning Cultures (PLC) (2002-2011) between Norway and seven countries,…

  7. Computational analysis of prolyl hydroxylase domain-containing protein 2 (PHD2) mutations promoting polycythemia insurgence in humans

    PubMed Central

    Minervini, Giovanni; Quaglia, Federica; Tosatto, Silvio CE

    2016-01-01

    Idiopathic erythrocytosis is a rare disease characterized by an increase in red blood cell mass due to mutations in proteins of the oxygen-sensing pathway, such as prolyl hydroxylase 2 (PHD2). Here, we present a bioinformatics investigation of the pathological effect of twelve PHD2 mutations related to polycythemia insurgence. We show that few mutations impair the PHD2 catalytic site, while most localize to non-enzymatic regions. We also found that most mutations do not overlap the substrate recognition site, suggesting a novel PHD2 binding interface. After a structural analysis of both binding partners, we suggest that this novel interface is responsible for PHD2 interaction with the LIMD1 tumor suppressor. PMID:26754054

  8. Computational analysis of prolyl hydroxylase domain-containing protein 2 (PHD2) mutations promoting polycythemia insurgence in humans.

    PubMed

    Minervini, Giovanni; Quaglia, Federica; Tosatto, Silvio C E

    2016-01-12

    Idiopathic erythrocytosis is a rare disease characterized by an increase in red blood cell mass due to mutations in proteins of the oxygen-sensing pathway, such as prolyl hydroxylase 2 (PHD2). Here, we present a bioinformatics investigation of the pathological effect of twelve PHD2 mutations related to polycythemia insurgence. We show that few mutations impair the PHD2 catalytic site, while most localize to non-enzymatic regions. We also found that most mutations do not overlap the substrate recognition site, suggesting a novel PHD2 binding interface. After a structural analysis of both binding partners, we suggest that this novel interface is responsible for PHD2 interaction with the LIMD1 tumor suppressor.

  9. The Future of Rhetoric in English Department Ph.D. Programs.

    ERIC Educational Resources Information Center

    Clark, Suzanne

    1995-01-01

    Offers a utopian vision of what the place of rhetoric should be in a department that thinks of itself as literary. Argues that a Ph.D. in English that encompasses both literature and rhetoric works because it is really a degree in rhetoric. (TB)

  10. A Statistical Profile of the London PhD in History, 1921-90.

    ERIC Educational Resources Information Center

    Nicoll, Irena

    1996-01-01

    Analyzes information from a computerized database of Ph.D. candidates in history between 1921-90. Examines the numbers of doctoral degrees produced at each college within the university, as well as students' gender, nationality, and age. Questions previously held assumptions concerning rates of completion and submission. Includes statistical…

  11. Hypoxia and loss of PHD2 inactivate stromal fibroblasts to decrease tumour stiffness and metastasis.

    PubMed

    Madsen, Chris D; Pedersen, Jesper T; Venning, Freja A; Singh, Lukram Babloo; Moeendarbary, Emad; Charras, Guillaume; Cox, Thomas R; Sahai, Erik; Erler, Janine T

    2015-10-01

    Cancer-associated fibroblasts (CAFs) interact with tumour cells and promote growth and metastasis. Here, we show that CAF activation is reversible: chronic hypoxia deactivates CAFs, resulting in the loss of contractile force, reduced remodelling of the surrounding extracellular matrix and, ultimately, impaired CAF-mediated cancer cell invasion. Hypoxia inhibits prolyl hydroxylase domain protein 2 (PHD2), leading to hypoxia-inducible factor (HIF)-1α stabilisation, reduced expression of αSMA and periostin, and reduced myosin II activity. Loss of PHD2 in CAFs phenocopies the effects of hypoxia, which can be prevented by simultaneous depletion of HIF-1α. Treatment with the PHD inhibitor DMOG in an orthotopic breast cancer model significantly decreases spontaneous metastases to the lungs and liver, associated with decreased tumour stiffness and fibroblast activation. PHD2 depletion in CAFs co-injected with tumour cells similarly prevents CAF-induced metastasis to lungs and liver. Our data argue that reversion of CAFs towards a less active state is possible and could have important clinical implications.

  12. Commentary: Attitude Adjustment--Educating PhD Scientist for Business Careers

    ERIC Educational Resources Information Center

    Schuster, Sheldon M.

    2011-01-01

    The PhD graduate from a US research academic institution who has worked 5-7 years to solve a combination of laboratory and computational problems after an in-depth classroom experience is likely superbly trained in at least a subset of the life sciences and the underlying methodology and thought processes required to perform high level research.…

  13. PhD versus DSW: A Critique of Trends in Social Work Doctoral Education

    ERIC Educational Resources Information Center

    Howard, Tyriesa

    2016-01-01

    Social work educators are in a phase of reintroducing the doctor of social work (DSW) degree and refining distinctions between PhD and DSW doctoral programs. This article examines how the two options have been prey to a noticeable "seesaw of precedence", resulting in a debatable history of social work's approach to doctoral education…

  14. Improving Cardiovascular Health in Diverse Populations: A Conversation With Anushka Patel, MBBS, SM, PhD.

    PubMed

    Patel, Anushka; Rutherford, John D

    2017-02-07

    Anushka Patel is the Chief Scientist, The George Institute for Global Health, Professor of Medicine, University of Sydney and a Cardiologist, at Royal Prince Alfred Hospital, all based in Sydney, Australia. She obtained her MBBS from the University of Queensland, a Master of Science degree in Epidemiology from Harvard University, and her PhD from the University of Sydney.

  15. The PhD Dissertation Defense in Canada: An Institutional Policy Perspective

    ERIC Educational Resources Information Center

    Chen, Shuhua

    2008-01-01

    Drawing upon publicly accessible information on the websites of ten Canadian research universities, this paper aims to shed some light on the assumed variation of institutional policies regarding the PhD dissertation defense in Canada. It discusses "How are the institutional policies on the doctoral dissertation defense different across…

  16. The Latina/o Pathway to the Ph.D.: Abriendo Caminos

    ERIC Educational Resources Information Center

    Castellanos, Jeanett, Ed.; Gloria, Alberta M., Ed.; Kamimura, Mark, Ed.

    2005-01-01

    This is the first book specifically to engage with the absence of Latinas/os in doctoral studies. It proposes educational and administrative strategies to open up the pipeline, and institutional practices to ensure access, support, models and training for Latinas/os aspiring to the Ph.D. The under-education of Latina/o youth begins early. Given…

  17. On Doctoral Education: How to Supervise a PhD, 1985-2011

    ERIC Educational Resources Information Center

    Connell, Raewyn; Manathunga, Catherine

    2012-01-01

    In this essay, the authors talk about higher degree supervision as a human relationship, and shares how to supervise a PhD. There's a tendency now to talk about supervision as if it's a technical process one needs to learn the rules of. This paper urges educators to think about this as a human educational relationship, which has all the ups and…

  18. Constructing an Institutional Identity in University Tea Rooms: The International PhD Student Experience

    ERIC Educational Resources Information Center

    Fotovatian, Sepideh; Miller, Jenny

    2014-01-01

    This case study profiles eight international PhD students and describes the process of the construction and negotiation of their social and institutional identities in an Australian university. Audio-recorded informal conversations of the students highlight the role of social membership, staffroom interactions and language in the construction of…

  19. Completing a PhD by Publication: A Review of Australian Policy and Implications for Practice

    ERIC Educational Resources Information Center

    Jackson, Denise

    2013-01-01

    There is increasing impetus for higher-degree-by-research students to publish during candidature. Research performance, including higher degree completions and publication output, commonly determines university funding, and doctorates with publishing experience are better positioned for a career in softening academic labour markets. The PhD by…

  20. The PhD and the Autonomous Self: Gender, Rationality and Postgraduate Pedagogy.

    ERIC Educational Resources Information Center

    Johnson, Lesley; Lee, Alison; Green, Bill

    2000-01-01

    Explores ideas of autonomy and the independent scholar that underpin traditional practices of postgraduate pedagogy, particularly PhD programs in the humanities and social sciences. Finds practices underlain by the gendered nature of ideas of autonomy and the paradoxical nature of the processes intended to produce the autonomous scholar self.…

  1. An Analysis of Written Feedback on a PhD Thesis

    ERIC Educational Resources Information Center

    Kumar, Vijay; Stracke, Elke

    2007-01-01

    This paper offers an interim analysis of written feedback on a first draft of a PhD thesis. It first looks at two sources of data: in-text feedback and overall feedback. Looking at how language is used in its situational context, we then coded the feedback and developed a model for analysis based on three fundamental functions of speech:…

  2. On-Going Dialogue: Degrees of Difference: The Ph.D. and the Ed.D.

    ERIC Educational Resources Information Center

    Carpenter, D. Stanley

    1987-01-01

    The controversy over Ph.D. vs. Ed.D. programs in higher education is examined, including discussion of differential research requirements and the ways in which traditional disciplines dominate thinking about the study of higher education. It is concluded that each field must define its own standards for each degree. (MSE)

  3. The Impact of Institutional Student Support on Graduation Rates in US Ph.D. Programmes

    ERIC Educational Resources Information Center

    Bolli, Thomas; Agasisti, Tommaso; Johnes, Geraint

    2015-01-01

    Using National Research Council data, we investigate the determinants of graduation rates in US Ph.D. programmes. We emphasise the impact that support and facilities offered to doctoral students have on completion rates. Significant, strong and positive effects are found for the provision of on-site graduate conferences and dedicated workspace,…

  4. PhD Pedagogy and the Changing Knowledge Landscapes of Universities

    ERIC Educational Resources Information Center

    Adkins, Barbara

    2009-01-01

    PhD supervision is increasingly embedded in frameworks that link research to issues of knowledge transfer involving the translation of knowledge to domains outside the university where it can be taken up and applied. This tends to require research that goes beyond traditional disciplinary boundaries and raises questions of the nature of knowledge…

  5. At a Distance: A Comparative Study of Distance Delivery Modalities for PhD Nursing Students

    ERIC Educational Resources Information Center

    Black, Andrew G.

    2010-01-01

    This study sought to ascertain and compare the attitudes and perceptions of PhD nursing students attending their coursework through synchronous and asynchronous means at two different universities. Many studies have been performed comparing both synchronous videoconferencing and asynchronous online education with the traditional classroom, but no…

  6. Learning to Write a Research Article: Ph.D. Students' Transitions toward Disciplinary Writing Regulation

    ERIC Educational Resources Information Center

    Castello, Montserrat; Inesta, Anna; Corcelles, Mariona

    2013-01-01

    This paper presents a study designed from a socially situated and activity theory perspective aimed at gaining a deeper understanding of how Ph.D. students regulate their academic writing activity. Writing regulation is a complex activity of a highly situated and social nature, involving cyclical thought-action-emotion dynamics and the…

  7. Factors Affecting Timely Completion of a PhD: A Complex Systems Approach

    ERIC Educational Resources Information Center

    Pitchforth, Jegar; Beames, Stephanie; Thomas, Aleysha; Falk, Matthew; Farr, Charisse; Gasson, Susan; Thamrin, Sri Astuti; Mengersen, Kerrie

    2012-01-01

    Completing a PhD on time is a complex process, influenced by many interacting factors. In this paper we take a Bayesian Network approach to analyzing the factors perceived to be important in achieving this aim. Focusing on a single research group in Mathematical Sciences, we develop a conceptual model to describe the factors considered to be…

  8. PhD and the Manager's Dream: Professionalising the Students, the Degree and the Supervisors?

    ERIC Educational Resources Information Center

    Matos, Frederico

    2013-01-01

    This article has two main aims: to analyse relevant literature on the doctoral degree, and to assess whether recent funding changes in the UK have changed the nature of the PhD in the social sciences in a research-intensive and prestigious UK university. Data were collected at BlueSkies University where interviews with social sciences PhD…

  9. Preparing Postbaccalaureates for Entry and Success in Biomedical PhD Programs

    ERIC Educational Resources Information Center

    Hall, Joshua D.; Harrell, Jessica R.; Cohen, Kimberley W.; Miller, Virginia L.; Phelps, Patricia V.; Cook, Jeanette G.

    2016-01-01

    Certain racial and ethnic groups, individuals with disabilities, and those from low socioeconomic backgrounds remain underrepresented (UR) in the biomedical sciences. This underrepresentation becomes more extreme at each higher education stage. To support UR scholars during the critical transition from baccalaureate to PhD, we established an…

  10. Imaginaries of "Europe" in the Governmentality of PhD Education

    ERIC Educational Resources Information Center

    Bergviken Rensfeldt, Annika

    2014-01-01

    This article examines the recent European governing of PhD education by describing and destabilizing how Europe, as a social construct, is inscribed in the governing in multiple ways. Conceptually, it aligns with post-Foucauldian research interests in imaginaries of societies, subjectivities, and politics of knowledge. Based on European policies…

  11. The Impact of Publishing during PhD Studies on Career Research Publication, Visibility, and Collaborations

    ERIC Educational Resources Information Center

    Horta, Hugo; Santos, João M.

    2016-01-01

    This study analyzes the impact that publishing during the period of PhD study has on researchers' future knowledge production, impact, and co-authorship. The analysis is based on a representative sample of PhDs from all fields of science working in Portugal. For each researcher in the dataset, we compiled a lifetime publication record and…

  12. Liberal Arts Colleges and the Production of PhD Economists

    ERIC Educational Resources Information Center

    Jefferson, Philip N.; Magenheim, Ellen

    2015-01-01

    Data from the National Science Foundation (2014) indicate that at least one PhD in economics was awarded to a Swarthmore College graduate in every year since 1966. The authors' purpose in this article is to consider factors that may have contributed to the high number of PhDs in economics awarded to Swarthmore College graduates. While there is…

  13. Content Analysis of PhD and EdD Dissertations in Special Education

    ERIC Educational Resources Information Center

    Walker, David W.; Haley-Mize, Shannon

    2012-01-01

    Previous research conducted by Nelson and Coorough (1994) found support for the statement that PhD programs were more research oriented, whereas doctorate of education (EdD) programs were more oriented to the educational practitioner. This previous study, however, had grouped all dissertations in education and had not looked at dissertations by…

  14. History of Spanish Mathematics Education Focusing on PhD Theses

    ERIC Educational Resources Information Center

    Vallejo-Ruiz, Monica; Fernandez-Cano, Antonio; Torralbo, Manuel; Maz, Alexander; Rico, Luis

    2008-01-01

    This article offers an overview of mathematics education in Spain, analyzing the production of PhD theses over the last 30 years. This period has been divided into four cycles that describe the evolution of Spanish research in the field of mathematics education, together with changes in university and social politics. This paper also includes a…

  15. The Focus and Substance of Formative Comment Provided by PhD Examiners

    ERIC Educational Resources Information Center

    Holbrook, Allyson; Bourke, Sid; Fairbairn, Hedy; Lovat, Terence

    2014-01-01

    In practice and process PhD examination is distinctive, reflecting the high expectations of students whose learning has been directed to their becoming researchers. This article builds on previous research on the examination of Australian theses that revealed that examiners in Science (n?=?542) and Education (n?=?241) provide a substantial…

  16. At the MLA, a Ph.D. Candidate Navigates the Jobs Gantlet

    ERIC Educational Resources Information Center

    Patton, Stacey

    2012-01-01

    It's the night before one of Javier Jimenez's big job interviews at the Modern Language Association (MLA) meeting. The 35-year-old graduate student, who is scheduled to earn his Ph.D. in comparative literature this spring from the University of California at Berkeley, is trying to ward off anxiety and abdominal pains. The mystique of the MLA, the…

  17. Regulating Emotions and Aiming for a Ph.D.: Excerpts from "Anthropology Matters"

    ERIC Educational Resources Information Center

    Hovland, Ingie

    2012-01-01

    In this article I will present a range of experiences of graduate socialisation that have been discussed in past articles in the journal "Anthropology Matters". These are the experiences of social anthropology Ph.D. students in the United Kingdom. The overarching theme for the article is "regulating emotions", and the excerpts…

  18. Managing Criticism in Ph.D. Supervision: A Qualitative Case Study

    ERIC Educational Resources Information Center

    Li, Sarah; Seale, Clive

    2007-01-01

    This article is part of a larger study which presents findings from an in-depth longitudinal case study of a student's Ph.D. journey. It shows how criticism is produced and managed in the supervisory relationship. As well as an overview of types of criticism produced across a range of supervisory interactions, the article presents a micro-analysis…

  19. Factors Influencing International PhD Students to Study Physics in Australia

    ERIC Educational Resources Information Center

    Choi, Serene H.-J.; Nieminen, Timo A.; Townson, Peter

    2012-01-01

    Since physics research is an activity of an active international community, international visits are a common way for physicists to share scientific knowledge and skills. International mobility of physicists is also important for PhD physics study and research training. We investigated personal and social factors that influenced the decision for…

  20. Determinants among PhD Economists of Membership in a Professional Association.

    ERIC Educational Resources Information Center

    Diamond, Arthur M., Jr.; Haurin, Donald R.

    1994-01-01

    Tested hypotheses about the value of American Economic Association (AEA) membership. An AEA economist is likely to be male, from a highly ranked PhD school, active in publishing research, highly cited for publications, and not in either the business administration or the agriculture subfields. The study involved 913 economists who received their…

  1. Extended Candidature and Non-Completion of a Ph.D. at Makerere University, Uganda

    ERIC Educational Resources Information Center

    Wamala, Robert; Ocaya, Bruno; Oonyu, Joseph C.

    2012-01-01

    Although student persistence in graduate programs is widely regarded as an important topic in the literature of higher education, many such works focus on the completion of studies. This paper examines the dynamics of attrition resulting in either delayed or non-completion of doctoral studies. Administrative data of 294 Ph.D. students at Makerere…

  2. From Student to Scholar: The Academic Library and Social Sciences PhD Students' Transformation

    ERIC Educational Resources Information Center

    Fleming-May, Rachel; Yuro, Lisa

    2009-01-01

    Although research concerning the information-seeking behavior of academic library users is abundant, few studies have focused specifically on PhD students. This oversight has had an impact on librarians' ability to effectively market services such as information literacy instruction and research assistance to doctoral students. In order to…

  3. Meet EPA Scientist Carolina Peñalva-Arana, Ph.D.

    EPA Pesticide Factsheets

    EPA scientist Carolina Peñalva-Arana, Ph.D., researches how to use molecular data to determine the health of an ecosystem. She and her colleagues are observing these tiny changes in ecosystem health to predict when an ecosystem is impaired earlier

  4. Learning Opportunities in PhD Supervisory Talks: A Social Constructionist Perspective

    ERIC Educational Resources Information Center

    Tian, Wenwen; Singhasiri, Wareesiri

    2016-01-01

    Although PhD supervision has been recognised as an educative process and a complex pedagogy for decades, there is little research into on-site pedagogic processes. Informed by social constructionism and a Foucauldian approach, this qualitative case study explores how learning opportunities were created by analysing both a supervisor's verbal…

  5. The Concept of "Originality" in the Ph.D.: How Is It Interpreted by Examiners?

    ERIC Educational Resources Information Center

    Clarke, Gillian; Lunt, Ingrid

    2014-01-01

    This paper explores ways in which examiners, supervisors and others interpret the concept of "originality" when evaluating candidates' achievements in the final Ph.D. examination. It is based on institutional responses to a question in a 2006 discussion paper on doctoral assessment about how universities define originality for the…

  6. Winning the PhD Game: Evocative Playing of Snakes and Ladders

    ERIC Educational Resources Information Center

    Dickie, Carolyn

    2011-01-01

    The purpose of this paper is to describe a qualitative approach to developing an understanding of the lived experiences of PhD students. Rather than relying on textbook reports and theories about studying a higher degree by research, by allowing the students' voices to be heard, explicit and conscious research can be used to generate appropriate…

  7. The Future of HRD: PhD and Master's Programs in Colleges of Business

    ERIC Educational Resources Information Center

    Allen, W. Clayton; Swanson, Richard A.; Dobbs, Rita L.; Morris, Michael Lane

    2006-01-01

    This symposium will highlight the systematic approach related to PhD and master's HRD programs uniquely situated in Colleges of Business. Strengths of these programs will be presented through identifying their collaboration with businesses, strong internship programs, external funding sources, and strong HR relationships in business, industry,…

  8. Classifying Australian PhD Theses: Linking Research and Library Practices

    ERIC Educational Resources Information Center

    Macauley, Peter; Evans, Terry; Pearson, Margot

    2010-01-01

    This article draws on the findings from, and the methods and approach used in the provision of a database of Australian PhD thesis records for the period 1987 to 2006, coded by Research Fields, Courses and Disciplines (RFCD) fields of study. Importantly, the project was not merely the creation of yet another database but something that constitutes…

  9. International Students' Motivation to Pursue and Complete a Ph.D. in the U.S.

    ERIC Educational Resources Information Center

    Zhou, Ji

    2015-01-01

    This study explores what motivates 19 international students to pursue a Ph.D. at a public research university in the U.S. and, more importantly, what motivates them to persist despite unsatisfying socialization. Based on value-expectancy achievement motivation theory, four motivations emerged: intrinsic interest in research, intrinsic interest in…

  10. Points of Focus and Position: Intertextual Reference in PhD Theses

    ERIC Educational Resources Information Center

    Thompson, Paul

    2005-01-01

    This paper investigates the nature of texts produced for assessment at the highest level of advanced academic literacy: PhD theses. Eight theses from within a single department (Agricultural Botany) at a British university are the subject of study, and the contexts in which these texts were written are investigated through interviews with the…

  11. Re-Envisioning the Arts PhD: Intellectual Entrepreneurship and the Intellectual Arts Leader

    ERIC Educational Resources Information Center

    Cherwitz, Richard A.; Beckman, Gary D.

    2006-01-01

    The authors of this article contend that most doctoral students in the arts do not fully appreciate the meaning of their PhD, and that the current system of graduate education perpetuates this phenomenon, with each generation of professors passing down their understanding of the doctorate to succeeding generations. The authors argue that what is…

  12. Ensuring PhD development of responsible conduct of research behaviors: who's responsible?

    PubMed

    Titus, Sandra L; Ballou, Janice M

    2014-03-01

    The importance of public confidence in scientific findings and trust in scientists cannot be overstated. Thus, it becomes critical for the scientific community to focus on enhancing the strategies used to educate future scientists on ethical research behaviors. What we are lacking is knowledge on how faculty members shape and develop ethical research standards with their students. We are presenting the results of a survey with 3,500 research faculty members. We believe this is the first report on how faculty work with and educate their PhD students on basic research standards. Specifically, we wanted to determine whether individual faculty members, who are advisors or mentors, differ in how they implemented components of responsible conduct of research (RCR) with their PhD students. Mentors were more likely than advisors or supervisors to report working with all of their PhDs, who graduated in the last 5 years, on the 17 recognized critical components of RCR training and research skill development. We also found about half of the faculty members believe RCR is an institutional responsibility versus a faculty responsibility. Less than a quarter have had opportunities to participate in faculty training to be a better mentor, advisor, or research teacher, and about one third of faculty did not or could not remember whether they had guidelines related to their responsibilities to PhD students. We discuss the implications of our findings and focus on ways that PhD research mentoring can be enhanced.

  13. The Ph.D. in English and Foreign Languages: A Conference Report.

    ERIC Educational Resources Information Center

    Association of Departments of English, New York, NY.

    This special issue presents the speeches, surveys, and workshop reports of the University of Texas Conference on the Research Component of the Ph.D. in English and Foreign Languages held in Austin in December 1972. Also included are updated papers and reports from the Purdue University Conference on Graduate Education held earlier in 1972.…

  14. A Dialogic about Using Facebook Status Updates for Education Research: A PhD Student's Journey

    ERIC Educational Resources Information Center

    Barnes, Naomi; Penn-Edwards, Sorrel; Sim, Cheryl

    2015-01-01

    Facebook status updates provided the data for a study about the transition learning experiences of 1st-year university students. Strict ethical guidelines were proposed by the PhD researcher from the outset of the study. Anonymity was considered important for the approved ethical clearance for both the university and the participants.…

  15. Competitive binding of a benzimidazole to the histone-binding pocket of the Pygo PHD finger.

    PubMed

    Miller, Thomas C R; Rutherford, Trevor J; Birchall, Kristian; Chugh, Jasveen; Fiedler, Marc; Bienz, Mariann

    2014-12-19

    The Pygo-BCL9 complex is a chromatin reader, facilitating β-catenin-mediated oncogenesis, and is thus emerging as a potential therapeutic target for cancer. Its function relies on two ligand-binding surfaces of Pygo's PHD finger that anchor the histone H3 tail methylated at lysine 4 (H3K4me) with assistance from the BCL9 HD1 domain. Here, we report the first use of fragment-based screening by NMR to identify small molecules that block protein-protein interactions by a PHD finger. This led to the discovery of a set of benzothiazoles that bind to a cleft emanating from the PHD-HD1 interface, as defined by X-ray crystallography. Furthermore, we discovered a benzimidazole that docks into the H3K4me specificity pocket and displaces the native H3K4me peptide from the PHD finger. Our study demonstrates the ligandability of the Pygo-BCL9 complex and uncovers a privileged scaffold as a template for future development of lead inhibitors of oncogenesis.

  16. Learning to Become Teacher Educators: Testimonies of Three PHD Students in China

    ERIC Educational Resources Information Center

    Yuan, Rui

    2015-01-01

    While there has been an increasing number of graduate students who enter teacher education after obtaining a higher research degree (e.g., PhD or EdD), scant attention has been paid to their professional learning as prospective teacher educators in higher education. To fill this gap, this study, informed by the social theory of learning,…

  17. Inhibition of the oxygen sensor PHD2 in the liver improves survival in lactic acidosis by activating the Cori cycle

    PubMed Central

    Suhara, Tomohiro; Hishiki, Takako; Kasahara, Masataka; Hayakawa, Noriyo; Oyaizu, Tomoko; Nakanishi, Tsuyoshi; Kubo, Akiko; Morisaki, Hiroshi; Kaelin, William G.; Suematsu, Makoto; Minamishima, Yoji Andrew

    2015-01-01

    Loss of prolyl hydroxylase 2 (PHD2) activates the hypoxia-inducible factor-dependent hypoxic response, including anaerobic glycolysis, which causes large amounts of lactate to be released from cells into the circulation. We found that Phd2-null mouse embryonic fibroblasts (MEFs) produced more lactate than wild-type MEFs, as expected, whereas systemic inactivation of PHD2 in mice did not cause hyperlacticacidemia. This unexpected observation led us to hypothesize that the hypoxic response activated in the liver enhances the Cori cycle, a lactate–glucose carbon recycling system between muscle and liver, and thereby decreases circulating lactate. Consistent with this hypothesis, blood lactate levels measured after a treadmill or lactate tolerance test were significantly lower in Phd2-liver-specific knockout (Phd2-LKO) mice than in control mice. An in vivo 13C-labeled lactate incorporation assay revealed that the livers of Phd2-LKO mice produce significantly more glucose derived from 13C-labeled lactate than control mice, suggesting that blockade of PHD2 in the liver ameliorates lactic acidosis by activating gluconeogenesis from lactate. Phd2-LKO mice were resistant to lactic acidosis induced by injection of a lethal dose of lactate, displaying a significant elongation of survival. Moreover, oral administration of a PHD inhibitor improved survival in an endotoxin shock mice model. These data suggest that PHD2 is a potentially novel drug target for the treatment of lactic acidosis, which is a serious and often fatal complication observed in some critically ill patients. PMID:26324945

  18. [Research misconduct: Knowledge, actions and attitudes of PhD candidates].

    PubMed

    Hofmann, Bjørn; Holm, Søren

    2016-09-01

    BACKGROUND Increasing attention is being paid to research misconduct in academic journals and in the media, but we know relatively little about its extent or attitudes to research misconduct, or how these are changing. This study therefore aims to investigate PhD candidates' knowledge, own actions and attitudes to specific forms of research misconduct.MATERIAL AND METHOD In autumn 2015, an anonymous questionnaire survey was distributed to all participants in the introductory course for PhD candidates at the Faculty of Medicine at the University of Oslo.RESULTS Altogether 77 PhD candidates (79 %) responded to the questionnaire. A total of 62 % conducted clinical research and 25 % conducted basic research. Around one in four had heard about serious forms of research misconduct in the previous year, and around 4 % were aware of various forms of serious research misconduct in their own department in the previous year. Compared to earlier studies, an increasing number (16 %) responded that they had been subjected to unethical pressure with regard to inclusion or order of authors. Approximately two-thirds were uncertain of whether their department had written policies for academic conduct. One-third of PhD candidates did not disassociate themselves from actions that are generally viewed as scientific misconduct. One-tenth thought it acceptable to falsify or fabricate data in order to expedite publication, one-fifth did not object to taking the credit for others' ideas, and almost half did not believe it was wrong to attempt a number of methods of analysis until one arrived at a significant answer.INTERPRETATION PhD candidates at the Faculty of Medicine were aware of research misconduct, both generally and from their own department. They themselves reported some type of scientific misconduct, and a large majority were uncertain of their department's guidelines. Some of the candidates also accepted several forms of research misconduct.

  19. The evaluation of reproductive health PhD program in Iran: The input indicators analysis

    PubMed Central

    AbdiShahshahani, Mahshid; Ehsanpour, Soheila; Yamani, Nikoo; Kohan, Shahnaz

    2014-01-01

    Background: Appropriate quality achievement of a PhD program requires frequent assessment and discovering the shortcomings in the program. Inputs, which are important elements of the curriculum, are frequently missed in evaluations. The purpose of this study was to evaluate the input indicators of reproductive health PhD program in Iran based on the Context, Input, Process, and Product (CIPP) evaluation model. Materials and Methods: This is a descriptive and evaluative study based on the CIPP evaluation model. It was conducted in 2013 in four Iranian schools of nursing and midwifery of medical sciences universities. Statistical population consisted of four groups: heads of departments (n = 5), faculty members (n = 18), graduates (n = 12), and PhD students of reproductive health (n = 54). Data collection tools were five separate questionnaires including 37 indicators that were developed by the researcher. Content and face validity were evaluated based on the experts’ indications. The Cronbach's alpha coefficient was calculated in order to obtain the reliability of the questionnaires. Collected data were analyzed by SPSS software. Data were analyzed by descriptive statistics (mean, frequency, percentage, and standard deviation), and one-way analysis of variance (ANOVA) and least significant difference (LSD) post hoc tests to compare means between groups. Results: The results of the study indicated that the highest percentage of the heads of departments (80%), graduates (66.7%), and students (68.5%) evaluated the status of input indicators of reproductive health PhD program as relatively appropriate, while most of the faculties (66.7%) evaluated that as appropriate. Conclusions: It is suggested to explore the reasons for relatively appropriate evaluation of input indicators by further academic researches and improve the reproductive health PhD program accordingly. PMID:25558260

  20. A National Content Analysis of PhD Program Objectives, Structures, and Curricula: Do Programs Address the Full Range of Social Work's Needs?

    ERIC Educational Resources Information Center

    Drisko, James; Hunnicutt, Christie; Berenson, Laura

    2015-01-01

    The Group for the Advancement of Doctoral Education (GADE) promotes excellence in PhD education in Social Work. GADE's 2013 Quality Guidelines for PhD Programs heavily emphasize preparation for research. Little is known, however, about the details of the contemporary social work PhD program structure and curriculum. Several prior surveys have…

  1. Obesity-induced kidney injury is attenuated by amelioration of aberrant PHD2 activation in proximal tubules

    PubMed Central

    Futatsugi, Koji; Tokuyama, Hirobumi; Shibata, Shinsuke; Naitoh, Makiko; Kanda, Takeshi; Minakuchi, Hitoshi; Yamaguchi, Shintaro; Hayashi, Koichi; Minamishima, Yoji Andrew; Yanagita, Motoko; Wakino, Shu; Itoh, Hiroshi

    2016-01-01

    The involvement of tissue ischemia in obesity-induced kidney injury remains to be elucidated. Compared with low fat diet (LFD)-mice, high fat diet (HFD)-fed mice became obese with tubular enlargement, glomerulomegaly and peritubular capillary rarefaction, and exhibited both tubular and glomerular damages. In HFD-fed mice, despite the increase in renal pimonidazole-positive areas, the expressions of the hypoxia-responsive genes such as Prolyl-hydroxylase PHD2, a dominant oxygen sensor, and VEGFA were unchanged indicating impaired hypoxic response. Tamoxifen inducible proximal tubules (PT)-specific Phd2 knockout (Phd2-cKO) mice and their littermate control mice (Control) were created and fed HFD or LFD. Control mice on HFD (Control HFD) exhibited renal damages and renal ischemia with impaired hypoxic response compared with those on LFD. After tamoxifen treatment, HFD-fed knockout mice (Phd2-cKO HFD) had increased peritubular capillaries and the increased expressions of hypoxia responsive genes compared to Control HFD mice. Phd2-cKO HFD also exhibited the mitigation of tubular damages, albuminuria and glomerulomegaly. In human PT cells, the increased expressions of hypoxia-inducible genes in hypoxic condition were attenuated by free fatty acids. Thus, aberrant hypoxic responses due to dysfunction of PHD2 caused both glomerular and tubular damages in HFD-induced obese mice. Phd2-inactivation provides a novel strategy against obesity-induced kidney injury. PMID:27827416

  2. The PHD finger of p300 influences its ability to acetylate histone and non-histone targets.

    PubMed

    Rack, Johannes G M; Lutter, Timo; Kjæreng Bjerga, Gro Elin; Guder, Corina; Ehrhardt, Christine; Värv, Signe; Ziegler, Mathias; Aasland, Rein

    2014-12-12

    In enzymes that regulate chromatin structure, the combinatorial occurrence of modules that alter and recognise histone modifications is a recurrent feature. In this study, we explored the functional relationship between the acetyltransferase domain and the adjacent bromodomain/PHD finger (bromo/PHD) region of the transcriptional coactivator p300. We found that the bromo/PHD region of p300 can bind to the acetylated catalytic domain in vitro and augment the catalytic activity of the enzyme. Deletion of the PHD finger, but not the bromodomain, impaired the ability of the enzyme to acetylate histones in vivo, whilst it enhanced p300 self-acetylation. A point mutation in the p300 PHD finger that is related to the Rubinstein-Taybi syndrome resulted in increased self-acetylation but retained the ability to acetylate histones. Hence, the PHD finger appears to negatively regulate self-acetylation. Furthermore, our data suggest that the PHD finger has a role in the recruitment of p300 to chromatin.

  3. Derivation of PHD-TBD filter and comments on `joint detection and estimation of multiple objects from image observations'

    NASA Astrophysics Data System (ADS)

    Shi, Zhi-guang; Zhang, Yan

    2016-09-01

    In this paper, through analyzing the derivation process and computer simulations, we find that the update formulas for PHD-TBD filter in paper [5] are somewhat unreasonably. When using the paper's PHD update formula, the targets' state parameters cannot be estimated. Following the method in paper 2, we treat the objects to be detected in TBD situations as special extended targets and derive a new PHD-TBD update formula analytically under this assumption. The correctness of the derivation is validated by computer simulations.

  4. Protein Interactions of the MLL PHD Fingers Modulate MLL Target Gene Regulation in Human Cells

    PubMed Central

    Fair, Keri; Anderson, Melanie; Bulanova, Elena; Mi, Huaifeng; Tropschug, Maximilian; Diaz, Manuel O.

    2001-01-01

    The PHD fingers of the human MLL and Drosophila trx proteins have strong amino acid sequence conservation but their function is unknown. We have determined that these fingers mediate homodimerization and binding of MLL to Cyp33, a nuclear cyclophilin. These two proteins interact in vitro and in vivo in mammalian cells and colocalize at specific nuclear subdomains. Overexpression of the Cyp33 protein in leukemia cells results in altered expression of HOX genes that are targets for regulation by MLL. These alterations are suppressed by cyclosporine and are not observed in cell lines that express a mutant MLL protein without PHD fingers. These results suggest that binding of Cyp33 to MLL modulates its effects on the expression of target genes. PMID:11313484

  5. Protein interactions of the MLL PHD fingers modulate MLL target gene regulation in human cells.

    PubMed

    Fair, K; Anderson, M; Bulanova, E; Mi, H; Tropschug, M; Diaz, M O

    2001-05-01

    The PHD fingers of the human MLL and Drosophila trx proteins have strong amino acid sequence conservation but their function is unknown. We have determined that these fingers mediate homodimerization and binding of MLL to Cyp33, a nuclear cyclophilin. These two proteins interact in vitro and in vivo in mammalian cells and colocalize at specific nuclear subdomains. Overexpression of the Cyp33 protein in leukemia cells results in altered expression of HOX genes that are targets for regulation by MLL. These alterations are suppressed by cyclosporine and are not observed in cell lines that express a mutant MLL protein without PHD fingers. These results suggest that binding of Cyp33 to MLL modulates its effects on the expression of target genes.

  6. The training, careers, and work of Ph.D. physical scientists: Not simply academic

    NASA Astrophysics Data System (ADS)

    Smith, Steven J.; Pedersen-Gallegos, Liane; Riegle-Crumb, Catherine

    2002-11-01

    We present an in-depth portrait of the training, careers, and work of recent Ph.D. physical scientists. Use of specialized training varies widely, with about half often using knowledge of their Ph.D. specialty area in their jobs. The use of specialized training does not, however, correlate with job satisfaction. In this and other important measures, there are relatively few differences between "academics" and "nonacademics." Important job skills for all employment sectors include writing, oral presentation, management, data analysis, designing projects, critical thinking, and working in an interdisciplinary context. Rankings given by respondents of graduate training in some of these skill areas were significantly lower than the importance of these skills in the workplace. We also found that the rated quality of graduate training varies relatively little by department or advisor. Finally, although nonacademic aspirations among graduate students are fairly common, these do not appear to be well supported while in graduate school.

  7. Examining the British PhD viva: opening new doors or scarring for life?

    PubMed

    Carter, Bernie; Whittaker, Karen

    2009-01-01

    The PhD viva -- regardless of its format -- has the potential to be a significant rite of passage for the student. It is an experience that can resonate for months or years afterwards. Part of the challenge is that for everyone involved -- student, supervisory team and examiners -- a degree of end-point uncertainty exists. These ambiguities and tensions are perhaps an inherent part of any examination but are particularly characteristic of the examination of the individual and unique body of work that constitutes the doctoral thesis. In recent years, increased attention has been placed on the processes that surround the examination, aiming to increase transparency, consistency and fairness. However, the process of examining a student and their thesis remains challenging and is surrounded by different agendas, ideologies and practices. This paper examines some of the issues surrounding the PhD viva, primarily focusing on the British viva whilst weaving in commentary about the Australian system.

  8. Including systematic reviews in PhD programmes and candidatures in nursing - 'Hobson's choice'?

    PubMed

    Olsson, Cecilia; Ringnér, Anders; Borglin, Gunilla

    2014-03-01

    Nowadays, gathering and synthesising evidence, i.e. conducting systematic reviews, is considered an important part of any health service research endeavour. Reviewing the literature, however suggest that it is not yet common that PhD students/doctoral candidates publish systematic reviews or even include a high quality review of the literature as a part of their PhD programme or candidature. Implying that systematic reviewing skills might not be acquired by going through an education on a postgraduate level. Additionally, scholars debating systematic reviews 'to be or not to be' as a part of research training seem to be sparse, especially within the field of nursing. In this issue for debate, we would like to propose that the absence of systematic reviews' in this context might severely hamper the 'up and coming' researchers as well as the research conducted. We envisage that this lack can have a negative impact on international nursing practice, and therefore propose that systematic reviews should be considered, whenever appropriate, as a mandatory part of any PhD programme or candidature. We believe that abilities in systematic reviewing will be a sought after research skills in the near future. Including systematic reviews would promote i) refined, well-grounded adequate research questions, ii) PhDs with broad and elevated methodological skills, iii) an increased level of evidence based nursing praxis. However, to make this a reality, supervisors, PhD students, and candidates would need to understand the value of this kind of research activity. Finally, lobbying University faculty boards and grant providers that are not inclined to view literature reviews as 'proper' research or as an important part of health service research, needs to be put on the agenda.

  9. Earth and Space Science Ph.D. Class of 2003 Report released

    NASA Astrophysics Data System (ADS)

    Keelor, Brad

    AGU and the American Geological Institute (AGI) released on 26 July an employment study of 180 Earth and space science Ph.D. recipients who received degrees from U.S. universities in 2003. The AGU/AGI survey asked graduates about their education and employment, efforts to find their first job after graduation, and experiences in graduate school. Key results from the study include: The vast majority (87%) of 2003 graduates found work in the Earth and space sciences, earning salaries commensurate with or slightly higher than 2001 and 2002 salary averages. Most (64%) graduates were employed within academia (including postdoctoral appointments), with the remainder in government (19%), industry (10%), and other (7%) sectors. Most graduates were positive about their employment situation and found that their work was challenging, relevant, and appropriate for someone with a Ph.D. The percentage of Ph.D. recipients accepting postdoctoral positions (58%) increased slightly from 2002. In contrast, the fields of physics and chemistry showed significant increases in postdoctoral appointments for Ph.D.s during the same time period. As in previous years, recipients of Ph.D.s in the Earth, atmospheric, and ocean sciences (median age of 32.7 years) are slightly older than Ph.D. recipients in most other natural sciences (except computer sciences), which is attributed to time taken off between undergraduate and graduate studies. Women in the Earth, atmospheric,and ocean sciences earned 33% of Ph.D.s in the class of 2003, surpassing the percentage of Ph.D.s earned by women in chemistry (32%) and well ahead of the percentage in computer sciences (20%), physics (19%), and engineering (17%). Participation of other underrepresented groups in the Earth, atmospheric, and ocean sciences remained extremely low.

  10. Time to the Doctorate and Labor Demand for New PhD Recipients

    ERIC Educational Resources Information Center

    Groen, Jeffrey A.

    2012-01-01

    This paper considers the influence of labor demand for new PhD recipients on time to the doctorate. I use student-level data on all doctorates awarded by U.S. universities in seven humanities and social science fields together with the annual number of job listings by field from 1975 to 2005. An increase in the number of job listings in a field…

  11. Pathways to the PhD in Nursing: An Analysis of Similarities and Differences.

    PubMed

    Nehls, Nadine; Barber, Gale; Rice, Elizabeth

    2016-01-01

    New educational pathways are needed to increase the number of doctor of philosophy (PhD)-prepared nurses. To address this need, an early-entry PhD option designed to engage students in PhD coursework and research during the undergraduate nursing major was developed at the University of Wisconsin-Madison. An evaluation comparing the early-entry option with two more conventional entry points was conducted. Three groups (N = 84) comprised the sample: (a) early-entry students admitted as undergraduates or immediately upon graduation (N = 29), (b) mid-entry students with baccalaureate degrees and at least 1 year of work experience (N = 27), and (c) delayed-entry students with master's degrees and 1 or more years of work experience (N = 28). Qualitative and quantitative data were collected from the 3 groups of students who were admitted from 2002 to 2011. The sources of data were transcriptions of individual interviews and reviews of existing data. Seventy-seven percent of the sample participated in the individual interviews. The database review included all students who matriculated into the PhD program. Common themes among the 3 groups included a need for educational funding, the importance of a faculty mentor, and concern about preparation for the teaching role and the academic work environment. The groups were also comparable in terms of research productivity during doctoral study and postgraduation employment. Differences were found on measures of diversity, program progression, and perceptions of clinical competence. The findings provide needed data for the development and expansion of educational pathways to the PhD in nursing.

  12. PhD by publication: a prospective as well as retrospective award? Some subversive thoughts.

    PubMed

    Davies, Ruth E; Rolfe, Gary

    2009-08-01

    Although the discipline of nurse education within the UK has been part of the higher education sector since the 1950s, relatively few nurse academics currently hold a doctorate. This has implications at a national, local and personal level, and can be partly accounted for by the particular demographic and work issues faced by nurse academics, together with issues about the nature of the traditional PhD itself as a suitable and relevant qualification in the discipline of nurse education. As an alternative, we suggest a route to a PhD that takes advantage of the regulations already in place in many Higher Education Institutions (HEIs) for a 'staff doctorate' by publication and which has been set up to accredit academic staff who have a corpus of published papers. In addition to this retrospective PhD by publication we also suggest that that the prospective route to a PhD by publication be promoted, based on established programmes in Europe and Australia. We argue that both routes address many of the issues and difficulties faced by nurse academics, their HEIs and the discipline generally and are relevant to other countries in the developed world as well as the UK. Promotion of these routes will give individual tutors and lecturers the opportunity for academic, professional and personal development within their own organisation and at the same time enable HEIs within the developed world to increase their overall performance in the next Research Excellence Framework (or equivalent depending on their country), thus enhancing the standing and reputation of nursing as an academic discipline.

  13. MS PHD'S: A successful model for reaching underrepresented minorities (URM) students through virtual platforms

    NASA Astrophysics Data System (ADS)

    Scott, O.; Johnson, A.; Williamson, V.; Ricciardi, L.; Jearld, A., Jr.; Guzman, W. I.

    2014-12-01

    To successfully recruit and retain underrepresented minority (URM) students and early career scientists, many programs supplement traditional curricular activities with multiple online platforms, establishing "virtual communities" that are free and easily accessible. These virtual communities offer readily sustainable opportunities to facilitate communication across a wide range of cultural lines and socioeconomic levels thereby broadening participation and inclusivity in STEM. Established in 2003, the Minorities Striving and Pursuing Higher Degrees of Success (MS PHD'S) in Earth System Science Professional Development Program has successfully used virtual community tools such as a listserv, community forum, social media, and VoIP technologies, to extend the face-to-face activities of the program and support the advancement of URM students and early career scientists in STEM. The use of multiple facets of virtual community by MS PHD'S participants supports and encourages "real life" interactions and mentorship, facilitates networking and professional development, and maintains continuity of shared networks. The program is now in its ninth cohort and supports 213 participants. To date, 54 participants have completed their PhD and another 61 are currently enrolled in doctoral programs.

  14. Research Career Persistence for Solar and Space Physics PhD

    NASA Astrophysics Data System (ADS)

    Moldwin, Mark B.; Morrow, Cherilynn

    2016-06-01

    Results from a recent graduate student survey found unsurprisingly that Solar and Space Physics (S&SP) PhD graduate students almost all aspire to have research careers in Solar and Space Physics. This study reports on the research career persistence over the first decade of the new millennium for S&SP PhDs. We used publication of science citation indexed articles as the indicator for persistence in a research career. We found that nearly two thirds (64%) of PhDs who graduated between 2001 and 2009 published refereed papers in 2012 or 2013, while 17% of PhDs never published another paper beyond the year they received their PhD. The remaining 19% of PhDs stopped publishing within three years of receiving their PhD. We found no gender difference between research persistence. We also found that though there is statistically no difference on persistence of publishing research between graduates of the largest programs compared to all other programs, there are significant differences between individual programs. This study indicates that a majority of S&SP PhDs find research careers but that a significant fraction pursue careers where publishing in science citation indexed journals is not required. Graduate programs, advisors, and potential graduate students can use these data for career planning and developing mentoring programs that meet the career outcomes of all of their graduates.

  15. Increasing Diversity in Physics at the PhD Level and Beyond

    NASA Astrophysics Data System (ADS)

    Stassun, Keivan

    2014-03-01

    We briefly review the current status of underrepresented minorities in physics: The underrepresentation of Blacks, Hispanics, and Native Americans is an order of magnitude problem. We then describe the Fisk-Vanderbilt Masters-to-PhD Bridge program as a successful model for addressing this problem. Since 2004 the program has admitted 67 students, 60 of them underrepresented minorities (50% female), with a retention rate of 90%. Already, the program is the top producer of African American master's degrees in physics, and is the top producer of minority PhDs in astronomy, materials science, and physics. We summarize the main features of the program including its core strategies: (1) replacing the GRE in admissions with indicators that are better predictive of long-term success, (2) partnering with a minority-serving institution for student training through collaborative research, and (3) using the master's degree as a deliberate stepping stone to the PhD. We show how misuse of the GRE in graduate admissions may by itself in large part explain the ongoing underrepresentation of minorities in PhD programs, and we describe our alternate methods to identify talented individuals most likely to succeed. We describe our mentoring model and toolkit which may be utilized to enhance the success of all PhD students.

  16. ISO/IEEE 11073 PHD message generation toolkit to standardize healthcare device.

    PubMed

    Lim, Joon-Ho; Park, Chanyong; Park, Soo-Jun; Lee, Kyu-Chul

    2011-01-01

    As senior population increases, various healthcare devices and services are developed such as fall detection device, home hypertension management service, and etc. However, to vitalize healthcare devices and services market, standardization for interoperability between device and service must precede. To achieve the standardization goal, the IEEE 11073 Personal Health Device (PHD) group has been standardized many healthcare devices, but until now there are few devices compatible with the PHD standard. One of main reasons is that it isn't easy for device manufactures to implement standard communication module by analyzing standard documents of over 600 pages. In this paper, we propose a standard message generation toolkit to easily standardize existing non-standard healthcare devices. The proposed toolkit generates standard PHD messages using inputted device information, and the generated messages are adapted to the device with the standard state machine file. For the experiments, we develop a reference H/W, and test the proposed toolkit with three healthcare devices: blood pressure, weighting scale, and glucose meter. The proposed toolkit has an advantage that even if the user doesn't know the standard in detail, the user can easily standardize the non-standard healthcare devices.

  17. Advancing Minorities and Women to the PhD in Physics and Astronomy

    NASA Astrophysics Data System (ADS)

    Stassun, Keivan

    2017-01-01

    We briefly review the current status of underrepresented minorities in physics and astronomy: The underrepresentation of Black-, Hispanic-, and Native-Americans is an order of magnitude problem. We then describe the Fisk-Vanderbilt Masters-to-PhD Bridge program as a successful model for addressing this problem. Since 2004 the program has admitted 110 students, 90% of them underrepresented minorities (50% female), with a retention rate of 90%. The program has become the top producer of African American master's degrees in physics, and is now one of the top producers of minority PhDs in astronomy, materials science, and physics. We summarize the main features of the program including its core strategies: (1) replacing the GRE in admissions with indicators that are better predictive of long-term success, (2) partnering with a minority-serving institution for student training through collaborative research, and (3) using the master's degree as a deliberate stepping stone to the PhD. We show how misuse of the GRE in graduate admissions may by itself in large part explain the ongoing underrepresentation of minorities in PhD programs, and we describe our alternate methods to identify talented individuals most likely to succeed. We describe our mentoring model and toolkit which may be utilized to enhance the success of all PhD students.

  18. Prolyl hydroxylase domain-2 (PHD2) inhibition may be a better therapeutic strategy in renal anemia.

    PubMed

    Soni, Hitesh

    2014-05-01

    Recombinant human erythropoietin (rHuEPO) has revolutionized the life of dialysis patients with anemia of chronic kidney disease (CKD). Newer erythropoietin analogues with improved profile have been introduced recently. However, there are many concerns such as safety, economy and patient compliance with these newer rHuEPo analogues. Small molecules aimed to inhibit prolyl hydroxylase domain-2 (PHD2) may prevent degradation of hypoxia inducible factor-2 (HIF2) which leads to endogenous erythropoietin production. This therapeutic intervention may not only overcome the patient compliance and economic burden but also possibly overcome the safety issues related to rHuEPO and its analogues. Moreover, PHD2 inhibitors may increase the endogenous circulating iron availability via suppression of hepcidin, a master regulator of iron homeostasis which further reduces the need for exogenous intravenous iron administration for effective erythropoiesis in renal anemia patients. In conclusion, small molecule PHD2 inhibitors may have better therapeutic efficacy and potential to address clinical concerns associated with rHuEPO and rHuEPO mimetic peptides.

  19. Using Simulation in Nursing PhD Education: Facilitating Application of Responsible Conduct of Research Principles.

    PubMed

    Clayton, Margaret F; Supiano, Katherine; Wilson, Rebecca; Lassche, Madeline; Latendresse, Gwen

    Simulation is a standard clinical nursing educational approach; however, simulation is rarely used in nonclinical nursing education. In doctor of philosophy (PhD) programs, ethical content about responsible conduct of research (RCR) is traditionally didactic, presented early in the program of study. Ethics content merits review before students begin the dissertation phase; thus, the purpose of this project was to design and implement simulated scenarios to help students apply RCR principles prior to beginning independent research. Two scenarios were developed: (a) a potential protocol change discussed in a research team meeting and (b) an in-home data collection experience with an elderly participant and her daughter. Actors were trained faculty volunteers, playing roles outside their usual academic positions. Faculty facilitated scenarios by posing questions as cues related to desired learning outcomes as scenarios unfolded. Eleven nursing PhD students and 6 faculty participated. Debriefing facilitated discussion of RCR principles, common research quandaries, and suggested scenario revisions. Faculty, expert observation, and video-review showed that younger and less experienced students tried to give the "right" answer rather than implement RCR appropriate solutions. Students with more clinical experience had difficulty adopting the less familiar researcher role. Overall, simulation is a novel and useful way to enhance RCR content in PhD programs.

  20. Educating future nursing scientists: Recommendations for integrating omics content in PhD programs.

    PubMed

    Conley, Yvette P; Heitkemper, Margaret; McCarthy, Donna; Anderson, Cindy M; Corwin, Elizabeth J; Daack-Hirsch, Sandra; Dorsey, Susan G; Gregory, Katherine E; Groer, Maureen W; Henly, Susan J; Landers, Timothy; Lyon, Debra E; Taylor, Jacquelyn Y; Voss, Joachim

    2015-01-01

    Preparing the next generation of nursing scientists to conduct high-impact, competitive, sustainable, innovative, and interdisciplinary programs of research requires that the curricula for PhD programs keep pace with emerging areas of knowledge and health care/biomedical science. A field of inquiry that holds great potential to influence our understanding of the underlying biology and mechanisms of health and disease is omics. For the purpose of this article, omics refers to genomics, transcriptomics, proteomics, epigenomics, exposomics, microbiomics, and metabolomics. Traditionally, most PhD programs in schools of nursing do not incorporate this content into their core curricula. As part of the Council for the Advancement of Nursing Science's Idea Festival for Nursing Science Education, a work group charged with addressing omics preparation for the next generation of nursing scientists was convened. The purpose of this article is to describe key findings and recommendations from the work group that unanimously and enthusiastically support the incorporation of omics content into the curricula of PhD programs in nursing. The work group also calls to action faculty in schools of nursing to develop strategies to enable students needing immersion in omics science and methods to execute their research goals.

  1. Management of Stress and Anxiety Among PhD Students During Thesis Writing: A Qualitative Study.

    PubMed

    Bazrafkan, Leila; Shokrpour, Nasrin; Yousefi, Alireza; Yamani, Nikoo

    2016-01-01

    Today, postgraduate students experience a variety of stresses and anxiety in different situations of academic cycle. Stress and anxiety have been defined as a syndrome shown by emotional exhaustion and reduced personal goal achievement. This article addresses the causes and different strategies of coping with this phenomena by PhD students at Iranian Universities of Medical Sciences. The study was conducted by a qualitative method using conventional content analysis approach. Through purposive sampling, 16 postgraduate medical sciences PhD students were selected on the basis of theoretical sampling. Data were gathered through semistructured interviews and field observations. Six hundred fifty-four initial codes were summarized and classified into 4 main categories and 11 subcategories on the thematic coding stage dependent on conceptual similarities and differences. The obtained codes were categorized under 4 themes including "thesis as a major source of stress," "supervisor relationship," "socioeconomic problem," and "coping with stress and anxiety." It was concluded that PhD students experience stress and anxiety from a variety of sources and apply different methods of coping in effective and ineffective ways. Purposeful supervision and guidance can reduce the cause of stress and anxiety; in addition, coping strategy must be in a thoughtful approach, as recommended in this study.

  2. PHD3 Loss in Cancer Enables Metabolic Reliance on Fatty Acid Oxidation via Deactivation of ACC2.

    PubMed

    German, Natalie J; Yoon, Haejin; Yusuf, Rushdia Z; Murphy, J Patrick; Finley, Lydia W S; Laurent, Gaëlle; Haas, Wilhelm; Satterstrom, F Kyle; Guarnerio, Jlenia; Zaganjor, Elma; Santos, Daniel; Pandolfi, Pier Paolo; Beck, Andrew H; Gygi, Steven P; Scadden, David T; Kaelin, William G; Haigis, Marcia C

    2016-09-15

    While much research has examined the use of glucose and glutamine by tumor cells, many cancers instead prefer to metabolize fats. Despite the pervasiveness of this phenotype, knowledge of pathways that drive fatty acid oxidation (FAO) in cancer is limited. Prolyl hydroxylase domain proteins hydroxylate substrate proline residues and have been linked to fuel switching. Here, we reveal that PHD3 rapidly triggers repression of FAO in response to nutrient abundance via hydroxylation of acetyl-coA carboxylase 2 (ACC2). We find that PHD3 expression is strongly decreased in subsets of cancer including acute myeloid leukemia (AML) and is linked to a reliance on fat catabolism regardless of external nutrient cues. Overexpressing PHD3 limits FAO via regulation of ACC2 and consequently impedes leukemia cell proliferation. Thus, loss of PHD3 enables greater utilization of fatty acids but may also serve as a metabolic and therapeutic liability by indicating cancer cell susceptibility to FAO inhibition.

  3. A Nontraditional PhD Program in a Traditional World: A Story of Blended Strategies and Students

    ERIC Educational Resources Information Center

    Nordyke, Shane; Palmer, Daniel; Anderson, William; Braunstein, Rich; Fairholm, Matt

    2011-01-01

    PhD programs in the United States are increasingly marked by the rising influence of market-oriented dynamics. As a case in point, one of the primary objectives of the new PhD program offered at the University of South Dakota is to deliver a doctoral program through a flexible--or hybrid--format that is accessible to nontraditional as well as…

  4. Distinct deregulation of the hypoxia inducible factor by PHD2 mutants identified in germline DNA of patients with polycythemia

    PubMed Central

    Ladroue, Charline; Hoogewijs, David; Gad, Sophie; Carcenac, Romain; Storti, Federica; Barrois, Michel; Gimenez-Roqueplo, Anne-Paule; Leporrier, Michel; Casadevall, Nicole; Hermine, Olivier; Kiladjian, Jean-Jacques; Baruchel, André; Fakhoury, Fadi; Bressac-de Paillerets, Brigitte; Feunteun, Jean; Mazure, Nathalie; Pouysségur, Jacques; Wenger, Roland H.; Richard, Stéphane; Gardie, Betty

    2012-01-01

    Background Congenital secondary erythrocytoses are due to deregulation of hypoxia inducible factor resulting in overproduction of erythropoietin. The most common germline mutation identified in the hypoxia signaling pathway is the Arginine 200-Tryptophan mutant of the von Hippel-Lindau tumor suppressor gene, resulting in Chuvash polycythemia. This mutant displays a weak deficiency in hypoxia inducible factor α regulation and does not promote tumorigenesis. Other von Hippel-Lindau mutants with more deleterious effects are responsible for von Hippel-Lindau disease, which is characterized by the development of multiple tumors. Recently, a few mutations in gene for the prolyl hydroxylase domain 2 protein (PHD2) have been reported in cases of congenital erythrocytosis not associated with tumor formation with the exception of one patient with a recurrent extra-adrenal paraganglioma. Design and Methods Five PHD2 variants, four of which were novel, were identified in patients with erythrocytosis. These PHD2 variants were functionally analyzed and compared with the PHD2 mutant previously identified in a patient with polycythemia and paraganglioma. The capacity of PHD2 to regulate the activity, stability and hydroxylation of hypoxia inducible factor α was assessed using hypoxia-inducible reporter gene, one-hybrid and in vitro hydroxylation assays, respectively. Results This functional comparative study showed that two categories of PHD2 mutants could be distinguished: one category with a weak deficiency in hypoxia inducible factor α regulation and a second one with a deleterious effect; the mutant implicated in tumor occurrence belongs to the second category. Conclusions As observed with germline von Hippel-Lindau mutations, there are functional differences between the PHD2 mutants with regards to hypoxia inducible factor regulation. PHD2 mutation carriers do, therefore, need careful medical follow-up, since some mutations must be considered as potential candidates for

  5. Prolyl hydroxylase 2 (PHD2) inhibition protects human renal epithelial cells and mice kidney from hypoxia injury

    PubMed Central

    Zhong, Yihong; Ding, Xiaoqiang

    2016-01-01

    Prolyl hydroxylase domain protein 2 (PHD2) is a key oxygen sensor, setting low steady-state level of hypoxia-inducible factor-α (HIF-α). Here, we showed that treatment of cobalt chloride (CoCl2), a hypoxia mimic, in HK-2 tubular epithelial cells induced PHD2 and HIF-1/2α expression as well as cell apoptosis and autophagy activation. Three methyladenine (3-MA), the autophagy inhibitor, blocked autophagy and protected HK-2 cells from CoCl2. Significantly, siRNA knockdown of PHD2 also protected HK-2 cells from CoCl2, possibly via increasing HIF-1α expression. Reversely, HIF-1α siRNA knockdown almost abolished cytoprotection by PHD2 siRNA in CoCl2-treated HK-2 cells. In vivo, pretreatment with a PHD inhibitor L-mimosine remarkably attenuated mice renal ischemia-reperfusion injuries. Molecularly, L-mimosine inhibited apoptosis and inflammatory responses in injured mice kidneys. Together, our results suggest that PHD2 silence or inhibition protects human renal epithelial cells and mice kidney from hypoxia injuries. PMID:27527871

  6. Chapter 21: Hyperplasia of Pulmonary Neuroepithelial Bodies (NEB) in Lungs of Prolyl Hydroxylase –1(PHD-1) Deficient Mice

    PubMed Central

    Pan, Jie; Yeger, Herman; Ratcliffe, Peter; Bishop, Tammie

    2017-01-01

    Pulmonary NEB, widely distributed within the airway mucosa of mammalian lungs, are presumed hypoxia sensitive airway O2 sensors responding to changes in airway gas concentration. NEB cell hyperplasia has been reported after exposure to chronic hypoxia and in a variety of paediatric and adult lung disorders. Prolyl hydroxylases (PHD 1–3) regulate the stability of hypoxia-inducible factors (HIF’s) in an O2-dependent manner and function as intrinsic oxygen sensors. To determine a possible role of PHD-1in NEB cells we have quantitated NEB’s in lungs of neonatal (P2) and adult (2 months) PHD-1-deficient mice and compared them to wild type (WT) control mice. Lung tissues fixed in formalin and embedded in paraffin were processed for immunoperoxidase method and frozen sections for multilabel immunoflourescence using antibodies for NEB markers synaptophysin, synaptic vesicle protein 2 and the peptide CGRP. The frequency and size of NEB in lungs of PHD-1 deficient neonatal mice (P2) and at 2 months was increased significantly compared to WT controls (p < 0.01). The present data suggests an important role for PHD enzymes in NEB cell biology deserving further studies. Since the PHD-1 deficient mouse appears to be the first animal model showing NEB cell hyperplasia it may be useful for studies of NEB physiology and pathobiology. PMID:23080156

  7. Biomedical Science Ph.D. Career Interest Patterns by Race/Ethnicity and Gender.

    PubMed

    Gibbs, Kenneth D; McGready, John; Bennett, Jessica C; Griffin, Kimberly

    2014-01-01

    Increasing biomedical workforce diversity remains a persistent challenge. Recent reports have shown that biomedical sciences (BMS) graduate students become less interested in faculty careers as training progresses; however, it is unclear whether or how the career preferences of women and underrepresented minority (URM) scientists change in manners distinct from their better-represented peers. We report results from a survey of 1500 recent American BMS Ph.D. graduates (including 276 URMs) that examined career preferences over the course of their graduate training experiences. On average, scientists from all social backgrounds showed significantly decreased interest in faculty careers at research universities, and significantly increased interest in non-research careers at Ph.D. completion relative to entry. However, group differences emerged in overall levels of interest (at Ph.D. entry and completion), and the magnitude of change in interest in these careers. Multiple logistic regression showed that when controlling for career pathway interest at Ph.D. entry, first-author publication rate, faculty support, research self-efficacy, and graduate training experiences, differences in career pathway interest between social identity groups persisted. All groups were less likely than men from well-represented (WR) racial/ethnic backgrounds to report high interest in faculty careers at research-intensive universities (URM men: OR 0.60, 95% CI: 0.36-0.98, p = 0.04; WR women: OR: 0.64, 95% CI: 0.47-0.89, p = 0.008; URM women: OR: 0.46, 95% CI: 0.30-0.71, p<0.001), and URM women were more likely than all other groups to report high interest in non-research careers (OR: 1.93, 95% CI: 1.28-2.90, p = 0.002). The persistence of disparities in the career interests of Ph.D. recipients suggests that a supply-side (or "pipeline") framing of biomedical workforce diversity challenges may limit the effectiveness of efforts to attract and retain the best and most diverse

  8. Factors that facilitate or inhibit interest of domestic students in the engineering PhD: A mixed methods study

    NASA Astrophysics Data System (ADS)

    Howell Smith, Michelle C.

    Given the increasing complexity of technology in our society, the United States has a growing demand for a more highly educated technical workforce. Unfortunately, the proportion of United States citizens earning a PhD in engineering has been declining and there is concern about meeting the economic, national security and quality of life needs of our country. This mixed methods sequential exploratory instrument design study identified factors that facilitate or inhibit interest in engineering PhD programs among domestic engineering undergraduate students in the United States. This study developed a testable theory for how domestic students become interested in engineering PhD programs and a measure of that process, the Exploring Engineering Interest Inventory (EEII). The study was conducted in four phases. The first phase of the study was a qualitative grounded theory exploration of interest in the engineering PhD. Qualitative data were collected from domestic engineering students, engineering faculty and industry professional who had earned a PhD in engineering. The second phase, instrument development, developed the Exploring Engineering Interest Inventory (EEII), a measurement instrument designed with good psychometric properties to test a series of preliminary hypotheses related to the theory generated in the qualitative phase. In the third phase of the study, the EEII was used to collect data from a larger sample of junior and senior engineering majors. The fourth phase integrated the findings from the qualitative and quantitative phases. Four factors were identified as being significant influences of interest in the engineering PhD: Personal characteristics, educational environment, misperceptions of the economic and personal costs, and misperceptions of engineering work. Recommendations include increasing faculty encouragement of students to pursue an engineering PhD and programming to correct the misperceptions of the costs of the engineering PhD and the

  9. PHD finger of the SUMO ligase Siz/PIAS family in rice reveals specific binding for methylated histone H3 at lysine 4 and arginine 2.

    PubMed

    Shindo, Heisaburo; Suzuki, Rintaro; Tsuchiya, Wataru; Taichi, Misako; Nishiuchi, Yuji; Yamazaki, Toshimasa

    2012-06-21

    We determined the three-dimensional structure of the PHD finger of the rice Siz/PIAS-type SUMO ligase, OsSiz1, by NMR spectroscopy and investigated binding ability for a variety of methylated histone H3 tails, showing that OsSiz1-PHD primarily recognizes dimethylated Arg2 of the histone H3 and that methylations at Arg2 and Lys4 reveal synergy effect on binding to OsSiz1-PHD. The K4 cage of OsSiz1-PHD for trimethylated Lys4 of H3K4me3 was similar to that of the BPTF-PHD finger, while the R2 pocket for Arg2 was different. It is intriguing that the PHD module of Siz/PIAS plays an important role, with collaboration with the DNA binding domain SAP, in gene regulation through SUMOylation of a variety of effectors associated with the methylated arginine-riched chromatin domains.

  10. Building Better Bridges: An Evaluation of The Bridge to the Ph.D. Program

    NASA Astrophysics Data System (ADS)

    Ellyn Sanderson, Robyn; Lobel, Caroline; Agueros, Marcel A.; Anderson, Vanessa; Ash, Summer; Purdie-Vaughns, Valerie; Romero-Canyas, Rainer; Walker, Erica

    2016-01-01

    Columbia University's Bridge to the Ph.D. in the Natural Sciences Program is increasing the number of underrepresented scholars entering graduate programs and equipping them to succeed in these programs. In a given year, three to five Bridge participants are hired as full-time Columbia University research assistants for up to two years. Now in its seventh year, the Program supports seven participants, and its alumni (including five astronomers) have gone on to Ph.D. programs across the country. Although to date fewer than 40 people have participated in the Program, a number too small for an exclusively statistical evaluation of its effectiveness, we are collecting invaluable longitudinal data on the career progressions of underrepresented aspiring scientists across the natural sciences. At least a dozen Bridge alumni will earn their Ph.D. in the next two-three years, and we will then learn much more about the impact that the Bridge Program has had on our participants' trajectories. Among other things, we hope to use these data to determine the Program's effectiveness in developing feelings of self-efficacy and participants' confidence in their ability to succeed in doctoral programs, to measure the rate at which Bridge alumni successfully complete doctoral programs relative to their peers, and to identify the aspects of the Program that participants find most helpful to their progress at different stages of their paths to and through doctoral programs. Here we describe the data we have already obtained as part of our on-going study, and preliminary results from our analysis.

  11. An interdepartmental Ph.D. program in computational biology and bioinformatics: the Yale perspective.

    PubMed

    Gerstein, Mark; Greenbaum, Dov; Cheung, Kei; Miller, Perry L

    2007-02-01

    Computational biology and bioinformatics (CBB), the terms often used interchangeably, represent a rapidly evolving biological discipline. With the clear potential for discovery and innovation, and the need to deal with the deluge of biological data, many academic institutions are committing significant resources to develop CBB research and training programs. Yale formally established an interdepartmental Ph.D. program in CBB in May 2003. This paper describes Yale's program, discussing the scope of the field, the program's goals and curriculum, as well as a number of issues that arose in implementing the program. (Further updated information is available from the program's website, www.cbb.yale.edu.)

  12. Structure, function and regulation of jade family PHD finger 1 (JADE1).

    PubMed

    Panchenko, Maria V

    2016-09-01

    The family of JADE proteins includes three paralogues encoded by individual genes and designated PHF17 (JADE1), PHF16 (JADE2), and PHF15 (JADE3). All three JADE proteins bear in tandem two Plant Homeo-domains (PHD) which are zinc finger domains. This review focuses on one member of the JADE family, JADE1. Studies addressing the biochemical, cellular and biological role of JADE1 are discussed. Recent discoveries of JADE1 function in the regulation of the epithelial cell cycle with potential relevance to disease are presented. Unresolved questions and future directions are formulated.

  13. Inhibition of PHD3 by salidroside promotes neovascularization through cell–cell communications mediated by muscle-secreted angiogenic factors

    PubMed Central

    Zhang, Jing; Kasim, Vivi; Xie, Yu-Dan; Huang, Can; Sisjayawan, Julita; Dwi Ariyanti, Agnes; Yan, Xue-Song; Wu, Xiao-Yan; Liu, Cai-Ping; Yang, Li; Miyagishi, Makoto; Wu, Shou-Rong

    2017-01-01

    Therapeutic angiogenesis has been considered as a potential strategy for treating peripheral artery diseases including hind-limb ischemia (HLI); however, no effective drug-based treatment is currently available. Here we showed that intramuscular administration of salidroside, an active compound of Chinese herb Rhodiola, could robustly enhance blood perfusion recovery by promoting neovascularization in HLI mice. We revealed that salidroside promoted skeletal muscle cell migration and paracrine function through inhibiting the transcriptional level of prolyl-hydroxylase domain 3 (PHD3) without affecting PHD1 and PHD2. Paracrine signals from salidroside-treated skeletal muscle cells enhanced endothelial and smooth muscle cells migration, while inhibition of FGF2/FGF2R and PDGF-BB/PDGFR-β pathways abolished this effect, as well as neovascularization in HLI mice. Furthermore, we elucidated that salidroside inhibition on PHD3 might occur through estrogen receptor alpha (ERα). Together, our findings highlights the potential application of salidroside as a novel pharmalogical inhibitor of ERα/PHD3 axis for therapeutic angiogenesis in HLI diseases. PMID:28266625

  14. The Value of Preparing PhD Students as Research Mentors: Application of Kram's Temporal Mentoring Model.

    PubMed

    Abbott-Anderson, Kristen; Gilmore-Bykovskyi, Andrea; Lyles, Annmarie A

    The ability to successfully mentor others is an essential skill necessary for building and strengthening an infrastructure of well-prepared nurse faculty to accelerate advancements in nursing science. Mentoring is a fundamental part of the nurse faculty role, but new faculty are often unprepared to take on mentoring roles early in their academic career. Applied training in research mentoring initiated during doctor of philosophy (PhD) programs may better prepare future faculty to manage teaching and mentoring responsibilities earlier and with greater confidence. The unique opportunity exists for PhD students to engage in research mentoring with undergraduate nursing students, with probable benefits for both the mentor and the mentee. This manuscript uses Kram's temporal mentoring model as a guide to examine the training experiences of 3 PhD students mentoring undergraduate nursing students and discusses the benefits and challenges associated with these mentoring relationships. Collectively, these experiences provide preliminary support and guidance for the development and adoption of formal PhD mentor training programs to better prepare future PhD nursing faculty for their mentoring responsibilities.

  15. Home healthcare settop-box for senior chronic care using ISO/IEEE 11073 PHD standard.

    PubMed

    Lim, Joon-Ho; Park, Chanyong; Park, Soo-Jun

    2010-01-01

    As the number of seniors with chronic disease increases, the need of home healthcare settop-box is increased to manage their chronic disease in their home environment. Using the home healthcare settop-box, the patients can regularly check their health data, and finally, it can lead the decrease of medical expenses. For the home healthcare settop-box, the most important factor is the standard compatibility, which can interoperate with standard devices of any other companies. In this paper, we propose a home healthcare settop-box using ISO/IEEE 11073 PHD standard. It collects health data according to the PHD standard, and provides a chronic-care service based on the collected data. The proposed settop-box is connected with 3 devices of weigh scale, blood pressure monitor, and glucose meter, and tested at 10 homes for a month. Lastly, the proposed settop-box can be used for various healthcare services such as Google Health and Telemedicine Services using a healthcare platform server.

  16. NASDA President Isao Uchida greets STS-87 Mission Specialist Takao Doi, Ph.D., after landing

    NASA Technical Reports Server (NTRS)

    1997-01-01

    The president of the National Space Development Agency (NASDA) of Japan, Isao Uchida, at left, chats with STS-87 Mission Specialist Takao Doi, Ph.D., of NASDA, shortly after the landing of Columbia at Kennedy Space Center. STS-87 concluded its mission with a main gear touchdown at 7:20:04 a.m. EST Dec. 5, at KSC's Shuttle Landing Facility Runway 33, drawing the 15-day, 16-hour and 34- minute-long mission of 6.5 million miles to a close. Also onboard the orbiter were Commander Kevin Kregel; Pilot Steven Lindsey; Mission Specialists Winston Scott and Kalpana Chawla, Ph.D.; and Payload Specialist Leonid Kadenyuk of the National Space Agency of Ukraine. During the 88th Space Shuttle mission, the crew performed experiments on the United States Microgravity Payload-4 and pollinated plants as part of the Collaborative Ukrainian Experiment. This was the 12th landing for Columbia at KSC and the 41st KSC landing in the history of the Space Shuttle program.

  17. It takes two to tango: the structure and function of LIM, RING, PHD and MYND domains.

    PubMed

    Matthews, J M; Bhati, M; Lehtomaki, E; Mansfield, R E; Cubeddu, L; Mackay, J P

    2009-01-01

    LIM (Lin-11, Isl-1, Mec-3), RING (Really interesting new gene), PHD (Plant homology domain) and MYND (myeloid, Nervy, DEAF-1) domains are all zinc-binding domains that ligate two zinc ions. Unlike the better known classical zinc fingers, these domains do not bind DNA, but instead mediate interactions with other proteins. LIM-domain containing proteins have diverse functions as regulators of gene expression, cell adhesion and motility and signal transduction. RING finger proteins are generally associated with ubiquitination; the presence of such a domain is the defining feature of a class of E3 ubiquitin protein ligases. PHD proteins have been associated with SUMOylation but most recently have emerged as a chromatin recognition motif that reads the methylation state of histones. The function of the MYND domain is less clear, but MYND domains are also found in proteins that have ubiquitin ligase and/or histone methyltransferase activity. Here we review the structure-function relationships for these domains and discuss strategies to modulate their activity.

  18. Janet Quinn, RN, PhD. Therapeutic touch and a healing way. Interview by Bonnie Horrigan.

    PubMed

    Quinn, J

    1996-07-01

    Janet Quinn, RN, PhD, is an associate professor and senior scholar at the Center for Human Caring at the School of Nursing, University of Colorado Health Sciences Center, in Denver, Colo. In addition to teaching she conducts research, lectures, writes, and maintains a private practice in Boulder, Colo. She received her PhD in nursing research and theory development from New York University in 1982. Quinn is a member of Sigma Theta Tau, and is active in a diverse group of professional organizations including the American Nurses Association, American Holistic Nurses Association, Association for Holotropic Breathwork International, Association for Transpersonal Psychology, International Society for the Study of Subtle Energy and Energy Medicine, Hakomi Therapy Association, and the Institute of Noetic Sciences. During her career she has received many awards including the Healers Award from the Nurse Healers and Professional Associates (1995); the Edgar S Wilson, MD, Fellowship Award from the International Society for the Study of Subtle Energies and Energy Medicine (1994); and the Holistic Nurse of the Year award from the American Holistic Nurses Association. Alternative Therapies interviewed Dr Quinn at her office in Boulder, Colo.

  19. The STEM Pipeline: The Role of Summer Research Experience in Minority Students' Ph.D. Aspirations.

    PubMed

    Pender, Matea; Marcotte, Dave E; Sto Domingo, Mariano R; Maton, Kenneth I

    2010-12-10

    Practical research experience has been seen as an important tool to enhance learning in STEM fields and shape commitment to science careers. Indeed, this was a prominent recommendation of the Boyer Commission. Further, there is evidence this is especially important for minority students. In this paper, we examine the role of practical research experience during the summer for talented minority undergraduates in STEM fields. We focus on the link between summer research and STEM Ph.D. program matriculation. We examine evidence on this question using detailed data on students participating in the Meyerhoff Scholarship Program over a 14 year period at the University of Maryland Baltimore County. Our results provide evidence of strong positive effects of summer research on participation in STEM Ph.D. programs. Further, we show that the effects of summer research vary with the frequency and timing of these experiences. The evidence that educational strategies such as summer research experiences improve academic outcomes of minorities is vital, given concern about the science pipeline in the U.S. and the continuing growth in the racial/ethnic diversity of the college-age population.

  20. The STEM Pipeline: The Role of Summer Research Experience in Minority Students' Ph.D. Aspirations

    PubMed Central

    Pender, Matea; Marcotte, Dave E.; Sto. Domingo, Mariano R.; Maton, Kenneth I.

    2011-01-01

    Practical research experience has been seen as an important tool to enhance learning in STEM fields and shape commitment to science careers. Indeed, this was a prominent recommendation of the Boyer Commission. Further, there is evidence this is especially important for minority students. In this paper, we examine the role of practical research experience during the summer for talented minority undergraduates in STEM fields. We focus on the link between summer research and STEM Ph.D. program matriculation. We examine evidence on this question using detailed data on students participating in the Meyerhoff Scholarship Program over a 14 year period at the University of Maryland Baltimore County. Our results provide evidence of strong positive effects of summer research on participation in STEM Ph.D. programs. Further, we show that the effects of summer research vary with the frequency and timing of these experiences. The evidence that educational strategies such as summer research experiences improve academic outcomes of minorities is vital, given concern about the science pipeline in the U.S. and the continuing growth in the racial/ethnic diversity of the college-age population. PMID:21841903

  1. Regulation of early T cell development by the PHD finger of histone lysine methyltransferase ASH1

    SciTech Connect

    Tanaka, Yujiro Nakayama, Yasuhiro; Taniguchi, Masaru; Kioussis, Dimitris

    2008-01-18

    We have previously isolated a mammalian homologue of Drosophila discsabsent, small, orhomeotic-1 (ash1) from the murine thymus, and recently shown that its SET domain methylates histone H3 lysine 36 (K36). Expression of ASH1 has been reported to be increased in NOD thymocytes in a BDC2.5 clonotype background, but its function in T cell development has remained elusive. Here we report that the ash1 gene is expressed at high levels in thymocytes of mice deficient for rag1 or tcra genes. ASH1 proteins are present at peri-nuclei and as nuclear speckles in thymocytes. Some of the nuclear ASH1 co-localize with RAG2. Expression of the evolutionarily conserved PHD finger of ASH1 impairs T cell development at the DP stage, and causes increased transcription from the HoxA9 promoter in vitro. Moreover, the C-terminal part of ASH1 interacts with HDAC1 repression complexes, suggesting that the PHD finger of ASH1 may be involved in down-regulation of genes for normal development of {alpha}{beta} T cells.

  2. Identifying Barriers and Facilitators to Nurse Faculty Careers for PhD Nursing Students.

    PubMed

    Fang, Di; Bednash, Geraldine D; Arietti, Rachael

    2016-01-01

    The shortage of doctorally educated nurses pursuing faculty careers is a major concern regarding the development of the nurse faculty workforce. This cross-sectional study aims to identify barriers and facilitators to academic careers for doctoral (PhD) nursing students. A total of 1,500 PhD students were randomly selected from nursing schools across the country to participate in our survey, and a 62.8% response rate was achieved. The study found that 72% of respondents planned to pursue faculty careers after graduating. Students with postgraduation plans for academic careers, nonacademic careers, and undecided careers showed distinct profiles of demographic and academic characteristics. They also perceived facilitators and barriers to faculty careers differently. The most influential facilitators were interest in teaching and an appreciation of the impact of nursing research on patient care, and the most considered barriers were poor financial compensation and a negative perception of academia. Minority students were more likely than White students to have plans for academic careers. Various experiences during doctoral education appeared to have a positive impact on students' decisions to pursue academic careers.

  3. Columbia's Bridge to the Ph.D. Program: A research-focused initiative facilitating the transition to graduate school

    NASA Astrophysics Data System (ADS)

    Agüeros, Marcel A.

    2015-01-01

    Columbia University's Bridge to the Ph.D. in the Natural Sciences Program aims to enhance the participation of students from underrepresented groups in Ph.D. programs. To achieve this, the Bridge Program provides an intensive research, coursework, and mentoring experience to post-baccalaureates seeking to strengthen their graduate school applications and to prepare for the transition into graduate school. To date, 20 Bridge Program alumni --- including four in astronomy --- have gone on to Ph.D. programs at Columbia, the University of Michigan, Johns Hopkins, the University of Washington, Albert Einstein, Yale, and SUNY-Albany, among others. In this talk, I will touch on some of the connections between Pre-MAP and the Bridge Program, and particularly how my involvement in the former prepared me to lead the latter.

  4. The Binding Specificity of the PHD-Finger Domain of VIN3 Moderates Vernalization Response1[OPEN

    PubMed Central

    2017-01-01

    Vernalization is a response to winter cold to initiate flowering in spring. VERNALIZATION INSENSITIVE3 (VIN3) is induced by winter cold and is essential to vernalization response in Arabidopsis (Arabidopsis thaliana). VIN3 encodes a PHD-finger domain that binds to modified histones in vitro. An alteration in the binding specificity of the PHD-finger domain of VIN3 results in a hypervernalization response. The hypervernalization response is achieved by increased enrichments of VIN3 and trimethylation of Histone H3 Lys 27 at the FLC locus without invoking the increased enrichment of Polycomb Repressive Complex 2. Our result shows that the binding specificity of the PHD-finger domain of VIN3 plays a role in mediating a proper vernalization response in Arabidopsis. PMID:27999085

  5. Short Hairpin RNA Silencing of PHD-2 Improves Neovascularization and Functional Outcomes in Diabetic Wounds and Ischemic Limbs

    PubMed Central

    Paik, Kevin J.; Maan, Zeshaan N.; Zielins, Elizabeth R.; Duscher, Dominik; Whittam, Alexander J.; Morrison, Shane D.; Brett, Elizabeth A.; Ransom, Ryan C.; Hu, Michael S.; Wu, Joseph C.; Gurtner, Geoffrey C.; Longaker, Michael T.; Wan, Derrick C.

    2016-01-01

    The transcription factor hypoxia-inducible factor 1-alpha (HIF-1α) is responsible for the downstream expression of over 60 genes that regulate cell survival and metabolism in hypoxic conditions as well as those that enhance angiogenesis to alleviate hypoxia. However, under normoxic conditions, HIF-1α is hydroxylated by prolyl hydroxylase 2, and subsequently degraded, with a biological half-life of less than five minutes. Here we investigated the therapeutic potential of inhibiting HIF-1α degradation through short hairpin RNA silencing of PHD-2 in the setting of diabetic wounds and limb ischemia. Treatment of diabetic mouse fibroblasts with shPHD-2 in vitro resulted in decreased levels of PHD-2 transcript demonstrated by qRT-PCR, higher levels of HIF-1α as measured by western blot, and higher expression of the downstream angiogenic genes SDF-1 and VEGFα, as measured by qRT-PCR. In vivo, shPHD-2 accelerated healing of full thickness excisional wounds in diabetic mice compared to shScr control, (14.33 ± 0.45 days vs. 19 ± 0.33 days) and was associated with an increased vascular density. Delivery of shPHD-2 also resulted in improved perfusion of ischemic hind limbs compared to shScr, prevention of distal digit tip necrosis, and increased survival of muscle tissue. Knockdown of PHD-2 through shRNA treatment has the potential to stimulate angiogenesis through overexpression of HIF-1α and upregulation of pro-angiogenic genes downstream of HIF-1α, and may represent a viable, non-viral approach to gene therapy for ischemia related applications. PMID:26967994

  6. Diversity & the Ph.D.: A Review of Efforts to Broaden Race & Ethnicity in U.S. Doctoral Education. Executive Summary

    ERIC Educational Resources Information Center

    Woodrow Wilson National Fellowship Foundation (NJ1), 2005

    2005-01-01

    Created through Woodrow Wilson's Responsive Ph.D. initiative, "Diversity and the Ph.D." looks at a range of mechanisms through which foundations, government agencies, and nonprofits have sought to recruit and retain more minority students in U.S. doctoral programs. Drawing on interviews with the leaders of 13 such programs, the report also points…

  7. Pipelines or Pipe Dreams? PhD Production and Other Matters in a South African Dental Research Institute 1954-2006

    ERIC Educational Resources Information Center

    Grossman, Elly S.; Cleaton-Jones, Peter E.

    2011-01-01

    This retrospective study documents the Masters and PhD training of 131 Dental Research Institute (DRI) postgraduates (1954-2006) to establish demographics, throughput and research outcomes for future PhD pipeline strategies using the DRI database. Descriptive statistics show four degree-based groups of postgraduates: 18 PhDs; 55 MScs; 42 MDents…

  8. What Matters for Excellence in PhD Programs? Latent Constructs of Doctoral Program Quality Used by Early Career Social Scientists

    ERIC Educational Resources Information Center

    Morrison, Emory; Rudd, Elizabeth; Zumeta, William; Nerad, Maresi

    2011-01-01

    This paper unpacks how social science doctorate-holders come to evaluate overall excellence in their PhD training programs based on their domain-specific assessments of aspects of their programs. Latent class analysis reveals that social scientists 6-10 years beyond their PhD evaluate the quality of their doctoral program with one of two…

  9. Serving Many Masters: The PhD on the Labour Market, the Everlasting Need of Inequality, and the Premature Death of Humboldt.

    ERIC Educational Resources Information Center

    Enders, Jurgen

    2002-01-01

    Surveyed German doctoral degree holders to examine the processes and outcomes of doctoral training and their impact on subsequent careers and work affiliations. Found a positive outcome of the Ph.D. on the labor market, and that selection for doctoral training is biased by social origin while later career attainment among Ph.D. holders is not. (EV)

  10. Are MS in Economics Programs in Departments That Also Have a PhD Program in Economics Different from Their Counterparts?

    ERIC Educational Resources Information Center

    Milkman, Martin I.; Marjadi, Riza; McCoy, James P.

    2016-01-01

    This is the first article that compares terminal master's degree programs in economics from universities that have a PhD program in economics with those that do not offer PhD programs in economics. The authors compare these differences based on surveys in 2002 and 2012. They examine differences in general program characteristics, department…

  11. An Exploratory Investigation of the Research Self-Efficacy, Interest in Research, and Research Knowledge of Ph.D. in Education Students

    ERIC Educational Resources Information Center

    Lambie, Glenn W.; Hayes, B. Grant; Griffith, Catherine; Limberg, Dodie; Mullen, Patrick R.

    2014-01-01

    Faculty members in higher education are called to be effective researchers; however, there is limited research examining the research development of Ph.D. students. The cross-sectional, correlational investigation we report here examined levels of research self-efficacy, interest in research, and research knowledge of Ph.D. in education students…

  12. Isolated erythrocytosis: study of 67 patients and identification of three novel germ-line mutations in the prolyl hydroxylase domain protein 2 (PHD2) gene

    PubMed Central

    Albiero, Elena; Ruggeri, Marco; Fortuna, Stefania; Finotto, Silvia; Bernardi, Martina; Madeo, Domenico; Rodeghiero, Francesco

    2012-01-01

    The oxygen sensing pathway modulates erythropoietin expression. In normal cells, intracellular oxygen tensions are directly sensed by prolyl hydroxylase domain (PHD)-containing proteins. PHD2 isozyme has a key role in tagging hypoxia-inducible factor (HIF)-α subunits for polyubiquitination and proteasomal degradation. Erythrocytosis-associated PHD2 mutations reduce hydroxylation of HIF-α. The investigation of 67 patients with isolated erythrocytosis, either sporadic or familial, allowed the identification of three novel mutations in the catalytic domain of the PHD2 protein. All new mutations are germ-line, heterozygous and missense, and code for a predicted full length mutant PHD2 protein. Identification of the disease-causing genes will be of critical importance for a better classification of familial and acquired erythrocytosis, offering additional insight into the erythropoietin regulating oxygen sensing pathway. PMID:21828119

  13. Fundraising for Accelerated Study for the PhD in Nursing: A Community Partnership.

    PubMed

    Starck, Patricia L

    2015-01-01

    This article describes fundraising strategies by a School of Nursing to support a post-master's accelerated (3-year) PhD degree program. A sample proposal to solicit funds is included, as well as a contract that students sign before accepting the scholarship and agreeing to teach for 3 years or repay the money. The first campaign raised $2.3 million for ten students, and the second campaign raised $1.3 million for six students. One useful marketing strategy is to show the impact of an investment in educating ten doctoral students who will become faculty and teach 100 additional students per year, who will then become professionals caring for thousands of patients during their careers. Over a 10 year period, the impact of an accelerated program is enormous, with 660 students taught who in their lifetime will care for 2.4 million patients. The article also discusses motivation and mind sets for giving to promote success in fundraising.

  14. Investigator profile. An interview with Salvador Contreras Balderas, Ph.D. Interview by Vicki Glaser.

    PubMed

    Contreras Balderas, Salvador

    2006-01-01

    Dr. Contreras Balderas is Professor Emeritus in the Department of Biology at Universidad Autonoma de Nuevo Leon (Monterrey, Mexico). He received a Master's degree and Ph.D. in Biological Sciences from Tulane University (New Orleans, LA) and wrote his dissertation on Ichthyology. He was awarded the President's Excellence Award of the American Fisheries Society. Dr. Contreras Balderas is Founder, President, and Honorary Member of the Mexican Society of Zoology, the Ichthyological Society of Mexico, and the Desert Fishes Council, is an ex-officio member of the Coalition for the Sustainable Development of the Rio Grande/Rio Bravo, U.S. & Mexico, and is a member of the U.S. Fish and Wildlife's Rio Grande Fishes Recovery Team. Dr. Contreras Balderas's areas of expertise include fish faunas, fishes at risk, exotic species, aquatic restoration, environmental impacts as detected by fishes, integral conservation, integral basin/ecosystem management, and ecological evaluation of integrity in basins.

  15. An interview with Michael Carvan, Ph.D. Interview by Vicki Glaser.

    PubMed

    Carvan, Michael

    2004-01-01

    Dr. Michael Carvan is an Assistant Scientist in the Great Lakes WATER Institute at the University of Wisconsin-Milwaukee, with appointments in the Department of Biological Sciences and the College of Health Sciences. He received his Bachelor 's degree in Marine Biology from the University of North Carolina-Wilmington, and a Master's degree in Biological Oceanography from the University of Miami Rosenstiel School of Marine and Atmospheric Science. Dr. Carvan received his Ph.D. in Anatomy and Public Health from the Texas A & M University College of Veterinary Medicine with a focus on toxicology. He pursued postdoctoral training in molecular toxicology and environmental genetics at the University of Cincinnati Medical Center.

  16. Frizzled to finance: one PhD's path from a Drosophila lab to Wall Street.

    PubMed

    Taylor, Job

    2016-06-01

    An equity research analyst's job is to determine whether the price of a stock is likely to go up or down. For science-based businesses, particularly biotechnology companies, a PhD in the life sciences can be very helpful in making this determination. I transitioned from a postdoc position to working in equity research. Here I present information on how I made the transition, an overview of the day-to-day activities of an analyst, and thoughts on how to prepare to look for a job in finance. There are significant positives to working on Wall Street, including exposure to cutting-edge clinical/translational research, access to some of the best scientists in the world, a dynamic work environment, and compensation that generally exceeds academic salaries. This comes at the cost of some independence and the satisfaction of being able to call oneself a scientist.

  17. Who Am I versus Who Can I Become? Exploring Women's Science Identities in STEM Ph.D. Programs

    ERIC Educational Resources Information Center

    Szelényi, Katalin; Bresonis, Kate; Mars, Matthew M.

    2016-01-01

    This article explores the science identities of 21 women STEM Ph.D. students at three research universities in the United States. Following a narrative approach, the findings depict five salient science identities, including those of a) academic, b) entrepreneurial, c) industrial, and d) policy scientist and e) scientist as community educator. Our…

  18. Introducing the New American Nurses Association President: Pamela F. Cipriano, PhD, RN, NEA-BC, FAAN.

    PubMed

    Cipriano, Pamela F

    2014-11-01

    This month in the Magnet® Perspectives column, Pamela F. Cipriano, PhD, RN, NEA-BC, FAAAN, new President of the American Nurses Association, discusses her priorities for the future and partnerships that are being forged to support nursing.

  19. An Impact Analysis of Regional Industry--University Interactions: The Case of Industrial PhD Schools

    ERIC Educational Resources Information Center

    Gustavsson, Linda; Nuur, Cali; Söderlind, Johan

    2016-01-01

    The authors discuss Triple Helix collaborations in the context of regional competitiveness. Through an exploratory case study, they identify and analyse the impact of the establishment of industrial PhD schools for participating industry and universities. The study was conducted in Sweden in 2014 and focuses on three industry--university…

  20. An Impact Analysis of Regional Industry-University Interactions: The Case of Industrial PhD Schools

    ERIC Educational Resources Information Center

    Gustavsson, Linda; Nuur, Cali; Söderlind, Johan

    2016-01-01

    The authors discuss Triple Helix collaborations in the context of regional competitiveness. Through an exploratory case study, they identify and analyse the impact of the establishment of industrial PhD schools for participating industry and universities. The study was conducted in Sweden in 2014 and focuses on three industry-university…

  1. Assessment Procedures of Norwegian PhD Theses as Viewed by Examiners from the USA, the UK and Sweden

    ERIC Educational Resources Information Center

    Kyvik, Svein

    2014-01-01

    This article focuses on the assessment procedures of Norwegian PhD theses as viewed by external members of evaluation committees from three countries with different examination systems; the USA, the UK and Sweden. Their viewpoints give useful information not only on the pros and cons with the Norwegian system, but also on the strengths and…

  2. Support for PhD Students: The Impact of Institutional Dynamics on the Pedagogy of Learning Development

    ERIC Educational Resources Information Center

    Peelo, Moira

    2013-01-01

    This paper explores one practitioner's learning development work with PhD students in a changing university context in which managerialism and financial stringency have combined. It questions how learning development practitioners can maintain their professional goals while negotiating issues arising from managerialism, financial stringency,…

  3. PhD Students' Experiences of Thesis Supervision in Malaysia: Managing Relationships in the Midst of Institutional Change

    ERIC Educational Resources Information Center

    Krauss, Steven Eric; Ismail, Ismi Arif

    2010-01-01

    Despite the plethora of studies that have been conducted on PhD supervision, little qualitative investigation has been conducted with a diverse, non-Western sample of doctoral students in an attempt to understand how the supervisory relationship is experienced. In response, eighteen students from diverse, non-Western backgrounds studying at one…

  4. PHD Finger Recognition of Unmodified Histone H3R2 Links UHRF1 to Regulation of Euchromatic Gene Expression

    SciTech Connect

    E Rajakumara; Z Wang; H Ma; L Hu; H Chen; Y Lin; R Guo; F Wu; H Li; et al.

    2011-12-31

    Histone methylation occurs on both lysine and arginine residues, and its dynamic regulation plays a critical role in chromatin biology. Here we identify the UHRF1 PHD finger (PHD{sub UHRF1}), an important regulator of DNA CpG methylation, as a histone H3 unmodified arginine 2 (H3R2) recognition modality. This conclusion is based on binding studies and cocrystal structures of PHD{sub UHRF1} bound to histone H3 peptides, where the guanidinium group of unmodified R2 forms an extensive intermolecular hydrogen bond network, with methylation of H3R2, but not H3K4 or H3K9, disrupting complex formation. We have identified direct target genes of UHRF1 from microarray and ChIP studies. Importantly, we show that UHRF1's ability to repress its direct target gene expression is dependent on PHD{sub UHRF1} binding to unmodified H3R2, thereby demonstrating the functional importance of this recognition event and supporting the potential for crosstalk between histone arginine methylation and UHRF1 function.

  5. Redeveloping a Business Undergraduate Honours Research Degree to Improve Educational Outcomes: Implications for PhD Supervision

    ERIC Educational Resources Information Center

    Mitsis, Ann

    2015-01-01

    There are many challenges that undergraduate students face when studying an honours research degree. Honours programmes though traditionally considered within the business discipline as a loss leader, nevertheless, form a direct entry requirement for PhD programmes. The honours degree can be considered a formative research programme for student…

  6. Quality Indicators and Expected Outcomes for Social Work PhD Programs: Perceptions of Social Work Students, Faculty, and Administrators

    ERIC Educational Resources Information Center

    Petr, Christopher G.; Harrington, Donna; Kim, Kyeongmo; Black, Beverly; Cunningham-Williams, Renee M.; Bentley, Kia J.

    2015-01-01

    This article presents and discusses the results of a national survey of social work PhD students, faculty, and administrators (n = 416), conducted by the Group for the Advancement of Doctoral Education in Social Work (GADE), in December 2012. The survey was undertaken to inform the updating of GADE's 2003 "Guidelines for Quality in Social…

  7. Now or Later?: An Empirical Investigation of When and Why Students Apply to Clinical Psychology PhD Programs

    ERIC Educational Resources Information Center

    Zimak, Eric H.; Edwards, Katie M.; Johnson, Shannon M.; Suhr, Julie

    2011-01-01

    This study used a national sample of PhD students in clinical psychology (N = 1,034) to explore when students decided to pursue their graduate degree, reasons for their decisions, and associated satisfaction. Results indicated that immediately after completing their undergraduate degree, 57% of current graduate students reported postponing…

  8. PhD Topic Arrangement in "D"iscourse Communities of Engineers and Social Sciences/Humanities

    ERIC Educational Resources Information Center

    Hasrati, Mostafa; Street, Brian

    2009-01-01

    This article is the result of a grounded theory investigation into the ways PhD topics are assigned by supervisors in engineering and selected by students in the social sciences/humanities in UK universities, broadly referred to as "topic arrangement", which can be regarded as one aspect of academic socialisation into academic Discourse…

  9. Standard-compliant real-time transmission of ECGs: harmonization of ISO/IEEE 11073-PHD and SCP-ECG.

    PubMed

    Trigo, Jesús D; Chiarugi, Franco; Alesanco, Alvaro; Martínez-Espronceda, Miguel; Chronaki, Catherine E; Escayola, Javier; Martínez, Ignacio; García, José

    2009-01-01

    Ambient assisted living and integrated care in an aging society is based on the vision of the lifelong Electronic Health Record calling for HealthCare Information Systems and medical device interoperability. For medical devices this aim can be achieved by the consistent implementation of harmonized international interoperability standards. The ISO/IEEE 11073 (x73) family of standards is a reference standard for medical device interoperability. In its Personal Health Device (PHD) version several devices have been included, but an ECG device specialization is not yet available. On the other hand, the SCP-ECG standard for short-term diagnostic ECGs (EN1064) has been recently approved as an international standard ISO/IEEE 11073-91064:2009. In this paper, the relationships between a proposed x73-PHD model for an ECG device and the fields of the SCP-ECG standard are investigated. A proof-of-concept implementation of the proposed x73-PHD ECG model is also presented, identifying open issues to be addressed by standards development for the wider interoperability adoption of x73-PHD standards.

  10. Device interoperability and authentication for telemedical appliance based on the ISO/IEEE 11073 Personal Health Device (PHD) Standards.

    PubMed

    Caranguian, Luther Paul R; Pancho-Festin, Susan; Sison, Luis G

    2012-01-01

    In this study, we focused on the interoperability and authentication of medical devices in the context of telemedical systems. A recent standard called the ISO/IEEE 11073 Personal Health Device (X73-PHD) Standards addresses the device interoperability problem by defining common protocols for agent (medical device) and manager (appliance) interface. The X73-PHD standard however has not addressed security and authentication of medical devices which is important in establishing integrity of a telemedical system. We have designed and implemented a security policy within the X73-PHD standards. The policy will enable device authentication using Asymmetric-Key Cryptography and the RSA algorithm as the digital signature scheme. We used two approaches for performing the digital signatures: direct software implementation and use of embedded security modules (ESM). The two approaches were evaluated and compared in terms of execution time and memory requirement. For the standard 2048-bit RSA, ESM calculates digital signatures only 12% of the total time for the direct implementation. Moreover, analysis shows that ESM offers more security advantage such as secure storage of keys compared to using direct implementation. Interoperability with other systems was verified by testing the system with LNI Healthlink, a manager software that implements the X73-PHD standard. Lastly, security analysis was done and the system's response to common attacks on authentication systems was analyzed and several measures were implemented to protect the system against them.

  11. Fast Track or Failure: A Study of the Graduation and Dropout Rates of Ph.D. Students in Economics.

    ERIC Educational Resources Information Center

    van Ours, J. C.; Ridder, G.

    2003-01-01

    Analyzes Ph.D. education procedures for economics in The Netherlands. Finds that universities are successful in persuading students to quit who are unlikely to graduate or to graduate in a timely manner. Also finds that active researchers who supervise doctoral candidates have low dropout and high graduation rates, because they attract good…

  12. Trends in Ph.D. Productivity and Diversity in Top-50 U.S. Chemistry Departments: An Institutional Analysis

    ERIC Educational Resources Information Center

    Laursen, Sandra L.; Weston, Timothy J.

    2014-01-01

    The education of doctoral chemists contributes to the chemical research enterprise and thus to innovation as an engine of the economy. This quantitative analysis describes trends in the production and diversity of chemistry Ph.D. degrees in the top-50 U.S. Ph.D.-granting departments in the past two decades. Time series data for individual…

  13. PHD Finger Recognition of Unmodified Histone H3R2 Links UHRF1 to Regulation of Euchromatic Gene Expression

    SciTech Connect

    Rajakumara, Eerappa; Wang, Zhentian; Ma, Honghui; Hu, Lulu; Chen, Hao; Lin, Yan; Guo, Rui; Wu, Feizhen; Li, Haitao; Lan, Fei; Shi, Yujiang Geno; Xu, Yanhui; Patel, Dinshaw J.; Shi, Yang

    2011-08-29

    Histone methylation occurs on both lysine and arginine residues, and its dynamic regulation plays a critical role in chromatin biology. Here we identify the UHRF1 PHD finger (PHD{sub UHRF1}), an important regulator of DNA CpG methylation, as a histone H3 unmodified arginine 2 (H3R2) recognition modality. This conclusion is based on binding studies and cocrystal structures of PHD{sub UHRF1} bound to histone H3 peptides, where the guanidinium group of unmodified R2 forms an extensive intermolecular hydrogen bond network, with methylation of H3R2, but not H3K4 or H3K9, disrupting complex formation. We have identified direct target genes of UHRF1 from microarray and ChIP studies. Importantly, we show that UHRF1's ability to repress its direct target gene expression is dependent on PHD{sub UHRF1} binding to unmodified H3R2, thereby demonstrating the functional importance of this recognition event and supporting the potential for crosstalk between histone arginine methylation and UHRF1 function.

  14. De-Colonising International Collaboration: The University of Kwazulu-Natal-Mauritius Institute of Education Cohort PhD Programme

    ERIC Educational Resources Information Center

    Samuel, Michael Anthony; Mariaye, Hyleen

    2014-01-01

    This paper explores the setting up of the partnership across the Mauritian and South African higher education contexts with respect to the development of a postgraduate PhD doctoral studies programme. The Mauritian Institute of Education (MIE) aims to develop staffing capacities through engagement with doctoral studies, especially in the context…

  15. Multimodal Identity Texts as Mediational Spaces in Researching Ph.D. Students' Critical Teacher-Researcher Selves

    ERIC Educational Resources Information Center

    Valencia, Marlon; Herath, Sreemali

    2015-01-01

    This paper analyses how two Ph.D. students used multimodal identity texts (MMITs) to document their research journeys as they engaged in their doctoral studies. Drawing on qualitative data collected from multiple pre-service teacher preparation programmes in Chile and Sri Lanka, two bi-national researchers (a Colombian-Canadian and a Sri…

  16. MS PHD'S: Bridging the Gap of Academic and Career Success Through Educational and Professional Development for Minorities

    NASA Astrophysics Data System (ADS)

    Brown, D.; Vargas, W.; Padilla, E.; Strickland, J.; Echols, E.; Johnson, A.; Williamson Whitney, V.; Ithier-Guzman, W.; Ricciardi, L.; Johnson, A.; Braxton, L.

    2011-12-01

    Historically, there has been a lack of ethnic and gender diversity in the geo-sciences. The Minorities Striving and Pursuing Higher Degrees of Success in Earth System Science (MS PHD'S) Professional Development Program provides a bridge to young scientists of diverse backgrounds who in turn will impact many. In a process of 3 phases, the program introduces the students to the scientific community through participation in professional and society meetings and networking with scientists and personnel within federal agencies, academic institutions and STEM-based industries. The program builds confidence, offers role models for professional development and provides students support during their education. Upon completion, students achieve a high level of self-actualization and self-esteem combined with individual growth. They become part of a community that continuously provides support and security to each other. This support is tangible through the mentor/mentee relationships which will help with individual growth throughout the mentoring cycle. Having role models and familiar faces to whom mentees can relate to will encourage our students to succeed in the STEM's field. To date, 159 students have participated in the program: 26 have successfully completed their PhD and 56 are currently enrolled in the PhD programs nationwide. The MS PHD'S Program creates a forum of diverse peoples by diverse peoples with diverse interest and strength, where the ongoing goal is to continually raise the bar for each individual. MS PHD'S establishes a nurturing goal-oriented environment for the geo scientist of the future who in turn will make profound contributions on a local, national and global scale. To conclude, MSPHD'S not only bridges the gap of unrepresented minorities in STEM careers, but also generates educational approaches to make the earth system sciences available to more, impacting all.

  17. Hypoxia-inducible factor prolyl hydroxylase 1 (PHD1) deficiency promotes hepatic steatosis and liver-specific insulin resistance in mice

    PubMed Central

    Thomas, Amandine; Belaidi, Elise; Aron-Wisnewsky, Judith; van der Zon, Gerard C.; Levy, Patrick; Clement, Karine; Pepin, Jean-Louis; Godin-Ribuot, Diane; Guigas, Bruno

    2016-01-01

    Obesity is associated with local tissue hypoxia and elevated hypoxia-inducible factor 1 alpha (HIF-1α) in metabolic tissues. Prolyl hydroxylases (PHDs) play an important role in regulating HIF-α isoform stability. In the present study, we investigated the consequence of whole-body PHD1 gene (Egln2) inactivation on metabolic homeostasis in mice. At baseline, PHD1−/− mice exhibited higher white adipose tissue (WAT) mass, despite lower body weight, and impaired insulin sensitivity and glucose tolerance when compared to age-matched wild-type (WT) mice. When fed a synthetic low-fat diet, PHD1−/− mice also exhibit a higher body weight gain and WAT mass along with glucose intolerance and systemic insulin resistance compared to WT mice. PHD1 deficiency led to increase in glycolytic gene expression, lipogenic proteins ACC and FAS, hepatic steatosis and liver-specific insulin resistance. Furthermore, gene markers of inflammation were also increased in the liver, but not in WAT or skeletal muscle, of PHD1−/− mice. As expected, high-fat diet (HFD) promoted obesity, hepatic steatosis, tissue-specific inflammation and systemic insulin resistance in WT mice but these diet-induced metabolic alterations were not exacerbated in PHD1−/− mice. In conclusion, PHD1 deficiency promotes hepatic steatosis and liver-specific insulin resistance but does not worsen the deleterious effects of HFD on metabolic homeostasis. PMID:27094951

  18. Structural insight into coordinated recognition of trimethylated histone H3 lysine 9 (H3K9me3) by the plant homeodomain (PHD) and tandem tudor domain (TTD) of UHRF1 (ubiquitin-like, containing PHD and RING finger domains, 1) protein.

    PubMed

    Cheng, Jingdong; Yang, Yi; Fang, Jian; Xiao, Jianxiong; Zhu, Tingting; Chen, Fei; Wang, Ping; Li, Ze; Yang, Huirong; Xu, Yanhui

    2013-01-11

    UHRF1 is an important epigenetic regulator connecting DNA methylation and histone methylations. UHRF1 is required for maintenance of DNA methylation through recruiting DNMT1 to DNA replication forks. Recent studies have shown that the plant homeodomain (PHD) of UHRF1 recognizes the N terminus of unmodified histone H3, and the interaction is inhibited by methylation of H3R2, whereas the tandem tudor domain (TTD) of UHRF1 recognizes trimethylated histone H3 lysine 9 (H3K9me3). However, how the two domains of UHRF1 coordinately recognize histone methylations remains elusive. In this report, we identified that PHD largely enhances the interaction between TTD and H3K9me3. We present the crystal structure of UHRF1 containing both TTD and PHD (TTD-PHD) in complex with H3K9m3 peptide at 3.0 Å resolution. The structure shows that TTD-PHD binds to the H3K9me3 peptide with 1:1 stoichiometry with the two domains connected by the H3K9me3 peptide and a linker region. The TTD interacts with residues Arg-8 and trimethylated Lys-9, and the PHD interacts with residues Ala-1, Arg-2, and Lys-4 of the H3K9me3 peptide. The biochemical experiments indicate that PHD-mediated recognition of unmodified H3 is independent of the TTD, whereas TTD-mediated recognition of H3K9me3 PHD. Thus, both TTD and PHD are essential for specific recognition of H3K9me3 by UHRF1. Interestingly, the H3K9me3 peptide induces conformational changes of TTD-PHD, which do not affect the autoubiquitination activity or hemimethylated DNA binding affinity of UHRF1 in vitro. Taken together, our studies provide structural insight into the coordinated recognition of H3K9me3 by the TTD and PHD of UHRF1.

  19. Healing in forgiveness: A discussion with Amanda Lindhout and Katherine Porterfield, PhD

    PubMed Central

    Porterfield, Katherine A.; Lindhout, Amanda

    2014-01-01

    In 2008, Amanda Lindhout was kidnapped by a group of extremists while traveling as a freelance journalist in Somalia. She and a colleague were held captive for more than 15 months, released only after their families paid a ransom. In this interview, Amanda discusses her experiences in captivity and her ongoing recovery from this experience with Katherine Porterfield, Ph.D. a clinical psychologist at the Bellevue/NYU Program for Survivors of Torture. Specifically, Amanda describes the childhood experiences that shaped her thirst for travel and knowledge, the conditions of her kidnapping, and her experiences after she was released from captivity. Amanda outlines the techniques that she employed to survive in the early aftermath of her capture, and how these coping strategies changed as her captivity lengthened. She reflects on her transition home, her recovery process, and her experiences with mental health professionals. Amanda's insights provide an example of resilience in the face of severe, extended trauma to researchers, clinicians, and survivors alike. The article ends with an discussion of the ways that Amanda's coping strategies and recovery process are consistent with existing resilience literature. Amanda's experiences as a hostage, her astonishing struggle for physical and mental survival, and her life after being freed are documented in her book, co-authored with Sara Corbett, A House in the Sky. PMID:25317259

  20. PHD Inhibition Mitigates and Protects Against Radiation-Induced Gastrointestinal Toxicity via HIF2

    PubMed Central

    Taniguchi, Cullen M.; Miao, Yu Rebecca; Diep, Anh N.; Wu, Colleen; Rankin, Erinn B.; Atwood, Todd F.; Xing, Lei; Giaccia, Amato J.

    2014-01-01

    Radiation-induced gastrointestinal (GI) toxicity can be a major source of morbidity and mortality after radiation exposure. There is an unmet need for effective preventative or mitigative treatments against the potentially fatal diarrhea and water loss induced by radiation damage to the GI tract. We report that prolyl hydroxylase inhibition by genetic knockout or pharmacologic inhibition of all PHD isoforms by the small molecule dimethyloxyallylglycine (DMOG) increases HIF expression, improves epithelial integrity, reduces apoptosis, and increases intestinal angiogenesis, all of which are essential for radioprotection. HIF2, but not HIF1, is both necessary and sufficient to prevent radiation-induced GI toxicity and death. Increased VEGF expression contributes to the protective effects of HIF2, since inhibition of VEGF function reversed the radioprotection and radiomitigation afforded by DMOG. Additionally, mortality is reduced from abdominal or total body irradiation even when DMOG is given 24 hours after exposure. Thus, prolyl hydroxylase inhibition represents a new treatment strategy to protect against and mitigate GI toxicity from both therapeutic radiation and potentially lethal radiation exposures. PMID:24828078

  1. Selective Recognition of Histone Crotonylation by Double PHD Fingers of MOZ and DPF2

    PubMed Central

    Xiong, Xiaozhe; Panchenko, Tatyana; Yang, Shuang; Zhao, Shuai; Yan, Peiqiang; Zhang, Wenhao; Xie, Wei; Li, Yuanyuan; Zhao, Yingming; Allis, C David; Li, Haitao

    2017-01-01

    Recognition of histone covalent modifications by “reader” modules constitutes a major mechanism for epigenetic regulation. A recent upsurge of newly discovered histone lysine acylations, such as crotonylation (Kcr), butyrylation (Kbu), and propionylation (Kpr), greatly expands the coding potential of histone lysine modifications. Here we demonstrate that the histone acetylation-binding double PHD finger (DPF) domains of human MOZ (a.k.a. KAT6A) and DPF2 (a.k.a. BAF45d) accommodate a wide range of histone lysine acylations with the strongest preference for Kcr. Crystal structures of the DPF domain of MOZ in complex with H3K14cr, H3K14bu, and H3K14pr peptides reveal that these non-acetyl acylations are anchored in a hydrophobic “dead-end” pocket with selectivity for crotonylation arising from intimate encapsulation and amide-sensing hydrogen bonding network. Immunofluorescence and ChIP-qPCR show that MOZ and H3K14cr colocalize in a DPF-dependent manner. Our studies call attention to a new regulatory mechanism centered on histone crotonylation readout by DPF family members. PMID:27775714

  2. A barley PHD finger transcription factor that confers male sterility by affecting tapetal development.

    PubMed

    Fernández Gómez, José; Wilson, Zoe A

    2014-08-01

    Controlling pollen development is of major commercial importance in generating hybrid crops and selective breeding, but characterized genes for male sterility in crops are rare, with no current examples in barley. However, translation of knowledge from model species is now providing opportunities to understand and manipulate such processes in economically important crops. We have used information from regulatory networks in Arabidopsis to identify and functionally characterize a barley PHD transcription factor MALE STERTILITY1 (MS1), which expresses in the anther tapetum and plays a critical role during pollen development. Comparative analysis of Arabidopsis, rice and Brachypodium genomes was used to identify conserved regions in MS1 for primer design to amplify the barley MS1 gene; RACE-PCR was subsequently used to generate the full-length sequence. This gene shows anther-specific tapetal expression, between late tetrad stage and early microspore release. HvMS1 silencing and overexpression in barley resulted in male sterility. Additionally, HvMS1 cDNA, controlled by the native Arabidopsis MS1 promoter, successfully complemented the homozygous ms1 Arabidopsis mutant. These results confirm the conservation of MS1 function in higher plants and in particular in temperate cereals. This has provided the first example of a characterized male sterility gene in barley, which presents a valuable tool for the future control of male fertility in barley for hybrid development.

  3. An interview with Hakim Djaballah, Ph.D. Interview by Vicki Glaser.

    PubMed

    Djaballah, Hakim

    2010-10-01

    Dr. Hakim Djaballah is Director of the High-Throughput Screening (HTS) Core Facility at Memorial Sloan-Kettering Cancer Center (MSKCC), in New York City. He has several years of industrial experience in preclinical drug discovery, working in both pharmaceutical and biotechnology companies. He has been involved in developing and screening antibacterials, antivirals, and antifungals, as well as identifying targets in various therapeutic areas, including diabetes, central nervous system, cardiovascular system, oncology, and inflammation. He obtained his B.S. in biochemistry with biotechnology from the University of Birmingham and completed his Ph.D. in biochemistry at the University of Leicester, both in England. He was recruited to MSKCC in 2003 to set up and direct the HTS Core Facility, a drug discovery laboratory involved in both chemical and RNAi screening. Dr. Djaballah was the recipient of the 2007 Robots and Vision User Recognition Award. Sponsored by the Robotic Industries Association and the Automated Imaging Association, the award is presented every 2 years to individuals in institutions that have successfully implemented robots in their work.

  4. Arthur L. Benton, Ph.D.: pioneer, colleague, mentor, and friend.

    PubMed

    Sivan, Abigail B; Levin, Harvey S; Hannay, Julia

    2007-07-01

    Arthur Benton, 97, died in Glenview, IL on December 27, 2006. He was born October 16, 1909 in New York City. He received his B.A. and M.A. degrees from Oberlin College, where Raymond Stetson was his mentor, and his Ph.D. in Psychology from Columbia University in 1935 under the mentorship of Carney Landis of the New York State Psychiatric Institute. Benton completed his training as a psychologist at the Payne Whitney Psychiatric Clinic of New York Hospital. Early in 1941, he volunteered for service in the United States Navy and was commissioned as a lieutenant in the medical department. His active duty lasted until 1945, followed by many years of service in the United States Navy Reserve, retiring at the rank of Captain. During his assignment at the San Diego Naval Hospital, Benton worked closely with neurologist Morris Bender and examined servicemen who had sustained penetrating brain wounds during combat. The experience of assessing servicemen with brain injury and Bender's influence led Benton to develop the Visual Retention Test, which still bears his name and continues to be widely used in clinical neuropsychological assessment.

  5. Investigator profile. An interview with Pamela Raymond, Ph.D. Interview by Vicki Glaser.

    PubMed

    Raymond, Pamela

    2005-01-01

    Pamela Raymond received her B.S., M.S., and Ph.D. degrees from the University of Michigan. She is currently Professor of Molecular, Cellular, and Developmental Biology in the College of Literature, Science, and the Arts at the University of Michigan. She has held academic appointments at Harvard Medical School and the University of Michigan Medical School, and she has been a visiting Professor at the University of Lausanne, Switzerland, the University of Utah, and the University of California, San Francisco. Professor Raymond has served on numerous federal scientific review panels; she chaired the National Institutes of Health Visual Sciences C study section and is currently chair of the National Eye Institute Board of Scientific Counselors. As Associate Provost for Academic and Faculty Affairs at the University of Michigan from 1997 to 2002, Professor Raymond was involved in numerous institutional activities directly relevant to the advancement of women faculty in science and engineering. She is serving as Co-PI on the University of Michigan's NSF ADVANCE Institutional Transformation Award.

  6. Stepping Stones to Research: Providing Pipelines from Middle School through PhD

    NASA Astrophysics Data System (ADS)

    Noel-Storr, Jacob; Baum, S. A.; RIT Insight Lab SSR Team; Carlson CenterImaging Science Faculty, Chester F.

    2014-01-01

    We present a decade's worth of strategies designed to promote and provide "Stepping Stones to Research" to provide a realistic pipeline of educational opportunities, with multiple gateways and exit points, for students moving towards STEM careers along the "STEM pipeline". We also illustrate how the Stepping Stones are designed to incidentally co-inside with related external opportunities through which we can also guide and support our mentees on their paths. We present programs such as middle school family science programs, high school research opportunities, high school internships, undergraduate research pathways, research experiences for undergraduates, and other opportunities. We will highlight the presentations being made at this very meeting -- from the first presentation of a high school student, to a dissertation presentation of a PhD graduate -- that have benefited from this stepping stone principle. We also reflect on the essential nature of building a "researcher-trust", even as a young student, of advocates and mentors who can support the continuation of a scientific career.

  7. PHD inhibition mitigates and protects against radiation-induced gastrointestinal toxicity via HIF2.

    PubMed

    Taniguchi, Cullen M; Miao, Yu Rebecca; Diep, Anh N; Wu, Colleen; Rankin, Erinn B; Atwood, Todd F; Xing, Lei; Giaccia, Amato J

    2014-05-14

    Radiation-induced gastrointestinal (GI) toxicity can be a major source of morbidity and mortality after radiation exposure. There is an unmet need for effective preventative or mitigative treatments against the potentially fatal diarrhea and water loss induced by radiation damage to the GI tract. We report that prolyl hydroxylase inhibition by genetic knockout or pharmacologic inhibition of all PHD (prolyl hydroxylase domain) isoforms by the small-molecule dimethyloxallyl glycine (DMOG) increases hypoxia-inducible factor (HIF) expression, improves epithelial integrity, reduces apoptosis, and increases intestinal angiogenesis, all of which are essential for radioprotection. HIF2, but not HIF1, is both necessary and sufficient to prevent radiation-induced GI toxicity and death. Increased vascular endothelial growth factor (VEGF) expression contributes to the protective effects of HIF2, because inhibition of VEGF function reversed the radioprotection and radiomitigation afforded by DMOG. Additionally, mortality from abdominal or total body irradiation was reduced even when DMOG was given 24 hours after exposure. Thus, prolyl hydroxylase inhibition represents a treatment strategy to protect against and mitigate GI toxicity from both therapeutic radiation and potentially lethal radiation exposures.

  8. Training PhD Physicists for Industrial Careers: The Industrial Leadership in Physics Program at Georgetown University.

    NASA Astrophysics Data System (ADS)

    van Keuren, Edward

    2009-03-01

    The Physics department at Georgetown University has a unique PhD level graduate program designed to prepare PhD physicists for positions in high-tech business. Launched in 2001, the Industrial Leadership in Physics (ILP) graduate program combines training in technical subjects and business topics with a focus on group learning, communication skills, and practical work experience. Some highlights of the program include a modular curriculum in fundamental physics, centered on solid-state physics, instrumentation, problem solving and computer modeling; a year-long apprenticeship at the site of an industrial partner chosen to match the interests of the student and coursework in the McDonough School of Business at Georgetown. This presentation will give an overview of the program.

  9. Backbone resonance assignments for the PHD-Bromo dual-domain of the human chromatin reader TRIM24.

    PubMed

    Walser, Reto; Renshaw, Jonathan; Milbradt, Alexander G

    2016-04-01

    Plant homeodomains (PHD) and Bromo domains are both chromatin reader domains that recognise histone methylation degree and acetylation state, respectively. The tripartite motif protein TRIM24 is a multidomain protein carrying a PHD-Bromo motif at its C-terminus, through which it is able to bind to histone 3 (H3) N-terminal tails with a specific modification pattern, namely unmethylated at K4 and acetylated at K23 (H3-K4me0K23ac). Here we report the 1H, 13C and 15N backbone resonance assignment of this 23 kDa motif, which we have obtained by heteronuclear multidimensional NMR spectroscopy. Furthermore we show that the secondary Cα and Cβ chemical shifts are in good agreement with a previously published crystal structure.

  10. Supporting Education PhD and DEd Students to Become Confident Academic Writers: An Evaluation of Thesis Writers' Circles

    ERIC Educational Resources Information Center

    Larcombe, Wendy; McCosker, Anthony; O'Loughlin, Kieran

    2007-01-01

    This paper critically evaluates the pilot of a Thesis Writers' Circles program offered to Education PhD and DEd students at the University of Melbourne in semester 2, 2005. The analysis focuses on the needs of those students that were felt to be well-met by this model of support. Broadly, the paper identifies two distinct but inter-related themes:…

  11. A biographical note on Max Friedrich (1856-1887), Wundt's first PhD student in experimental psychology.

    PubMed

    Domanski, Cezary W

    2004-01-01

    This article unveils some previously unknown facts about the short life of Max Friedrich (1856-1887), the author in 1881 of the first PhD dissertation on experimental psychology, written under the supervision of Wilhelm Wundt: "On the Duration of Apperception for Simple and Complex Visual Stimuli." The article describes Friedrich's family background and life, professional career as a teacher, and works in psychology and mathematics.

  12. Phospholipase D1 protein coordinates dynamic assembly of HIF-1α-PHD-VHL to regulate HIF-1α stability

    PubMed Central

    Park, Mi Hee; Choi, Kang-Yell; Jung, Yunjin; Min, Do Sik

    2014-01-01

    Hypoxia-inducible factor-1α (HIF-1α) is a master transcriptional regulator of cellular response to hypoxia. In normoxia, HIF-1α is degraded through the prolyl hydroxylase (PHD) and von Hippel-Lindau (VHL) ubiquitination pathway. However, it is unknown whether PHD and VHL exert their enzymatic activities on HIF-1α separately or as a multiprotein complex. Here, we show that phospholipase D1 (PLD1) protein itself acts as a molecular platform, interacting directly with HIF-1α, PHD, and VHL, thereby dynamically assembling a multiprotein complex that mediates efficient degradation of HIF-1α in an O2-dependent manner. PLD1 depletion prevents degradation of HIF-1α; however, overall, PLD1 activity is predominantly involved in the upregulation of HIF-1α through increased translation, despite negative regulation of HIF-1α stability by PLD1 protein itself, suggesting dual roles of PLD1 in the regulation of HIF-1α. Disruption of the interactions of PLD1 with the proteins might be involved in hypoxic stabilization of HIF-1α. Interestingly, the pleckstrin homology domain interacting with these proteins promoted degradation of HIF-1α independent of oxygen concentration and suppressed tumor progression. These observations define a novel function of PLD1 as a previously unrecognized HIF-1α regulator. PMID:25361009

  13. Structural Basis for the Unique Multivalent Readout of Unmodified H3 Tail by Arabidopsis ORC1b BAH-PHD Cassette.

    PubMed

    Li, Sisi; Yang, Zhenlin; Du, Xuan; Liu, Rui; Wilkinson, Alex W; Gozani, Or; Jacobsen, Steven E; Patel, Dinshaw J; Du, Jiamu

    2016-03-01

    DNA replication initiation relies on the formation of the origin recognition complex (ORC). The plant ORC subunit 1 (ORC1) protein possesses a conserved N-terminal BAH domain with an embedded plant-specific PHD finger, whose function may be potentially regulated by an epigenetic mechanism. Here, we report structural and biochemical studies on the Arabidopsis thaliana ORC1b BAH-PHD cassette which specifically recognizes the unmodified H3 tail. The crystal structure of ORC1b BAH-PHD cassette in complex with an H3(1-15) peptide reveals a strict requirement for the unmodified state of R2, T3, and K4 on the H3 tail and a novel multivalent BAH and PHD readout mode for H3 peptide recognition. Such recognition may contribute to epigenetic regulation of the initiation of DNA replication.

  14. Wheat VIN3-like PHD finger genes are up-regulated by vernalization.

    PubMed

    Fu, Daolin; Dunbar, Mignon; Dubcovsky, Jorge

    2007-03-01

    The term 'vernalization' describes the acceleration of the transition between the vegetative and reproductive stages after exposing plants to an extended period of low temperature. In Arabidopsis, vernalization promotes flowering by silencing the flowering repressor gene FLOWERING LOCUS C (FLC). Mitotically stable repression of FLC is the result of chromatin modifications mediated by the Vernalization-INsensitive 3 (VIN3) and VIN3-Like (VIL) proteins. In this study, we identified and characterized three VIL genes in diploid wheat (Triticum monococcum L.), named TmVIL1, TmVIL2, and TmVIL3. Similar to Arabidopsis VIN3, all three wheat VIL proteins carry three conserved domains including a plant homeodomain finger motif (PHD), a fibronectin type III domain (FNIII), and a VIN3 interacting domain (VID). Genetic mapping placed TmVIL1, TmVIL2, and TmVIL3 loci in the centromeric regions of chromosome 5, 6, and 1, respectively. The chromosome location of TmVIL1 is close to that of the vernalization gene VRN-D5, but more precise mapping information is required to validate this relationship. Transcription of the wheat VIL genes was up-regulated by vernalization, with a peak after 4-6 weeks of cold treatment. When transferred back to warm conditions, transcript levels of the wheat VIL genes returned to pre-vernalization levels. In addition, the transcript levels of wheat VIL genes are affected by photoperiod. This study indicates that wheat VIL genes have retained a similar structure and transcriptional regulation as their Arabidopsis VIN3/VIL homologues, suggesting that they might have retained some of their functions.

  15. Objectives and Assessment of the NMSU Physics Ph.D. program

    NASA Astrophysics Data System (ADS)

    Zollner, Stefan

    2012-03-01

    New Mexico State University (NMSU) in Las Cruces, NM, is accredited by the Higher Learning Commission (HLC) and a member of the North Central Association of Colleges and Schools (NCA). As part of our continuous accreditation, the physics department annually assesses its progress towards goals and objectives. Our academic goals include the development of skills pertinent to solving advanced problems in physics, a mastery of advanced concepts in physics, an in-depth knowledge of one or more subfields, and develop the ability to conduct original research in a specialization. These goals are supported by objectives, including scientific expertise, advanced training, experimental training, communication skills, and technical know-how. We measure one direct student learning outcome, the ability to solve advanced problems in general physics subjects. The instrument for this measurement is our written physics comprehensive (Ph.D. candidacy) exam, which is administered by an examination committee consisting of all faculty members. We report annually on the percentage of students passing the exam in the various areas (QM, mechanics, E&M, Stat. Mech.). Ineffective preparation of our students in one area would show up by unusually low scores in that area. Since the problems are written and graded by all faculty (not just by those who taught the class), this provides an independent assessment of student learning and also evidence by other professionals skilled in the field. Our examinations are similar to published exams at other institutions. The results of the exam provide feedback to the course instructors, to the students, and to the department head who schedules instructors and courses. In some cases, retaking a course has been a condition of passing the exam for a student. (I acknowledge the efforts of Gary Kyle, who has managed our assessment for many years, and of the entire NMSU physics faculty for contributing to this process.)

  16. Military Medicine. Volume 175, August 2010, Supplement. Total Force Fitness for the 21st Century A New Paradigm

    DTIC Science & Technology

    2010-08-01

    David J. Hufford, PhD; Matthew J. Fritts, MPH; Jeffrey E . Rhodes, DMin Social Fitness 88 Ian Coulter, PhD; CPT Paul Lester, USA; LTC Jeffrey Yarvis, USA...Spiritual Fitness David J. Hufford , PhD * ; Matthew J. Fritts , MPH † ; Jeffrey E . Rhodes , DMin ‡ ABSTRACT Spirituality, as distinct from...USPHS; MAJ Todd Yosick, MS USA; Jeffrey Rhodes, DMin; LTC Craig Myatt, MS USA; CAPT Richard Westphal, NC USN; David Fautua, PhD; CAPT Paul Hammer, MC

  17. MS PHD'S: A Successful Model Promoting Inclusion, Preparation and Engagement of Underrepresented Minorities within the Geosciences Workforce

    NASA Astrophysics Data System (ADS)

    Padilla, E.; Scott, O.; Strickland, J. T.; Ricciardi, L.; Guzman, W. I.; Braxton, L.; Williamson, V.; Johnson, A.

    2015-12-01

    According to 2014 findings of the National Research Council, geoscience and related industries indicate an anticipated 48,000 blue-collar, scientific, and managerial positions to be filled by underrepresented minority (URM) workers in the next 15 years. An Information Handling Services (IHS) report prepared for the American Petroleum Institute forecasts even greater numbers estimating upward of 408,000 opportunities for URM workers related to growth in accelerated development of oil, gas and petroleum industries. However, many URM students lack the training in both the hard sciences and craft skills necessary to fill these positions. The Minorities Striving and Pursuing Higher Degrees of Success in Earth System Science (MS PHD'S) Professional Development Program uses integrative and holistic strategies to better prepare URM students for entry into all levels of the geoscience workforce. Through a three-phase program of mentoring, community building, networking and professional development activities, MS PHD'S promotes collaboration, critical thinking, and soft skills development for participants. Program activities expose URM students to education, training and real-life geoscience workforce experiences while maintaining a continuity of supportive mentoring and training networks via an active virtual community. MS PHD'S participants report increased self-confidence and self-efficacy in pursuing geoscience workforce goals. To date, the program supports 223 participants of who 57, 21 and 16 have received Doctorate, Masters and Baccalaureate degrees respectively and are currently employed within the geoscience and related industries workforce. The remaining 129 participants are enrolled in undergraduate and graduate programs throughout the U.S. Geographic representation of participants includes 35 states, the District of Columbia, Puerto Rico and two international postdoctoral appointments - one in Saudi Arabia and the other in France.

  18. Career Outcomes for Astronomy Ph.D. Graduates of the University of Texas at Austin: The Next Generation

    NASA Astrophysics Data System (ADS)

    Dinerstein, Harriet L.

    2011-01-01

    Sixteen years ago I conducted a survey of the career trajectories and outcomes of 78 individuals who earned Ph.D.s from the Department of Astronomy at the University of Texas at Austin during the period 1984-1995 (Dinerstein, H. 1996, AAS, 189.0501). In the current poster I extend these statistics up to the present, adding 68 Ph.D. recipients from 1996-2010. This is a sufficiently large sample to search for secular trends such as possible changes in duration of the postdoctoral stage, redistribution of demographics among different kinds of long-term positions, and the emergence of new categories of astronomy-related employment. The picture is less discouraging than one might expect. As of 2010, about 75% of the Texas graduates 7 - 14 years past the Ph.D. are still doing astronomy, and most of those in non-astronomical careers left the field by choice (and often have had considerable success in their alternate careers). Of those 6 years or less past the Ph.D., 50% were in postdoctoral positions and less than 10% had left astronomy. Recent reconsiderations of the employment market (Metcalfe, T.S. 2008, PASP, 120, 229; Seth, A. 2009, Astro2010: The Astronomy and Astrophysics Decadal Survey, Position Paper No. 51) make the point that a typical astronomer who ultimately achieves a permanent position will have held two or three prior temporary positions; this was equally true three decades ago. There has been notable growth nationwide in the number of astronomers employed as faculty at small liberal arts colleges and other undergraduate-centered institutions, a trend that to some degree was anticipated by the University of Texas cohort, which included a number of students for whom this was their personal goal. In a world where job certainty is no longer so prevalent, motivated and resourceful astronomers are finding ways to remain active members of our community.

  19. PHD and TFIIS-Like Domains of the Bye1 Transcription Factor Determine Its Multivalent Genomic Distribution

    PubMed Central

    Pinskaya, Marina; Ghavi-Helm, Yad; Mariotte-Labarre, Sylvie; Morillon, Antonin; Soutourina, Julie; Werner, Michel

    2014-01-01

    The BYpass of Ess1 (Bye1) protein is a putative S. cerevisiae transcription factor homologous to the human cancer-associated PHF3/DIDO family of proteins. Bye1 contains a Plant Homeodomain (PHD) and a TFIIS-like domain. The Bye1 PHD finger interacts with tri-methylated lysine 4 of histone H3 (H3K4me3) while the TFIIS-like domain binds to RNA polymerase (Pol) II. Here, we investigated the contribution of these structural features to Bye1 recruitment to chromatin as well as its function in transcriptional regulation. Genome-wide analysis of Bye1 distribution revealed at least two distinct modes of association with actively transcribed genes: within the core of Pol II- and Pol III-transcribed genes concomitant with the presence of the TFIIS transcription factor and, additionally, with promoters of a subset of Pol II-transcribed genes. Specific loss of H3K4me3 abolishes Bye1 association to gene promoters, but doesn’t affect its binding within gene bodies. Genetic interactions suggested an essential role of Bye1 in cell fitness under stress conditions compensating the absence of TFIIS. Furthermore, BYE1 deletion resulted in the attenuation of GAL genes expression upon galactose-mediated induction indicating its positive role in transcription regulation. Together, these findings point to a bimodal role of Bye1 in regulation of Pol II transcription. It is recruited via its PHD domain to H3K4 tri-methylated promoters at early steps of transcription. Once Pol II is engaged into elongation, Bye1 binds directly to the transcriptional machinery, modulating its progression along the gene. PMID:25029256

  20. Design and contents of an advanced distance-based statistics course for a PhD in nursing program.

    PubMed

    Azuero, Andres; Wilbanks, Bryan; Pryor, Erica

    2013-01-01

    Doctoral nursing students and researchers are expected to understand, critique, and conduct research that uses advanced quantitative methodology. The authors describe the design and contents of a distance-based course in multivariate statistics for PhD students in nursing and health administration, compare the design to recommendations found in the literature for distance-based statistics education, and compare the course contents to a tabulation of the methodologies used in a sample of recently published quantitative dissertations in nursing. The authors conclude with a discussion based on these comparisons as well as with experiences in course implementation and directions for future course development.

  1. Something going on in Milan: a review of the 4th International PhD Student Cancer Conference.

    PubMed

    Segré, C

    2010-01-01

    The 4th International PhD Student Cancer Conference was held at the IFOM-IEO-Campus in Milan from 19-21 May 2010 http://www.semm.it/events_researchPast.phpThe Conference covered many topics related to cancer, from basic biology to clinical aspects of the disease. All attendees presented their research, by either giving a talk or presenting a poster. This conference is an opportunity to introduce PhD students to top cancer research institutes across Europe.THE CORE PARTICIPANTING INSTITUTES INCLUDED: European School of Molecular Medicine (SEMM)-IFOM-IEO Campus, MilanBeatson Institute for Cancer Research (BICR), GlasgowCambridge Research Institute (CRI), Cambridge, UKMRC Gray Institute of Radiation Biology (GIROB), OxfordLondon Research Institute (LRI), LondonPaterson Institute for Cancer Research (PICR), ManchesterThe Netherlands Cancer Institute (NKI), Amsterdam'You organizers have crushed all my prejudices towards Italians. Congratulations, I enjoyed the conference immensely!' Even if it might have sounded like rudeness for sure this was supposed to be a genuine compliment (at least, that's how we took it), also considering that it was told by a guy who himself was the fusion of two usually antithetical concepts: fashion style and English nationality.The year 2010 has marked an important event for Italian research in the international scientific panorama: the European School of Molecular Medicine (SEMM) had the honour to host the 4th International PhD Student Cancer Conference, which was held from 19-21 May 2010 at the IFOM-IEO-Campus (http://www.semm.it/events_researchPast.php) in Milan.The conference was attended by more than one hundred students, coming from a selection of cutting edge European institutes devoted to cancer research. The rationale behind it is the promotion of cooperation among young scientists across Europe to debate about science and to exchange ideas and experiences. But that is not all, it is also designed for PhD students to get in touch

  2. Multiple disciplines synergy tools for Ph.D. Students of biomedical informatics at Charles University in Prague.

    PubMed

    Zvarova, Jana; Svacina, Stepan; Dostalova, Tatjana; Seydlova, Michaela; Zvara, Karel

    2012-01-01

    The poster describes doctoral degree studies in biomedical informatics at Charles University in Prague. Particularly important in educational programmes and knowledge dissemination is the role of Internet. Therefore we also describe special activities concerned with the specific research at the First Faculty of Medicine of Charles University in Prague. These are selected tools for blended learning tools, ExaMe system and the role of the European Journal for Biomedical Informatics (EJBI), an official multilingual journal of EFMI, for Ph.D. student's cooperation and understanding the multidisciplinary field of biomedical informatics [1].

  3. An interview with Peter I. Buerhaus, PhD, RN, FAAN: on hopes and threats for nursing's future.

    PubMed

    Smith, Alison P; Buerhaus, Peter I

    2007-01-01

    Peter I. Buerhaus, PhD, RN, FAAN, reflects on several recently published studies examining workforce and nurse survey data and reveals more findings. Dr. Buerhaus identifies several policy and research priorities to accelerate progress and secure a more stable future for nursing. Dr. Buerhaus will be the recipient of the 2007 Nursing Economics/Margaret D. Sovie Writer's Award, for his collective works on nursing workforce issues in the journal, during the Nurse Faculty/Nurse Executive Summit, sponsored by Nursing Economics, in Scottsdale, AZ, November 29-December 1.

  4. The experience of international nursing students studying for a PhD in the U.K: A qualitative study

    PubMed Central

    2011-01-01

    Background Educating nurses to doctoral level is an important means of developing nursing capacity globally. There is an international shortage of doctoral nursing programmes, hence many nurses seek their doctorates overseas. The UK is a key provider of doctoral education for international nursing students, however, very little is known about international doctoral nursing students' learning experiences during their doctoral study. This paper reports on a national study that sought to investigate the learning expectations and experiences of overseas doctoral nursing students in the UK. Methods Semi-structured qualitative interviews were conducted in 2008/09 with 17 international doctoral nursing students representing 9 different countries from 6 different UK universities. Data were analysed thematically. All 17 interviewees were enrolled on 'traditional' 3 year PhD programmes and the majority (15/17) planned to work in higher education institutions back in their home country upon graduation. Results Studying for a UK PhD involved a number of significant transitions, including adjusting to a new country/culture, to new pedagogical approaches and, in some cases, to learning in a second language. Many students had expected a more structured programme of study, with a stronger emphasis on professional nursing issues as well as research - akin to the professional doctorate. Students did not always feel well integrated into their department's wider research environment, and wanted more opportunities to network with their UK peers. A good supervision relationship was perceived as the most critical element of support in a doctoral programme, but good relationships were sometimes difficult to attain due to differences in student/supervisor expectations and in approaches to supervision. The PhD was perceived as a difficult and stressful journey, but those nearing the end reflected positively on it as a life changing experience in which they had developed key professional and

  5. Pro Isomerization in MLL1 PHD3-Bromo Cassette Connects H3K4me Readout to CyP33 and HDAC-Mediated Repression

    SciTech Connect

    Wang, Zhanxin; Song, Jikui; Milne, Thomas A.; Wang, Gang G.; Li, Haitao; Allis, C. David; Patel, Dinshaw J.

    2010-09-13

    The MLL1 gene is a frequent target for recurrent chromosomal translocations, resulting in transformation of hematopoietic precursors into leukemia stem cells. Here, we report on structure-function studies that elucidate molecular events in MLL1 binding of histone H3K4me3/2 marks and recruitment of the cyclophilin CyP33. CyP33 contains a PPIase and a RRM domain and regulates MLL1 function through HDAC recruitment. We find that the PPIase domain of CyP33 regulates the conformation of MLL1 through proline isomerization within the PHD3-Bromo linker, thereby disrupting the PHD3-Bromo interface and facilitating binding of the MLL1-PHD3 domain to the CyP33-RRM domain. H3K4me3/2 and CyP33-RRM target different surfaces of MLL1-PHD3 and can bind simultaneously to form a ternary complex. Furthermore, the MLL1-CyP33 interaction is required for repression of HOXA9 and HOXC8 genes in vivo. Our results highlight the role of PHD3-Bromo cassette as a regulatory platform, orchestrating MLL1 binding of H3K4me3/2 marks and cyclophilin-mediated repression through HDAC recruitment.

  6. HIF prolyl hydroxylase 2 (PHD2) is a critical regulator of hematopoietic stem cell maintenance during steady-state and stress.

    PubMed

    Singh, Rashim Pal; Franke, Kristin; Kalucka, Joanna; Mamlouk, Soulafa; Muschter, Antje; Gembarska, Agnieszka; Grinenko, Tatyana; Willam, Carsten; Naumann, Ronald; Anastassiadis, Konstantinos; Stewart, A Francis; Bornstein, Stefan; Chavakis, Triantafyllos; Breier, Georg; Waskow, Claudia; Wielockx, Ben

    2013-06-27

    Hypoxia is a prominent feature in the maintenance of hematopoietic stem cell (HSC) quiescence and multipotency. Hypoxia-inducible factor (HIF) prolyl hydroxylase domain proteins (PHDs) serve as oxygen sensors and may therefore regulate this system. Here, we describe a mouse line with conditional loss of HIF prolyl hydroxylase 2 (PHD2) in very early hematopoietic precursors that results in self-renewal of multipotent progenitors under steady-state conditions in a HIF1α- and SMAD7-dependent manner. Competitive bone marrow (BM) transplantations show decreased peripheral and central chimerism of PHD2-deficient cells but not of the most primitive progenitors. Conversely, in whole BM transfer, PHD2-deficient HSCs replenish the entire hematopoietic system and display an enhanced self-renewal capacity reliant on HIF1α. Taken together, our results demonstrate that loss of PHD2 controls the maintenance of the HSC compartment under physiological conditions and causes the outcompetition of PHD2-deficient hematopoietic cells by their wild-type counterparts during stress while promoting the self-renewal of very early hematopoietic progenitors.

  7. Is Man Free to Make Choices for Health?

    ERIC Educational Resources Information Center

    Douglass, Joseph H.

    2010-01-01

    This paper is reformatted and reprinted as part of the 40th Anniversary of the American Journal of Health Education. (originally School Health Review) Health Education--Our Heritage series. The original article appeared in the inaugural issue of School Health Review (Volume 1, September 1969, pp. 4-8). At the time, Joseph H. Douglass, Ph.D., was…

  8. NASDA President Isao Uchida shakes hands with STS-87 Mission Specialist Takao Doi, Ph.D., after land

    NASA Technical Reports Server (NTRS)

    1997-01-01

    The president of the National Space Development Agency (NASDA) of Japan, Isao Uchida, at left, shakes hands with STS-87 Mission Specialist Takao Doi, Ph.D., of NASDA, shortly after the landing of Columbia at Kennedy Space Center. STS-87 concluded its mission with a main gear touchdown at 7:20:04 a.m. EST Dec. 5, at KSC's Shuttle Landing Facility Runway 33, drawing the 15-day, 16-hour and 34-minute-long mission of 6.5 million miles to a close. Also onboard the orbiter were Commander Kevin Kregel; Pilot Steven Lindsey; Mission Specialists Winston Scott and Kalpana Chawla, Ph.D.; and Payload Specialist Leonid Kadenyuk of the National Space Agency of Ukraine. During the 88th Space Shuttle mission, the crew performed experiments on the United States Microgravity Payload-4 and pollinated plants as part of the Collaborative Ukrainian Experiment. This was the 12th landing for Columbia at KSC and the 41st KSC landing in the history of the Space Shuttle program.

  9. Chromatin-Dependent Repression of the Arabidopsis Floral Integrator Genes Involves Plant Specific PHD-Containing Proteins[C][W

    PubMed Central

    López-González, Leticia; Mouriz, Alfonso; Narro-Diego, Laura; Bustos, Regla; Martínez-Zapater, José Miguel; Jarillo, Jose A.; Piñeiro, Manuel

    2014-01-01

    The interplay among histone modifications modulates the expression of master regulatory genes in development. Chromatin effector proteins bind histone modifications and translate the epigenetic status into gene expression patterns that control development. Here, we show that two Arabidopsis thaliana paralogs encoding plant-specific proteins with a plant homeodomain (PHD) motif, SHORT LIFE (SHL) and EARLY BOLTING IN SHORT DAYS (EBS), function in the chromatin-mediated repression of floral initiation and play independent roles in the control of genes regulating flowering. Previous results showed that repression of the floral integrator FLOWERING LOCUS T (FT) requires EBS. We establish that SHL is necessary to negatively regulate the expression of SUPPRESSOR OF OVEREXPRESSION OF CO1 (SOC1), another floral integrator. SHL and EBS recognize di- and trimethylated histone H3 at lysine 4 and bind regulatory regions of SOC1 and FT, respectively. These PHD proteins maintain an inactive chromatin conformation in SOC1 and FT by preventing high levels of H3 acetylation, bind HISTONE DEACETYLASE6, and play a central role in regulating flowering time. SHL and EBS are widely conserved in plants but are absent in other eukaryotes, suggesting that the regulatory module mediated by these proteins could represent a distinct mechanism for gene expression control in plants. PMID:25281686

  10. Oral biology in middle age: a history of the University at Buffalo Oral Biology PhD Program.

    PubMed

    Scannapieco, F A

    2014-05-01

    In 1960, the first Department of Oral Biology in the United States dedicated to the conduct of research, graduate biomedical research education, and the provision of basic oral science education for the DDS curriculum was established at the University at Buffalo. In 1963, the Department organized the first PhD Program in Oral Biology in the United States. This PhD program has produced a large cadre of oral health researchers, many of whom have gone on to make major contributions to dental research and education. This article provides a brief history of the program, the context within which the program was organized and developed, and a description of some of the many faculty, students, and fellows associated with the program. Additionally, to celebrate the 50th anniversary of this program, a symposium, entitled "The Oral Microbiome, Immunity and Chronic Disease", was held on June 12-14, 2013, in Buffalo, New York. The proceedings are published online in Advances in Dental Research (2014, Vol. 26).

  11. Arabidopsis MALE STERILITY1 encodes a PHD-type transcription factor and regulates pollen and tapetum development.

    PubMed

    Ito, Takuya; Nagata, Noriko; Yoshiba, Yoshu; Ohme-Takagi, Masaru; Ma, Hong; Shinozaki, Kazuo

    2007-11-01

    The Arabidopsis thaliana MALE STERILITY1 (MS1) gene encodes a nuclear protein with Leu zipper-like and PHD-finger motifs and is important for postmeiotic pollen development. Here, we examined MS1 function using both cell biological and molecular biological approaches. We introduced a fusion construct of MS1 and a transcriptional repression domain (MS1-SRDX) into wild-type Arabidopsis, and the transgenic plants showed a semisterile phenotype similar to that of ms1. Since the repression domain can convert various kinds of transcriptional activators to dominant repressors, this suggested that MS1 functioned as a transcriptional activator. The Leu zipper-like region and the PHD motif were required for the MS1 function. Phenotypic analysis of the ms1 mutant and the MS1-SRDX transgenic Arabidopsis indicated that MS1 was involved in formation of pollen exine and pollen cytosolic components as well as tapetum development. Next, we searched for MS1 downstream genes by analyzing publicly available microarray data and identified 95 genes affected by MS1. Using a transgenic ms1 plant showing dexamethasone-inducible recovery of fertility, we further examined whether these genes were immediately downstream of MS1. From these results, we discuss a role of MS1 in pollen and tapetum development and the conservation of MS1 function in flowering plants.

  12. Novel perspectives on the PHD-HIF oxygen sensing pathway in cardioprotection mediated by IPC and RIPC.

    PubMed

    Martin-Puig, Silvia; Tello, Daniel; Aragonés, Julián

    2015-01-01

    Reperfusion of ischemic cardiac tissue is the standard treatment for improving clinical outcome following myocardial infarction but is inevitably associated with ischemia-reperfusion injury (IRI). Ischemic myocardial injury can be alleviated by exposing the heart to brief episodes of sublethal ischemia-reperfusion prior to the ischemic insult, a phenomenon that has been termed ischemic preconditioning (IPC). Similarly, remote IPC (RIPC) is defined as transient episodes of ischemia at a distant site before a subsequent prolonged injury of the target organ. In this setting, adaptive responses to hypoxia/ischemia in peripheral tissues include the release of soluble factors that have the potential to protect cardiomyocytes remotely. Oxygen fluctuations is a hallmark of insufficient tissue perfusion and ischemic episodes. Emerging evidence indicates that prolyl hydroxylase oxygen sensors (PHDs) and hypoxia-inducible transcription factors (HIFs) are critical regulators of IPC and RIPC. In this review, we discuss recent findings concerning the role of the PHD-HIF axis in IPC and RIPC-mediated cardioprotection and examine molecular pathways and cell types that might be involved. We also appraise the therapeutic value of targeting the PHD-HIF axis to enhance cardiac tolerance against IRI.

  13. Chromatin condensation and recruitment of PHD finger proteins to histone H3K4me3 are mutually exclusive

    PubMed Central

    Gatchalian, Jovylyn; Gallardo, Carmen Mora; Shinsky, Stephen A.; Ospina, Ruben Rosas; Liendo, Andrea Mansilla; Krajewski, Krzysztof; Klein, Brianna J.; Andrews, Forest H.; Strahl, Brian D.; M. van Wely, Karel H.; Kutateladze, Tatiana G.

    2016-01-01

    Histone post-translational modifications, and specific combinations they create, mediate a wide range of nuclear events. However, the mechanistic bases for recognition of these combinations have not been elucidated. Here, we characterize crosstalk between H3T3 and H3T6 phosphorylation, occurring in mitosis, and H3K4me3, a mark associated with active transcription. We detail the molecular mechanisms by which H3T3ph/K4me3/T6ph switches mediate activities of H3K4me3-binding proteins, including those containing plant homeodomain (PHD) and double Tudor reader domains. Our results derived from nuclear magnetic resonance chemical shift perturbation analysis, orthogonal binding assays and cell fluorescence microscopy studies reveal a strong anti-correlation between histone H3T3/T6 phosphorylation and retention of PHD finger proteins in chromatin during mitosis. Together, our findings uncover the mechanistic rules of chromatin engagement for H3K4me3-specific readers during cell division. PMID:27016734

  14. Integrating clinical medicine into biomedical graduate education to promote translational research: strategies from two new PhD programs.

    PubMed

    Smith, Carolyn L; Jarrett, Marcia; Bierer, S Beth

    2013-01-01

    For several decades, a barrier has existed between research and clinical medicine, making it difficult for aspiring scientists to gain exposure to human pathophysiology and access to clinical/translational research mentors during their graduate training. In 2005, the Howard Hughes Medical Institute announced the Med Into Grad initiative to support graduate programs that integrate clinical knowledge into PhD biomedical training, with the goal of preparing a new cadre of translational researchers to work at the interface of the basic sciences and clinical medicine. Two institutions, Baylor College of Medicine and the Cleveland Clinic/Case Western Reserve University, developed new PhD programs in translational biology and/or molecular medicine. These programs teach the topics and skills that today's translational researchers must learn and expose students to clinical medicine. In this article, the authors compare and contrast the history, implementation, and evaluation of the Translational Biology and Molecular Medicine program at Baylor College of Medicine and the Molecular Medicine program at the Cleveland Clinic/Case Western Reserve University. The authors also demonstrate the feasibility of creating a multidisciplinary graduate program in molecular medicine that integrates pathophysiology and clinical medicine without extending training time. They conclude with a discussion of the similarities in training approaches that exist despite the fact that each program was independently developed and offer observations that emerged during their collaboration that may benefit others who are considering developing similar programs.

  15. Too Many PhD Graduates or Too Few Academic Job Openings: The Basic Reproductive Number R0 in Academia.

    PubMed

    Larson, Richard C; Ghaffarzadegan, Navid; Xue, Yi

    2014-01-01

    The academic job market has become increasingly competitive for PhD graduates. In this note, we ask the basic question of 'Are we producing more PhDs than needed?' We take a systems approach and offer a 'birth rate' perspective: professors graduate PhDs who later become professors themselves, an analogue to how a population grows. We show that the reproduction rate in academia is very high. For example, in engineering, a professor in the US graduates 7.8 new PhDs during his/her whole career on average, and only one of these graduates can replace the professor's position. This implies that in a steady state, only 12.8% of PhD graduates can attain academic positions in the USA. The key insight is that the system in many places is saturated, far beyond capacity to absorb new PhDs in academia at the rates that they are being produced. Based on the analysis, we discuss policy implications.

  16. Preparing MD-PhD students for clinical rotations: navigating the interface between PhD and MD training.

    PubMed

    Goldberg, Charles; Insel, Paul A

    2013-06-01

    Many aspects of MD-PhD training are not optimally designed to prepare students for their future roles as translational clinician-scientists. The transition between PhD research efforts and clinical rotations is one hurdle that must be overcome. MD-PhD students have deficits in clinical skills compared with those of their MD-only colleagues at the time of this transition. Reimmersion programs (RPs) targeted to MD-PhD students have the potential to help them navigate this transition.The authors draw on their experience creating and implementing an RP that incorporates multiple types of activities (clinical exam review, objective structured clinical examination, and supervised practice in patient care settings) designed to enhance the participants' skills and readiness for clinical efforts. On the basis of this experience, they note that MD-PhD students' time away from the clinical environment negatively affects their clinical skills, causing them to feel underprepared for clinical rotations. The authors argue that participation in an RP can help students feel more comfortable speaking with and examining patients and decrease their anxiety regarding clinical encounters. The authors propose that RPs can have positive outcomes for improving the transition from PhD to clinical MD training in dual-degree programs. Identifying and addressing this and other transitions need to be considered to improve the educational experience of MD-PhD students.

  17. Chromatin-dependent repression of the Arabidopsis floral integrator genes involves plant specific PHD-containing proteins.

    PubMed

    López-González, Leticia; Mouriz, Alfonso; Narro-Diego, Laura; Bustos, Regla; Martínez-Zapater, José Miguel; Jarillo, Jose A; Piñeiro, Manuel

    2014-10-01

    The interplay among histone modifications modulates the expression of master regulatory genes in development. Chromatin effector proteins bind histone modifications and translate the epigenetic status into gene expression patterns that control development. Here, we show that two Arabidopsis thaliana paralogs encoding plant-specific proteins with a plant homeodomain (PHD) motif, SHORT LIFE (SHL) and EARLY BOLTING IN SHORT DAYS (EBS), function in the chromatin-mediated repression of floral initiation and play independent roles in the control of genes regulating flowering. Previous results showed that repression of the floral integrator FLOWERING LOCUS T (FT) requires EBS. We establish that SHL is necessary to negatively regulate the expression of SUPPRESSOR OF OVEREXPRESSION OF CO1 (SOC1), another floral integrator. SHL and EBS recognize di- and trimethylated histone H3 at lysine 4 and bind regulatory regions of SOC1 and FT, respectively. These PHD proteins maintain an inactive chromatin conformation in SOC1 and FT by preventing high levels of H3 acetylation, bind HISTONE DEACETYLASE6, and play a central role in regulating flowering time. SHL and EBS are widely conserved in plants but are absent in other eukaryotes, suggesting that the regulatory module mediated by these proteins could represent a distinct mechanism for gene expression control in plants.

  18. Integrating Clinical Medicine into Biomedical Graduate Education to Promote Translational Research: Strategies from Two New PhD Programs

    PubMed Central

    Smith, Carolyn L.; Jarrett, Marcia; Bierer, S. Beth

    2012-01-01

    For several decades, a barrier has existed between research and clinical medicine, making it difficult for aspiring scientists to gain exposure to human pathophysiology and access to clinical/translational research mentors during their graduate training. In 2005, the Howard Hughes Medical Institute announced the Med Into Grad initiative to support graduate programs that integrate clinical knowledge into PhD biomedical training, with the goal of preparing a new cadre of translational researchers to work at the interface of the basic sciences and clinical medicine. Two institutions, Baylor College of Medicine and the Cleveland Clinic/Case Western Reserve University, developed new PhD programs in translational biology and/or molecular medicine. These programs teach the topics and skills that today’s translational researchers must learn as well as expose students to clinical medicine. In this article, the authors compare and contrast the history, implementation, and evaluation of the Translational Biology and Molecular Medicine program at Baylor College of Medicine and the Molecular Medicine program at the Cleveland Clinic/Case Western Reserve University. The authors also demonstrate the feasibility of creating a multidisciplinary graduate program in molecular medicine that integrates pathophysiology and clinical medicine without extending training time. They conclude with a discussion of the similarities in training approaches that exist despite the fact that each program was independently developed and offer observations that emerged during their collaboration that may benefit others who are considering developing similar programs. PMID:23165264

  19. Ultrafast Frequency Agile Optical Materials: Organically Doped Sol-Gel Glasses

    DTIC Science & Technology

    1992-10-13

    PhD. anticipated 1/93 John Pelo Robert A. Crowell, Ph.D. awarded 9/92 Teresa Rose Undergraduate Students: John Middleton Bibliography [1] A...Coulter, D. Alvarez Jr., S. R. Marder, T. H. Wei, M. J. Sence, E. W. Van Stryland, and D. J. Hagan, Organic Materials for Nonlinear Optics and Photonics, J

  20. Combinatorial Histone Readout by the Dual Plant Homeodomain (PHD) Fingers of Rco1 Mediates Rpd3S Chromatin Recruitment and the Maintenance of Transcriptional Fidelity.

    PubMed

    McDaniel, Stephen L; Fligor, Jennifer E; Ruan, Chun; Cui, Haochen; Bridgers, Joseph B; DiFiore, Julia V; Guo, Angela H; Li, Bing; Strahl, Brian D

    2016-07-08

    The plant homeodomain (PHD) finger is found in many chromatin-associated proteins and functions to recruit effector proteins to chromatin through its ability to bind both methylated and unmethylated histone residues. Here, we show that the dual PHD fingers of Rco1, a member of the Rpd3S histone deacetylase complex recruited to transcribing genes, operate in a combinatorial manner in targeting the Rpd3S complex to histone H3 in chromatin. Although mutations in either the first or second PHD finger allow for Rpd3S complex formation, the assembled complexes from these mutants cannot recognize nucleosomes or function to maintain chromatin structure and prevent cryptic transcriptional initiation from within transcribed regions. Taken together, our findings establish a critical role of combinatorial readout in maintaining chromatin organization and in enforcing the transcriptional fidelity of genes.

  1. Conditional Deletion of Prolyl Hydroxylase Domain-Containing Protein 2 (Phd2) Gene Reveals Its Essential Role in Chondrocyte Function and Endochondral Bone Formation

    PubMed Central

    Cheng, Shaohong; Xing, Weirong; Pourteymoor, Sheila; Schulte, Jan

    2016-01-01

    The hypoxic growth plate cartilage requires hypoxia-inducible factor (HIF)-mediated pathways to maintain chondrocyte survival and differentiation. HIF proteins are tightly regulated by prolyl hydroxylase domain-containing protein 2 (Phd2)-mediated proteosomal degradation. We conditionally disrupted the Phd2 gene in chondrocytes by crossing Phd2 floxed mice with type 2 collagen-α1-Cre transgenic mice and found massive increases (>50%) in the trabecular bone mass of long bones and lumbar vertebra of the Phd2 conditional knockout (cKO) mice caused by significant increases in trabecular number and thickness and reductions in trabecular separation. Cortical thickness and tissue mineral density at the femoral middiaphysis of the cKO mice were also significantly increased. Dynamic histomorphometric analyses revealed increased longitudinal length and osteoid surface per bone surface in the primary spongiosa of the cKO mice, suggesting elevated conversion rate from hypertrophic chondrocytes to mineralized bone matrix as well as increased bone formation in the primary spongiosa. In the secondary spongiosa, bone formation measured by mineralizing surface per bone surface and mineral apposition rate were not changed, but resorption was slightly reduced. Increases in the mRNA levels of SRY (sex determining region Y)-box 9, osterix (Osx), type 2 collagen, aggrecan, alkaline phosphatase, bone sialoprotein, vascular endothelial growth factor, erythropoietin, and glycolytic enzymes in the growth plate of cKO mice were detected by quantitative RT-PCR. Immunohistochemistry revealed an increased HIF-1α protein level in the hypertrophic chondrocytes of cKO mice. Infection of chondrocytes isolated from Phd2 floxed mice with adenoviral Cre resulted in similar gene expression patterns as observed in the cKO growth plate chondrocytes. Our findings indicate that Phd2 suppresses endochondral bone formation, in part, via HIF-dependent mechanisms in mice. PMID:26562260

  2. Conditional Deletion of Prolyl Hydroxylase Domain-Containing Protein 2 (Phd2) Gene Reveals Its Essential Role in Chondrocyte Function and Endochondral Bone Formation.

    PubMed

    Cheng, Shaohong; Xing, Weirong; Pourteymoor, Sheila; Schulte, Jan; Mohan, Subburaman

    2016-01-01

    The hypoxic growth plate cartilage requires hypoxia-inducible factor (HIF)-mediated pathways to maintain chondrocyte survival and differentiation. HIF proteins are tightly regulated by prolyl hydroxylase domain-containing protein 2 (Phd2)-mediated proteosomal degradation. We conditionally disrupted the Phd2 gene in chondrocytes by crossing Phd2 floxed mice with type 2 collagen-α1-Cre transgenic mice and found massive increases (>50%) in the trabecular bone mass of long bones and lumbar vertebra of the Phd2 conditional knockout (cKO) mice caused by significant increases in trabecular number and thickness and reductions in trabecular separation. Cortical thickness and tissue mineral density at the femoral middiaphysis of the cKO mice were also significantly increased. Dynamic histomorphometric analyses revealed increased longitudinal length and osteoid surface per bone surface in the primary spongiosa of the cKO mice, suggesting elevated conversion rate from hypertrophic chondrocytes to mineralized bone matrix as well as increased bone formation in the primary spongiosa. In the secondary spongiosa, bone formation measured by mineralizing surface per bone surface and mineral apposition rate were not changed, but resorption was slightly reduced. Increases in the mRNA levels of SRY (sex determining region Y)-box 9, osterix (Osx), type 2 collagen, aggrecan, alkaline phosphatase, bone sialoprotein, vascular endothelial growth factor, erythropoietin, and glycolytic enzymes in the growth plate of cKO mice were detected by quantitative RT-PCR. Immunohistochemistry revealed an increased HIF-1α protein level in the hypertrophic chondrocytes of cKO mice. Infection of chondrocytes isolated from Phd2 floxed mice with adenoviral Cre resulted in similar gene expression patterns as observed in the cKO growth plate chondrocytes. Our findings indicate that Phd2 suppresses endochondral bone formation, in part, via HIF-dependent mechanisms in mice.

  3. Erythropoietin inhibits HIF-1α expression via upregulation of PHD-2 transcription and translation in an in vitro model of hypoxia-ischemia.

    PubMed

    Souvenir, Rhonda; Flores, Jerry J; Ostrowski, Robert P; Manaenko, Anatol; Duris, Kamil; Tang, Jiping

    2014-02-01

    Hypoxia inducible factor (HIF)-1α is the central transcriptional factor for the regulation of oxygen-associated genes in response to hypoxia. Erythropoietin (EPO), a hematopoietic growth factor, increases oxygen availability during hypoxia/ischemia and is associated with neuroprotection following hypoxia-ischemia in laboratory models of stroke. However, EPO has failed to translate in a clinical setting. Thus, it is critical to elucidate the key players in EPO-induced neuroprotection. Our preliminary studies have shown that EPO, as a downstream gene of HIF, inhibits HIF-1α in a dose-dependent manner in an in vitro model of hypoxia-ischemia. This study is designed to elucidate the primary mediator of EPO-induced HIF-1α inhibition and subsequent cell survival/neuroprotection. Oxygen and glucose deprivation (OGD) of nerve growth factor-differentiated rat pheochromocytoma (PC-12) cells were used to model hypoxia-ischemia in an in vitro environment. The profile of HIF-1α, HIF-2α and prolyl hydroxylase domain 2 (PHD-2) expression; HIF-1α and prolyl hydroxylase (PHD-2) mRNA levels; matrix metalloproteinase (MMP)-9; and cell death was evaluated in the presence and absence of either EPO or PHD-2 inhibitor during OGD. Our findings showed that EPO treatment resulted in an increase in PHD-2 transcription and translation, inhibition of HIF-1α expression, reactive oxygen species formation, and MMP-9 activity, resulting in increased cell survival after OGD. We also observed that EPO-induced cell survival/neuroprotection was reversed by siRNA silencing of PHD-2. This led to the conclusion that PHD-2 is a key mediator of EPO-induced HIF-1α inhibition and subsequent neuroprotection in an in vitro model of hypoxia-ischemia.

  4. Disruption of hypoxia-inducible transcription factor-prolyl hydroxylase domain-1 (PHD-1-/-) attenuates ex vivo myocardial ischemia/reperfusion injury through hypoxia-inducible factor-1α transcription factor and its target genes in mice.

    PubMed

    Adluri, Ram Sudheer; Thirunavukkarasu, Mahesh; Dunna, Nageswara Rao; Zhan, Lijun; Oriowo, Babatunde; Takeda, Kotaro; Sanchez, Juan A; Otani, Hajime; Maulik, Gautam; Fong, Guo-Hua; Maulik, Nilanjana

    2011-10-01

    Hypoxia-inducible transcription factor (HIF)-prolyl hydroxylases domain (PHD-1-3) are oxygen sensors that regulate the stability of the HIFs in an oxygen-dependent manner. Suppression of PHD enzymes leads to stabilization of HIFs and offers a potential treatment option for many ischemic disorders, such as peripheral artery occlusive disease, myocardial infarction, and stroke. Here, we show that homozygous disruption of PHD-1 (PHD-1(-/-)) could facilitate HIF-1α-mediated cardioprotection in ischemia/reperfused (I/R) myocardium. Wild-type (WT) and PHD-1(-/-) mice were randomized into WT time-matched control (TMC), PHD-1(-/-) TMC (PHD1TMC), WT I/R, and PHD-1(-/-) I/R (PHD1IR). Isolated hearts from each group were subjected to 30 min of global ischemia followed by 2 h of reperfusion. TMC hearts were perfused for 2 h 30 min without ischemia. Decreased infarct size (35%±0.6% vs. 49%±0.4%) and apoptotic cardiomyocytes (106±13 vs. 233±21 counts/100 high-power field) were observed in PHD1IR compared to wild-type ischemia/reperfusion (WTIR). Protein expression of HIF-1α was significantly increased in PHD1IR compared to WTIR. mRNA expression of β-catenin (1.9-fold), endothelial nitric oxide synthase (1.9-fold), p65 (1.9-fold), and Bcl-2 (2.7-fold) were upregulated in the PHD1IR compared with WTIR, which was studied by real-time quantitative polymerase chain reaction. Further, gel-shift analysis showed increased DNA binding activity of HIF-1α and nuclear factor-kappaB in PHD1IR compared to WTIR. In addition, nuclear translocation of β-catenin was increased in PHD1IR compared with WTIR. These findings indicated that silencing of PHD-1 attenuates myocardial I/R injury probably by enhancing HIF-1α/β-catenin/endothelial nitric oxide synthase/nuclear factor-kappaB and Bcl-2 signaling pathway.

  5. Healing mysteries: An interview with Howard Hall, PhD, PsyD. Interview by Sheldon Lewis.

    PubMed

    Hall, Howard

    2007-01-01

    Dr Howard Hall is an associate professor in the department of pediatrics at Case Western Reserve University (CWRU) and an attending doctor in the division of behavioral pediatrics at Rainbow Babies and Children's Hospital in Cleveland, Ohio. Dr Hall holds a PhD in Experimental Psychology from Princeton University and a PsyD in Clinical Psychology from Rutgers University. He has conducted research and taught courses in clinical and multicultural psychology and maintains a clinical practice using hypnosis and other mind-body approaches to healing at CWRU. Howard Hall has been recognized as a leader in the field of clinical psychoneuroimmunology and conducted pioneering research on the effects of hypnosis on immune responses. In recent years, he has studied energy-based rapid wound healing as demonstrated by Sufi practitioners. Recently, Sheldon Lewis, Editor-in-Chief of Advances in Mind-Body Medicine, spoke with Dr Hall about his work.

  6. Wrapping it up in a person: Examining employment and earnings outcomes for PhD recipients1

    PubMed Central

    Zolas, Nikolas; Goldschlag, Nathan; Jarmin, Ron; Stephan, Paula; Smith, Jason Owen; Rosen, Rebecca; Allen, Barbara McFadden; Weinberg, Bruce A.; Lane, Julia I.

    2016-01-01

    In evaluating research investments, it is important to establish whether the expertise gained by researchers in conducting their projects propagates into the broader economy. For eight universities, it was possible to combine data from the UMETRICS project, which provided administrative records on graduate students supported on funded research, with data from the U.S. Bureau of the Census. The analysis covers 2010-2012 earnings and placement outcomes of people receiving doctorates in 2009-2011. Almost 40% of supported doctorate recipients, both federally and non-federally funded, enter industry and, when they do, they disproportionately get jobs at large and high wage establishments in high tech and professional service industries. While PhD recipients spread nationally, there is also geographic clustering in employment near the universities that trained and employed the researchers. We also show large differences across fields in placement outcomes. PMID:26659054

  7. [Comment on "Meeting Ph.D. Graduates' needs in a changing global environment"] Challenges to fostering interdisciplinary graduate education

    NASA Astrophysics Data System (ADS)

    Kock, Beaudry

    C. Susan Weiler's article ("Meeting Ph.D. graduates' needs in a changing global environment," Eos, 55(13), 149, 151) calling for more care and attention to interdisciplinary graduate education illuminated an important and neglected issue. Weiler makes the excellent point that for society to manage complex natural systems effectively, it is imperative that we establish stronger connections between science and public policy. However, as a nation, the United States lacks the institutional research culture to foster this. Nor are we training sufficient numbers of professionals with the skills to make these connections; and when the small number of truly interdisciplinary scientists emerge annually into the workforce, there are few positions that fit them.I echo Weiler's call for increased interdisciplinary collaboration, and the necessary training to support this increase. However, there are some fundamental obstacles her article does not explore.

  8. The National Institute of Nursing Research Graduate Partnerships Program (NINR-GPP): an opportunity for PhD students.

    PubMed

    Engler, Mary B; Austin, Joan K; Grady, Patricia

    2014-01-01

    The Institutional Graduate Partnerships Program (GPP) offered by the National Institute of Nursing Research (NINR) provides an exceptional opportunity for students who are enrolled in any PhD program in nursing across the nation to complete dissertation research on the premier research campus of the National Institutes of Health, Bethesda, MD. The goal of this doctoral fellowship program, which is up to 3 years in length, is to train promising doctoral students in basic and clinical research. This knowledge and skill set is necessary for the next generation of nurse scientists to ultimately conduct translational research. In this article, the authors describe the program, eligibility requirements, application procedures, and selection criteria for NINR-supported GPP nursing students. Also provided are tips for interested students and outcomes of current and former NINR-supported GPP students (NINR-GPP).

  9. Germostatin resistance locus 1 encodes a PHD finger protein involved in auxin-mediated seed dormancy and germination.

    PubMed

    Ye, Yajin; Gong, Ziying; Lu, Xiao; Miao, Deyan; Shi, Jianmin; Lu, Juan; Zhao, Yang

    2016-01-01

    Seed dormancy and germination are important physiological processes during the life cycle of a seed plant. Recently, auxin has been characterized as a positive regulator that functions during seed dormancy and as a negative regulator during germination. Through chemical genetic screenings, we have identified a small molecule, germostatin (GS), which effectively inhibits seed germination in Arabidopsis. GSR1 (germostatin resistance locus 1) encodes a tandem plant homeodomain (PHD) finger protein, identified by screening GS-resistant mutants. Certain PHD fingers of GSR1 are capable of binding unmethylated H3K4, which has been reported as an epigenetic mark of gene transcriptional repression. Biochemical studies show that GSR1 physically interacts with the transcriptional repressor ARF16 and attenuates the intensity of interaction of IAA17/ARF16 by directly interacting with IAA17 to release ARF16. Further results show that axr3-1, arf10 arf16 are hyposensitive to GS, and gsr1 not only resists auxin-mediated inhibition of seed germination but also displays decreased dormancy. We therefore propose that GSR1 may form a co-repressor with ARF16 to regulate seed germination. Besides promoting auxin biosynthesis via upregulating expression of YUCCA1, GS also enhances auxin responses by inducing degradation of DΙΙ-VENUS and upregulating expression of DR5-GFP. In summary, we identified GSR1 as a member of the auxin-mediated seed germination genetic network, and GS, a small non-auxin molecule that specifically acts on auxin-mediated seed germination.

  10. The Evolution of Recent Research on Catalan Literature through the Production of PhD Theses: A Bibliometric and Social Network Analysis

    ERIC Educational Resources Information Center

    Ardanuy, Jordi; Urbano, Cristobal; Quintana, Lluis

    2009-01-01

    Introduction: This paper studies the situation of research on Catalan literature between 1976 and 2003 by carrying out a bibliometric and social network analysis of PhD theses defended in Spain. It has a dual aim: to present interesting results for the discipline and to demonstrate the methodological efficacy of scientometric tools in the…

  11. Implementation of an Education-Focused PhD Program in Anatomy and Cell Biology at Indiana University: Lessons Learned and Future Challenges

    ERIC Educational Resources Information Center

    Brokaw, James J.; O'Loughlin, Valerie D.

    2015-01-01

    In 2008, the Indiana University School of Medicine, in collaboration with the School of Education, admitted its first student to a newly approved PhD program in Anatomy and Cell Biology focusing on educational research rather than biomedical research. The goal of the program is twofold: (1) to provide students with extensive training in all of the…

  12. The Role of Gender in the Employment, Career Perception and Research Performance of Recent PhD Graduates from Dutch Universities

    PubMed Central

    Waaijer, Cathelijn J. F.; Sonneveld, Hans; Buitendijk, Simone E.; van Bochove, Cornelis A.; van der Weijden, Inge C. M.

    2016-01-01

    Recent decades have seen a sharp increase in the number of female PhD graduates in the Netherlands. Currently, the share of females among newly graduated PhDs is almost on par with that of males. A considerable body of scientific studies has investigated the role of gender in the academic workplace. However, the role of gender in the careers of all PhD graduates, including those outside academia, has been studied less. In this study, we investigate gender differences in type of job, occupation, career perception and research performance of recent PhDs. The study is based on a survey of persons who obtained a PhD from one of five Dutch universities between 2008 and early 2012. We show that gender differences in post-PhD careers are non-existent in some aspects studied, but there are small differences in other aspects, such as sector of employment, type of contract, involvement in teaching and management, and career perception. In contrast, male and female PhDs differ sharply on two factors. The first is field of PhD, females being heavily underrepresented in engineering and the natural sciences. The second is part-time employment, females being much more likely to work part-time than males, especially if they work in the Netherlands. In later career stages, the combination of the small and large differences can be presumed to affect the career progression of female PhDs through cumulative disadvantage. PMID:27736968

  13. Eco-Driven Chemical Research in the Boundary Between Academia and Industry. PhD Students' Views on Science and Society

    NASA Astrophysics Data System (ADS)

    Sjöström, Jesper

    2013-10-01

    This paper examines and discusses the views on science and society held among PhD students working in two different industrially and environmentally driven research programmes in the broad area of green chemistry. It is based on thirteen in-depth interviews. The analysis shows three main ways of handling the situation as "post-academic" PhD student: (1) the student sees the PhD work mainly as a job and does not reflect about his/her research or the research funding, (2) the student is satisfied with the post-academic situation, accepts the established innovation policy discourse and is sceptical to traditional academic research, and (3) the student sees collaborative research programmes as a way to get funding, which can be used for secretly done basic research. Most PhD students either emphasise usefulness—in line with the dominating research policy discourse—or they adopt the positivistic view of science as objective and independent of the surrounding society. However, there are only a few signs of "double problematisation", that is a critical view where both disciplinary-oriented and industry-dependent research are problematised.

  14. The Motivation and Identity Challenges for PhD Holders in the Transition to Science and Mathematics Teaching in Secondary Education: A Pilot Study

    ERIC Educational Resources Information Center

    Whannell, Robert; Allen, Bill

    2014-01-01

    Australian secondary education has endured a chronic shortage of qualified mathematics and science teachers for a number of years, particularly in rural and remote areas. A longitudinal research project examining the capacity for the holders of PhD level qualifications in mathematics and science to be utilised as one means of addressing this…

  15. Teacher Training for Political Science PhD Students in Europe Determinants of a Tool for Enhanced Teaching in Higher Education

    ERIC Educational Resources Information Center

    Pleschova, Gabriela; Simon, Eszter

    2009-01-01

    In this paper we examine the state of teacher training for political science PhD candidates in the European Union and make a comparison with the situation in the United States. We investigate the determinants of supply and demand of teacher training. On the supply side, we suggest that research orientation and quality assurance are factors that…

  16. Gender Differential Item Functioning on a National Field-Specific Test: The Case of PhD Entrance Exam of TEFL in Iran

    ERIC Educational Resources Information Center

    Ahmadi, Alireza; Bazvand, Ali Darabi

    2016-01-01

    Differential Item Functioning (DIF) exists when examinees of equal ability from different groups have different probabilities of successful performance in a certain item. This study examined gender differential item functioning across the PhD Entrance Exam of TEFL (PEET) in Iran, using both logistic regression (LR) and one-parameter item response…

  17. International Mobility of PhD Students since the 1990s and Its Effect on China: A Cross-National Analysis

    ERIC Educational Resources Information Center

    Shen, Wenqin; Wang, Chuanyi; Jin, Wei

    2016-01-01

    Of all the levels of education, doctoral education is the most internationalised. By selecting one key indicator (the proportion of international students among a country's doctorate recipients), the article presents an analysis of PhD students' international mobility. After the collapse of the Soviet Union and the end of the Cold War in the early…

  18. Outcomes and Processes in the Meyerhoff Scholars Program: STEM PhD Completion, Sense of Community, Perceived Program Benefit, Science Identity, and Research Self-Efficacy

    ERIC Educational Resources Information Center

    Maton, Kenneth I.; Beason, Tiffany S.; Godsay, Surbhi; Domingo, Mariano R. Sto.; Bailey, TaShara C.; Sun, Shuyan; Hrabowski, Freeman A., III

    2016-01-01

    Previous research has shown that the Meyerhoff Scholars Program at the University of Maryland, Baltimore County, is an effective intervention for high-achieving underrepresented minority (URM) students; African-American Meyerhoff students are significantly more likely to enter science, technology, engineering, and mathematics (STEM) PhD programs…

  19. Toward an Evaluation Framework for Doctoral Education in Social Work: A 10-Year Retrospective of One PhD Program's Assessment Experiences

    ERIC Educational Resources Information Center

    Bentley, Kia J.

    2013-01-01

    This article presents a framework for evaluation in social work doctoral education and details 10 years of successes and challenges in one PhD program's use of the framework, including planning and implementing specific assessment activities around student learning outcomes and larger program goals. The article argues that a range of…

  20. Instructional Coaching and the Effective Teacher. Q&A with Jim Knight, Ph.D. REL Mid-Atlantic Teacher Effectiveness Webinar Series

    ERIC Educational Resources Information Center

    Regional Educational Laboratory Mid-Atlantic, 2014

    2014-01-01

    Instructional coaching can help teachers adopt new practices. In this webinar, participants explored how instructional coaching can encourage teachers to adopt new practices and whether coaching has lasting effects. This webinar featured Jim Knight, Ph.D., a Research Associate at the University of Kansas, who has been studying and writing about…

  1. The Role of Gender in the Employment, Career Perception and Research Performance of Recent PhD Graduates from Dutch Universities.

    PubMed

    Waaijer, Cathelijn J F; Sonneveld, Hans; Buitendijk, Simone E; van Bochove, Cornelis A; van der Weijden, Inge C M

    2016-01-01

    Recent decades have seen a sharp increase in the number of female PhD graduates in the Netherlands. Currently, the share of females among newly graduated PhDs is almost on par with that of males. A considerable body of scientific studies has investigated the role of gender in the academic workplace. However, the role of gender in the careers of all PhD graduates, including those outside academia, has been studied less. In this study, we investigate gender differences in type of job, occupation, career perception and research performance of recent PhDs. The study is based on a survey of persons who obtained a PhD from one of five Dutch universities between 2008 and early 2012. We show that gender differences in post-PhD careers are non-existent in some aspects studied, but there are small differences in other aspects, such as sector of employment, type of contract, involvement in teaching and management, and career perception. In contrast, male and female PhDs differ sharply on two factors. The first is field of PhD, females being heavily underrepresented in engineering and the natural sciences. The second is part-time employment, females being much more likely to work part-time than males, especially if they work in the Netherlands. In later career stages, the combination of the small and large differences can be presumed to affect the career progression of female PhDs through cumulative disadvantage.

  2. HIF-1α is a protective factor in conditional PHD2-deficient mice suffering from severe HIF-2α–induced excessive erythropoiesis

    PubMed Central

    Franke, Kristin; Kalucka, Joanna; Mamlouk, Soulafa; Singh, Rashim Pal; Muschter, Antje; Weidemann, Alexander; Iyengar, Vasuprada; Jahn, Steffen; Wieczorek, Kathrin; Geiger, Kathrin; Muders, Michael; Sykes, Alex M.; Poitz, David M.; Ripich, Tatsiana; Otto, Teresa; Bergmann, Sybille; Breier, Georg; Baretton, Gustavo; Fong, Guo-Hua; Greaves, David R.; Bornstein, Stefan; Chavakis, Triantafyllos; Fandrey, Joachim; Gassmann, Max

    2013-01-01

    Erythropoiesis must be tightly balanced to guarantee adequate oxygen delivery to all tissues in the body. This process relies predominantly on the hormone erythropoietin (EPO) and its transcription factor hypoxia inducible factor (HIF). Accumulating evidence suggests that oxygen-sensitive prolyl hydroxylases (PHDs) are important regulators of this entire system. Here, we describe a novel mouse line with conditional PHD2 inactivation (cKO P2) in renal EPO producing cells, neurons, and astrocytes that displayed excessive erythrocytosis because of severe overproduction of EPO, exclusively driven by HIF-2α. In contrast, HIF-1α served as a protective factor, ensuring survival of cKO P2 mice with HCT values up to 86%. Using different genetic approaches, we show that simultaneous inactivation of PHD2 and HIF-1α resulted in a drastic PHD3 reduction with consequent overexpression of HIF-2α-related genes, neurodegeneration, and lethality. Taken together, our results demonstrate for the first time that conditional loss of PHD2 in mice leads to HIF-2α–dependent erythrocytosis, whereas HIF-1α protects these mice, providing a platform for developing new treatments of EPO-related disorders, such as anemia. PMID:23264599

  3. Doctoral Training in Statistics, Measurement, and Methodology in Psychology: Replication and Extension of Aiken, West, Sechrest, and Reno's (1990) Survey of PhD Programs in North America

    ERIC Educational Resources Information Center

    Aiken, Leona S.; West, Stephen G.; Millsap, Roger E.

    2008-01-01

    In a survey of all PhD programs in psychology in the United States and Canada, the authors documented the quantitative methodology curriculum (statistics, measurement, and research design) to examine the extent to which innovations in quantitative methodology have diffused into the training of PhDs in psychology. In all, 201 psychology PhD…

  4. The PhD Game in a Middle Eastern Setting: A Small-Scale Study of Science Students in an Iranian University

    ERIC Educational Resources Information Center

    Hasrati, Mostafa; Hashemi, Reza

    2011-01-01

    While research is abundant on quality assurance in higher education, very little has been done to study informal learning in general and its relation to quality assurance in particular. Reporting on a study of informal learning among PhD students in natural sciences in an Iranian university, this article is an attempt to address this issue.…

  5. Using the M.Phil to Ph.D Transfer Viva as a Focus for the Collaborative Self Study of Examining Practices.

    ERIC Educational Resources Information Center

    Lomax, Pam; Parker, Zoe

    This paper questions the practice whereby the university teacher has sole power over judgments about doctoral student outcomes. The analysis is based on action research and a case study examination of one student's vive voca examination to transfer from the M.Phil to the Ph.D. program at Kingston University (England). In the examination process…

  6. Decoupling of the minority PhD talent pool and assistant professor hiring in medical school basic science departments in the US.

    PubMed

    Gibbs, Kenneth D; Basson, Jacob; Xierali, Imam M; Broniatowski, David A

    2016-11-17

    Faculty diversity is a longstanding challenge in the US. However, we lack a quantitative and systemic understanding of how the career transitions into assistant professor positions of PhD scientists from underrepresented minority (URM) and well-represented (WR) racial/ethnic backgrounds compare. Between 1980 and 2013, the number of PhD graduates from URM backgrounds increased by a factor of 9.3, compared with a 2.6-fold increase in the number of PhD graduates from WR groups. However, the number of scientists from URM backgrounds hired as assistant professors in medical school basic science departments was not related to the number of potential candidates (R(2)=0.12, p>0.07), whereas there was a strong correlation between these two numbers for scientists from WR backgrounds (R(2)=0.48, p<0.0001). We built and validated a conceptual system dynamics model based on these data that explained 79% of the variance in the hiring of assistant professors and posited no hiring discrimination. Simulations show that, given current transition rates of scientists from URM backgrounds to faculty positions, faculty diversity would not increase significantly through the year 2080 even in the context of an exponential growth in the population of PhD graduates from URM backgrounds, or significant increases in the number of faculty positions. Instead, the simulations showed that diversity increased as more postdoctoral candidates from URM backgrounds transitioned onto the market and were hired.

  7. Revealing Future Research Capacity from an Analysis of a National Database of Discipline-Coded Australian PhD Thesis Records

    ERIC Educational Resources Information Center

    Pittayachawan, Siddhi; Macauley, Peter; Evans, Terry

    2016-01-01

    This article reports how statistical analyses of PhD thesis records can reveal future research capacities for disciplines beyond their primary fields. The previous research showed that most theses contributed to and/or used methodologies from more than one discipline. In Australia, there was a concern for declining mathematical teaching and…

  8. Localized Delivery of shRNA against PHD2 Protects the Heart from Acute Myocardial Infarction through Ultrasound-Targeted Cationic Microbubble Destruction

    PubMed Central

    Zhang, Li; Sun, Zhenxing; Ren, Pingping; You, Manjie; Zhang, Jing; Fang, Lingyun; Wang, Jing; Chen, Yihan; Yan, Fei; Zheng, Hairong; Xie, Mingxing

    2017-01-01

    Hypoxia-inducible factor 1α (HIF-1α) plays a critical protective role in ischemic heart disease. Under normoxic conditions, HIF-1α was degraded by oxygen-dependent prolyl hydroxylase-2 (PHD2). Gene therapy has become a promising strategy to inhibit the degradation of HIF-1α and to improve cardiac function after ischemic injury. However, conventional gene delivery systems are difficult to achieve a targeted and localized gene delivery into the ischemic myocardia. Here, we report the localized myocardial delivery of shRNA against PHD2 through ultrasound-targeted microbubble destruction (UTMD) for protection the heart from acute myocardial infarction. In this study, a novel cationic microbubble was fabricated by using of the thin-film hydration and sonication method. The resulting microbubbles had a 28.2 ± 2.21 mV surface zeta potential and could greatly improve DNA binding performance, achieving 17.81 ± 1.46 μg of DNA loading capacity per 5 × 108 microbubbles. Combined with these cationic microbubbles, UTMD-mediated gene delivery was evaluated and the gene transfection efficiency was optimized in the H9C2 cardiac cells. Knockdown of PHD2 gene was successfully realized by UTMD-mediated shPHD2 transfection, resulting in HIF-1α-dependent protective effects on H9C2 cells through increasing the expression of HIF-1α, VEGF and bFGF. We further employed UTMD-mediated shPHD2 transfection into the localized ischemic myocardia in a rat ischemia model, demonstrating significantly reduced infarct size and greatly improved the heart function. The silencing of PHD2 and the up-regulation of its downstream genes in the treated myocardia were confirmed. Histological analysis further revealed numbers of HIF-1α- and VEGF-, and CD31-positive cells/mm2 in the shPHD2-treated group were significantly greater than those in the sham or control vector groups (P < 0.05). In conclusion, our study provides a promising strategy to realize ultrasound-mediated localized myocardial sh

  9. Allosteric remodelling of the histone H3 binding pocket in the Pygo2 PHD finger triggered by its binding to the B9L/BCL9 co-factor.

    PubMed

    Miller, Thomas C R; Rutherford, Trevor J; Johnson, Christopher M; Fiedler, Marc; Bienz, Mariann

    2010-09-03

    The Zn-coordinated PHD fingers of Pygopus (Pygo) proteins are critical for beta-catenin-dependent transcriptional switches in normal and malignant tissues. They bind to methylated histone H3 tails, assisted by their BCL9 co-factors whose homology domain 1 (HD1) binds to the rear PHD surface. Although histone-binding residues are identical between the two human Pygo paralogs, we show here that Pygo2 complexes exhibit slightly higher binding affinities for methylated histone H3 tail peptides than Pygo1 complexes. We solved the crystal structure of the Pygo2 PHD-BCL9-2 HD1 complex, which revealed paralog-specific interactions in its PHD-HD1 interface that could contribute indirectly to its elevated affinity for the methylated histone H3 tail. Interestingly, using NMR spectroscopy, we discovered that HD1 binding to PHD triggers an allosteric communication with a conserved isoleucine residue that lines the binding channel for histone H3 threonine 3 (T3), the link between the two adjacent binding pockets accommodating histone H3 alanine 1 and methylated lysine 4, respectively. This modulates the surface of the T3 channel, providing a plausible explanation as to how BCL9 co-factors binding to Pygo PHD fingers impact indirectly on their histone binding affinity. Intriguingly, this allosteric modulation of the T3 channel is propagated through the PHD structural core by a highly conserved tryptophan, the signature residue defining the PHD subclass of Zn fingers, which suggests that other PHD proteins may also be assisted by co-factors in their decoding of modified histone H3 tails.

  10. Outcomes assessment of science & engineering doctor of philosophy (Ph.D.) programs: An exploratory study of prospective influencers in distinguished graduate placement

    NASA Astrophysics Data System (ADS)

    Williamson, Louise M.

    This exploratory study was an investigation of the mission and emphases of twenty-two science & engineering doctor of philosophy (Ph.D.) programs in ten fields of study at nine public research universities in the United States and the corresponding influence those factors impose on placement of Ph.D. graduates of those programs into academic program settings. Ph.D. program chairs participated via protocol to provide descriptive, statistical, and experiential details of their Ph.D. programs and offered insight on current conditions for academic placement opportunities. The quantitative analysis served as the basis of examination of influencers in graduate placement for those Ph.D. programs that are informed about placement activity of their graduates. Among the nine tested hypotheses there were no statistically significant findings. The qualitative expressions of this study---those found in the confounding variables, the limitations of the study, those questions that elicited opinions and further discussion and follow-up queries with program chairs---added most meaningfully, however, to the study in that they served as a gauge of the implications of neglect for those Ph.D. programs that remain uninformed about their graduate placement activity. Central to the findings of this study was that one compelling fact remains the same. Denecke, Director of Best Practice at the Council of Graduate Schools, pointed out years ago that just as "we know very little about why those who finish and why those who leave do so, we also know surprisingly little about where students go after their degrees...we therefore have little information about how effective doctoral programs are in preparing doctorates for short- and long-term career success." The fact remains that the effectiveness of doctoral programs in the context of career success is just as uncertain today. A serious admonition is that one-half of those programs that participated in this study remain uninformed about the

  11. Functional validation of putative toxin-antitoxin genes from the Gram-positive pathogen Streptococcus pneumoniae: phd-doc is the fourth bona-fide operon.

    PubMed

    Chan, Wai Ting; Yeo, Chew Chieng; Sadowy, Ewa; Espinosa, Manuel

    2014-01-01

    Bacterial toxin-antitoxin (TAs) loci usually consist of two genes organized as an operon, where their products are bound together and inert under normal conditions. However, under stressful circumstances the antitoxin, which is more labile, will be degraded more rapidly, thereby unleashing its cognate toxin to act on the cell. This, in turn, causes cell stasis or cell death, depending on the type of TAs and/or time of toxin exposure. Previously based on in silico analyses, we proposed that Streptococcus pneumoniae, a pathogenic Gram-positive bacterium, may harbor between 4 and 10 putative TA loci depending on the strains. Here we have chosen the pneumococcal strain Hungary(19A)-6 which contains all possible 10 TA loci. In addition to the three well-characterized operons, namely relBE2, yefM-yoeB, and pezAT, we show here the functionality of a fourth operon that encodes the pneumococcal equivalent of the phd-doc TA. Transcriptional fusions with gene encoding Green Fluorescent Protein showed that the promoter was slightly repressed by the Phd antitoxin, and exhibited almost background values when both Phd-Doc were expressed together. These findings demonstrate that phd-doc shows the negative self-regulatory features typical for an authentic TA. Further, we also show that the previously proposed TAs XreA-Ant and Bro-XreB, although they exhibit a genetic organization resembling those of typical TAs, did not appear to confer a functional behavior corresponding to bona fide TAs. In addition, we have also discovered new interesting bioinformatics results for the known pneumococcal TAs RelBE2 and PezAT. A global analysis of the four identified toxins-antitoxins in the pneumococcal genomes (PezAT, RelBE2, YefM-YoeB, and Phd-Doc) showed that RelBE2 and Phd-Doc are the most conserved ones. Further, there was good correlation among TA types, clonal complexes and sequence types in the 48 pneumococcal strains analyzed.

  12. Artium mater in relativistic astrophysics : New perspectives for a European-Latin American PhD program

    SciTech Connect

    Chardonnet, Pascal

    2015-12-17

    Following the successful scientific space missions by the European Space Agency (ESA) and the European Southern Observatory (ESO) in Chile, as well as the high-energy particle activities at CERN in Genve, we have created a Ph.D. program dedicated to the formation of scientists in the field of relativistic astrophysics. The students of such a program will lead the theoretical developments of one of the most active fields of research, based on the above observational and experimental facilities. This program needs expertise in the most advanced topics of mathematical and theoretical physics, and in relativistic field theories. It requires the ability to model the observational data received from the above facilities, as well as all the basic knowledge in astronomy, astrophysics and cosmology. This activity is necessarily international, no single university can cover the broad expertises. From this, the proposed program of the IRAP Ph.D., in one of the youngest and most dynamical French universities, pole of research and teaching in the Euro-Mediterranean region (PRES): the University of Nice. It benefits from the presence of the astrophysics research institute of Observatoire de la Cte d’Azur involved in relativistic and non-photonic astrophysics. The participation of the Freie Universitaet Berlin, Oldenburg and Bremen Universities and of the Einstein Institute in Potsdam offers the possibility of teaching in relativistic field theories at the highest level. The University of Savoy offers the link to the particle physics at CERN. The activities at the University of Rome, at Stockholm University and at ICRANet offer teaching programs in all the fields of relativistic astrophysics, including cosmology, the physics of gravitational collapse, gamma-ray bursts, and black hole physics. Finally, the University of Ferrara will be present with lectures and researches in the topics they have pioneered such as x-ray astrophysics and observational cosmology. Through ICRANet

  13. Artium mater in relativistic astrophysics : New perspectives for a European-Latin American PhD program

    NASA Astrophysics Data System (ADS)

    Chardonnet, Pascal

    2015-12-01

    Following the successful scientific space missions by the European Space Agency (ESA) and the European Southern Observatory (ESO) in Chile, as well as the high-energy particle activities at CERN in Genve, we have created a Ph.D. program dedicated to the formation of scientists in the field of relativistic astrophysics. The students of such a program will lead the theoretical developments of one of the most active fields of research, based on the above observational and experimental facilities. This program needs expertise in the most advanced topics of mathematical and theoretical physics, and in relativistic field theories. It requires the ability to model the observational data received from the above facilities, as well as all the basic knowledge in astronomy, astrophysics and cosmology. This activity is necessarily international, no single university can cover the broad expertises. From this, the proposed program of the IRAP Ph.D., in one of the youngest and most dynamical French universities, pole of research and teaching in the Euro-Mediterranean region (PRES): the University of Nice. It benefits from the presence of the astrophysics research institute of Observatoire de la Cte d'Azur involved in relativistic and non-photonic astrophysics. The participation of the Freie Universitaet Berlin, Oldenburg and Bremen Universities and of the Einstein Institute in Potsdam offers the possibility of teaching in relativistic field theories at the highest level. The University of Savoy offers the link to the particle physics at CERN. The activities at the University of Rome, at Stockholm University and at ICRANet offer teaching programs in all the fields of relativistic astrophysics, including cosmology, the physics of gravitational collapse, gamma-ray bursts, and black hole physics. Finally, the University of Ferrara will be present with lectures and researches in the topics they have pioneered such as x-ray astrophysics and observational cosmology. Through ICRANet the

  14. 'AN INCREDIBLY STEEP HILL:' HOW GENDER, RACE, AND CLASS SHAPE PERSPECTIVES ON ACADEMIC CAREERS AMONG BEGINNING BIOMEDICAL PHD STUDENTS.

    PubMed

    Wood, Christine V; Campbell, Patricia B; McGee, Richard

    2016-01-01

    This paper analyzes perspectives on academic careers among 60 beginning PhD students in the biomedical sciences. It presents seven perspectives on academic careers articulated by the students in the sample and explains the way that race/ethnicity, gender, and students' family education backgrounds are tied to those perspectives. The findings show that traditionally underrepresented students find the academic career path less navigable than students from well-represented groups. Among underrepresented students, even those from higher family education backgrounds, experiences related to race/ethnicity and gender often inform perceptions of the academic career even before they start their graduate research training. As the composition of the graduate population changes to include more women and underrepresented racial and ethnic minority men, it is important to note that not all graduate students enter with the same perspectives and views of the academic career and that there are meaningful differences in perspectives across demographic lines. Graduate programs can play a critical role in providing information and support for graduate students as they navigate their career choices, particularly at the earliest stages of training. By becoming sensitive to students' perspectives on career options, and understanding how differences in perspectives arise, mentors and others can align advising strategies with the experiences and views of students.

  15. Time-to-Credit Gender Inequities of First-Year PhD Students in the Biological Sciences

    PubMed Central

    Feldon, David F.; Peugh, James; Maher, Michelle A.; Roksa, Josipa; Tofel-Grehl, Colby

    2017-01-01

    Equitable gender representation is an important aspect of scientific workforce development to secure a sufficient number of individuals and a diversity of perspectives. Biology is the most gender equitable of all scientific fields by the marker of degree attainment, with 52.5% of PhDs awarded to women. However, equitable rates of degree completion do not translate into equitable attainment of faculty or postdoctoral positions, suggesting continued existence of gender inequalities. In a national cohort of 336 first-year PhD students in the biological sciences (i.e., microbiology, cellular biology, molecular biology, developmental biology, and genetics) from 53 research institutions, female participants logged significantly more research hours than males and were significantly more likely than males to attribute their work hours to the demands of their assigned projects over the course of the academic year. Despite this, males were 15% more likely to be listed as authors on published journal articles, indicating inequality in the ratio of time to credit. Given the cumulative advantage that accrues for students who publish early in their graduate careers and the central role that scholarly productivity plays in academic hiring decisions, these findings collectively point to a major potential source of persisting underrepresentation of women on university faculties in these fields. PMID:28130271

  16. Development and alumni assessment of an interdisciplinary PhD program offered through a blended learning environment.

    PubMed

    Goldberg, Debora Goetz; Clement, Dolores G; Cotter, J James

    2011-01-01

    There is a growing need for doctoral-prepared allied health professionals in health care practice, research, and teaching. This paper describes the development and evolution of the PhD Program in Health Related Sciences at Virginia Commonwealth University, which was designed to meet the demand for flexible learning environments by working allied health professionals. The program, now on its 14th year, offers interdisciplinary education in allied health fields through a blended learning environment that includes online and on-site education. An alumni assessment of the program was conducted in 2006 and 2008 to understand how well the program trained its graduates and how well the program responded to the needs of students. Six primary areas were reviewed: 1) extent to which program goals were achieved, 2) general skills and knowledge development for the student, 3) adequacy of the advising function of the program, 4) specific skill development for the student, 5) adequacy of instructional technology, and 6) impressions of the overall program. Findings from the alumni assessment led to changes in curriculum, enhanced use of distance education teaching, additional instructor training on distance-based multimedia technologies, and enhanced student-faculty interaction. Assessment of this program identified key areas, such as technology support, student-student interaction, and student-instructor interaction, which should be emphasized in the development or redesign of allied health educational programs offered in blended learning formats.

  17. Time-to-Credit Gender Inequities of First-Year PhD Students in the Biological Sciences.

    PubMed

    Feldon, David F; Peugh, James; Maher, Michelle A; Roksa, Josipa; Tofel-Grehl, Colby

    2017-01-01

    Equitable gender representation is an important aspect of scientific workforce development to secure a sufficient number of individuals and a diversity of perspectives. Biology is the most gender equitable of all scientific fields by the marker of degree attainment, with 52.5% of PhDs awarded to women. However, equitable rates of degree completion do not translate into equitable attainment of faculty or postdoctoral positions, suggesting continued existence of gender inequalities. In a national cohort of 336 first-year PhD students in the biological sciences (i.e., microbiology, cellular biology, molecular biology, developmental biology, and genetics) from 53 research institutions, female participants logged significantly more research hours than males and were significantly more likely than males to attribute their work hours to the demands of their assigned projects over the course of the academic year. Despite this, males were 15% more likely to be listed as authors on published journal articles, indicating inequality in the ratio of time to credit. Given the cumulative advantage that accrues for students who publish early in their graduate careers and the central role that scholarly productivity plays in academic hiring decisions, these findings collectively point to a major potential source of persisting underrepresentation of women on university faculties in these fields.

  18. Multivalent histone engagement by the linked tandem Tudor and PHD domains of UHRF1 is required for the epigenetic inheritance of DNA methylation.

    PubMed

    Rothbart, Scott B; Dickson, Bradley M; Ong, Michelle S; Krajewski, Krzysztof; Houliston, Scott; Kireev, Dmitri B; Arrowsmith, Cheryl H; Strahl, Brian D

    2013-06-01

    Histone post-translational modifications regulate chromatin structure and function largely through interactions with effector proteins that often contain multiple histone-binding domains. While significant progress has been made characterizing individual effector domains, the role of paired domains and how they function in a combinatorial fashion within chromatin are poorly defined. Here we show that the linked tandem Tudor and plant homeodomain (PHD) of UHRF1 (ubiquitin-like PHD and RING finger domain-containing protein 1) operates as a functional unit in cells, providing a defined combinatorial readout of a heterochromatin signature within a single histone H3 tail that is essential for UHRF1-directed epigenetic inheritance of DNA methylation. These findings provide critical support for the "histone code" hypothesis, demonstrating that multivalent histone engagement plays a key role in driving a fundamental downstream biological event in chromatin.

  19. Multivalent histone engagement by the linked tandem Tudor and PHD domains of UHRF1 is required for the epigenetic inheritance of DNA methylation

    PubMed Central

    Rothbart, Scott B.; Dickson, Bradley M.; Ong, Michelle S.; Krajewski, Krzysztof; Houliston, Scott; Kireev, Dmitri B.; Arrowsmith, Cheryl H.; Strahl, Brian D.

    2013-01-01

    Histone post-translational modifications regulate chromatin structure and function largely through interactions with effector proteins that often contain multiple histone-binding domains. While significant progress has been made characterizing individual effector domains, the role of paired domains and how they function in a combinatorial fashion within chromatin are poorly defined. Here we show that the linked tandem Tudor and plant homeodomain (PHD) of UHRF1 (ubiquitin-like PHD and RING finger domain-containing protein 1) operates as a functional unit in cells, providing a defined combinatorial readout of a heterochromatin signature within a single histone H3 tail that is essential for UHRF1-directed epigenetic inheritance of DNA methylation. These findings provide critical support for the “histone code” hypothesis, demonstrating that multivalent histone engagement plays a key role in driving a fundamental downstream biological event in chromatin. PMID:23752590

  20. The Influence of On-Campus, Academic Year Undergraduate Research on STEM PhD Outcomes: Evidence from the Meyerhoff Scholarship Program.

    PubMed

    2009-12-01

    The Meyerhoff Scholarship Program, which celebrated its 20(th) year in 2008, is considered a successful intervention program for increasing the number of underrepresented minorities who earn PhDs or MD/PhDs and pursue research careers in science, technology, engineering, and mathematics (STEM). This article examines the relationship between participation in one specific component of the Meyerhoff Scholarship Program-on-campus, academic year research-and the pursuit of a STEM PhD by thirteen cohorts of program participants. The results indicate that participation in on-campus, academic year research is associated with a substantial increase in the probability of pursuing a STEM PhD. They further suggest that the structure and intensity of the on-campus, academic year research experience matter.

  1. From the Bench to the Clinic Part 1: Martin McIntosh, Ph.D., Introduces His Lab's Immunotherapy Research | Office of Cancer Genomics

    Cancer.gov

    The field of immunotherapy is rapidly advancing and genomics techniques are being incorporated to add a “precision” approach. OCG spoke with two CTD2 investigators from the Fred Hutchinson Cancer Research Center (FHCRC) about new advances in immunotherapy. For the first article of this two-part series, we interviewed Martin McIntosh, Ph.D., member of the Fred Hutchinson Translational Research program and previously Program Head in Computational Biology at FHCRC/University of Washington Comprehensive Cancer Center.

  2. Decoupling of the minority PhD talent pool and assistant professor hiring in medical school basic science departments in the US

    PubMed Central

    Gibbs, Kenneth D; Basson, Jacob; Xierali, Imam M; Broniatowski, David A

    2016-01-01

    Faculty diversity is a longstanding challenge in the US. However, we lack a quantitative and systemic understanding of how the career transitions into assistant professor positions of PhD scientists from underrepresented minority (URM) and well-represented (WR) racial/ethnic backgrounds compare. Between 1980 and 2013, the number of PhD graduates from URM backgrounds increased by a factor of 9.3, compared with a 2.6-fold increase in the number of PhD graduates from WR groups. However, the number of scientists from URM backgrounds hired as assistant professors in medical school basic science departments was not related to the number of potential candidates (R2=0.12, p>0.07), whereas there was a strong correlation between these two numbers for scientists from WR backgrounds (R2=0.48, p<0.0001). We built and validated a conceptual system dynamics model based on these data that explained 79% of the variance in the hiring of assistant professors and posited no hiring discrimination. Simulations show that, given current transition rates of scientists from URM backgrounds to faculty positions, faculty diversity would not increase significantly through the year 2080 even in the context of an exponential growth in the population of PhD graduates from URM backgrounds, or significant increases in the number of faculty positions. Instead, the simulations showed that diversity increased as more postdoctoral candidates from URM backgrounds transitioned onto the market and were hired. DOI: http://dx.doi.org/10.7554/eLife.21393.001 PMID:27852433

  3. Outcomes and Processes in the Meyerhoff Scholars Program: STEM PhD Completion, Sense of Community, Perceived Program Benefit, Science Identity, and Research Self-Efficacy

    PubMed Central

    Maton, Kenneth I.; Beason, Tiffany S.; Godsay, Surbhi; Sto. Domingo, Mariano R.; Bailey, TaShara C.; Sun, Shuyan; Hrabowski, Freeman A.

    2016-01-01

    Previous research has shown that the Meyerhoff Scholars Program at the University of Maryland, Baltimore County, is an effective intervention for high-achieving underrepresented minority (URM) students; African-American Meyerhoff students are significantly more likely to enter science, technology, engineering, and mathematics (STEM) PhD programs than comparison students. The first of two studies in this report extends the prior research by examining levels of PhD completion for Meyerhoff (N = 479) versus comparison sample (N = 249) students among the first 16 cohorts. Entering African-American Meyerhoff students were 4.8 times more likely to complete STEM PhDs than comparison sample students. To enhance understanding of potential mechanisms of influence, the second study used data from the 22nd (Fall 2010) to 25th (Fall 2013) cohorts (N = 109) to test the hypothesis that perceived program benefit at the end of freshman year would mediate the relationship between sense of community at the end of Summer Bridge and science identity and research self-efficacy at the end of sophomore year. Study 2 results indicated that perceived program benefit fully mediated the relationship between sense of community and both criterion measures. The findings underscore the potential of comprehensive STEM intervention programs to enhance PhD completion, and suggest mechanisms of influence. PMID:27587857

  4. NUP98-PHF23 is a chromatin modifying oncoprotein that causes a wide array of leukemias sensitive to inhibition of PHD domain histone reader function

    PubMed Central

    Gough, Sheryl M; Lee, Fan; Yang, Fan; Walker, Robert L; Zhu, Yeulin J; Pineda, Marbin; Onozawa, Masahiro; Chung, Yang Jo; Bilke, Sven; Wagner, Elise K; Denu, John M; Ning, Yi; Xu, Bowen; Wang, Gang Greg; Meltzer, Paul S; Aplan, Peter D

    2014-01-01

    In this report, we show that expression of a NUP98-PHF23 (NP23) fusion, associated with acute myeloid leukemia (AML) in humans, leads to myeloid, erythroid, T-cell, and B-cell leukemia in mice. The leukemic and pre-leukemic tissues display a stem cell-like expression signature including Hoxa, Hoxb, and Meis1 genes. The PHF23 PHD domain is known to bind H3K4me3 residues, and chromatin immunoprecipitation experiments demonstrated that the NP23 protein bound chromatin at a specific subset of H3K4me3 sites, including Hoxa, Hoxb, and Meis1. Treatment of NP23 cells with disulfiram, which inhibits the binding of PHD domains to H3K4me3 residues, rapidly and selectively killed NP23 myeloblasts; cell death was preceded by decreased expression of Hoxa, Hoxb, and Meis1. Furthermore, AML driven by a related fusion gene, NUP98-JARID1A (NJL), was also sensitive to disulfiram. Thus, the NP23 mouse provides a platform to evaluate compounds that disrupt binding of oncogenic PHD proteins to H3K4me3. PMID:24535671

  5. Outcomes and Processes in the Meyerhoff Scholars Program: STEM PhD Completion, Sense of Community, Perceived Program Benefit, Science Identity, and Research Self-Efficacy.

    PubMed

    Maton, Kenneth I; Beason, Tiffany S; Godsay, Surbhi; Sto Domingo, Mariano R; Bailey, TaShara C; Sun, Shuyan; Hrabowski, Freeman A

    2016-01-01

    Previous research has shown that the Meyerhoff Scholars Program at the University of Maryland, Baltimore County, is an effective intervention for high-achieving underrepresented minority (URM) students; African-American Meyerhoff students are significantly more likely to enter science, technology, engineering, and mathematics (STEM) PhD programs than comparison students. The first of two studies in this report extends the prior research by examining levels of PhD completion for Meyerhoff (N = 479) versus comparison sample (N = 249) students among the first 16 cohorts. Entering African-American Meyerhoff students were 4.8 times more likely to complete STEM PhDs than comparison sample students. To enhance understanding of potential mechanisms of influence, the second study used data from the 22nd (Fall 2010) to 25th (Fall 2013) cohorts (N = 109) to test the hypothesis that perceived program benefit at the end of freshman year would mediate the relationship between sense of community at the end of Summer Bridge and science identity and research self-efficacy at the end of sophomore year. Study 2 results indicated that perceived program benefit fully mediated the relationship between sense of community and both criterion measures. The findings underscore the potential of comprehensive STEM intervention programs to enhance PhD completion, and suggest mechanisms of influence.

  6. Doctoral training in statistics, measurement, and methodology in psychology: replication and extension of Aiken, West, Sechrest, and Reno's (1990) survey of PhD programs in North America.

    PubMed

    Aiken, Leona S; West, Stephen G; Millsap, Roger E

    2008-01-01

    In a survey of all PhD programs in psychology in the United States and Canada, the authors documented the quantitative methodology curriculum (statistics, measurement, and research design) to examine the extent to which innovations in quantitative methodology have diffused into the training of PhDs in psychology. In all, 201 psychology PhD programs (86%) participated. This survey replicated and extended a previous survey (L. S. Aiken, S. G. West, L. B. Sechrest, & R. R. Reno, 1990), permitting examination of curriculum development. Most training supported laboratory and not field research. The median of 1.6 years of training in statistics and measurement was mainly devoted to the modally 1-year introductory statistics course, leaving little room for advanced study. Curricular enhancements were noted in statistics and to a minor degree in measurement. Additional coverage of both fundamental and innovative quantitative methodology is needed. The research design curriculum has largely stagnated, a cause for great concern. Elite programs showed no overall advantage in quantitative training. Forces that support curricular innovation are characterized. Human capital challenges to quantitative training, including recruiting and supporting young quantitative faculty, are discussed. Steps must be taken to bring innovations in quantitative methodology into the curriculum of PhD programs in psychology.

  7. The PHD-finger module of the Arabidopsis thaliana defense regulator EDM2 can recognize triply modified histone H3 peptides.

    PubMed

    Tsuchiya, Tokuji; Eulgem, Thomas

    2014-05-15

    Recently we reported that the Arabidopsis thaliana PHD-finger protein EDM2 (enhanced downy mildew 2) impacts disease resistance by affecting levels of di-methylated lysine 9 of histone H3 (H3K9me2) at an alternative polyadenylation site in the immune receptor gene RPP7. EDM2-dependent modulation of this post-translational histone modification (PHM) shifts the balance between full-length RPP7 transcripts and prematurely polyadenylated transcripts, which do not encode the RPP7 protein. Our previous work genetically linked, for the first time, PHMs to alternative polyadenylation and established EDM2 as a critical component mediating PHM-dependent polyadenylation control. However, how EDM2 is recruited to its genomic target sites and how it affects H3K9me2 levels is unknown. Here we show the PHD-finger module of EDM2 to recognize histone H3 bearing certain combinations of three distinct PHMs. Our results suggest that targeting of EDM2 to specific genomic regions is mediated by the histone-binding selectivity of its PHD-finger domain.

  8. The PHD-finger module of the Arabidopsis thaliana defense regulator EDM2 can recognize triply modified histone H3 peptides.

    PubMed

    Tsuchiya, Tokuji; Eulgem, Thomas

    2014-01-01

    Recently we reported that the Arabidopsis thaliana PHD-finger protein EDM2 (enhanced downy mildew 2) impacts disease resistance by affecting levels of di-methylated lysine 9 of histone H3 (H3K9me2) at an alternative polyadenylation site in the immune receptor gene RPP7. EDM2-dependent modulation of this post-translational histone modification (PHM) shifts the balance between full-length RPP7 transcripts and prematurely polyadenylated transcripts, which do not encode the RPP7 protein. Our previous work genetically linked, for the first time, PHMs to alternative polyadenylation and established EDM2 as a critical component mediating PHM-dependent polyadenylation control. However, how EDM2 is recruited to its genomic target sites and how it affects H3K9me2 levels is unknown. Here we show the PHD-finger module of EDM2 to recognize histone H3 bearing certain combinations of 3 distinct PHMs. Our results suggest that targeting of EDM2 to specific genomic regions is mediated by the histone-binding selectivity of its PHD-finger domain.

  9. A novel PHD-finger protein 14/KIF4A complex overexpressed in lung cancer is involved in cell mitosis regulation and tumorigenesis.

    PubMed

    Zhang, Lin; Huang, Qin; Lou, Jiatao; Zou, Liangjian; Wang, Yiguo; Zhang, Peng; Yang, Guang; Zhang, Junyi; Yu, Lan; Yan, Dai; Zhang, Chenyi; Qiao, Jing; Wang, Shuting; Wang, Sai; Xu, Yongdong; Ji, Hongbin; Chen, Zhengjun; Zhang, Zhe

    2017-02-01

    The plant homeodomain (PHD) finger-containing proteins have been implicated in many human diseases including cancer. In this study, we found that PHF14, a newly identified PHD finger protein, is highly expressed in lung cancer. The high expression level of PHF14 was associated with adenocarcinoma and poor survival in lung cancer patients. Knocking down PHF14 suppressed cancer cell growth and carcinogenesis, while over-expressing PHF14 promoted cell proliferation. During cell division, PHF14 directly bound to and co-localized with KIF4A (a nuclear motor protein involved in lung carcinogenesis) to form a functional complex. Similarly to the effect of KIF4A depletion, silencing PHF14 in several cell lines caused cell mitotic defects, prolonged M phase, and inhibited cell proliferation. What's more, these two proteins had a synergistic effect on cell proliferation and were significantly co-overexpressed in lung cancer tissues. Our data provide new insights into the biological significance of PHD finger proteins and imply that PHF14 may be a potential biomarker for lung cancer.

  10. A RING to rule them all? Insights into the Map3k1 PHD motif provide a new mechanistic understanding into the diverse roles of Map3k1.

    PubMed

    Suddason, T; Gallagher, E

    2015-04-01

    Despite the sizable number of components that comprise Mapk cascades, Map3k1 is the only element that contains both a kinase domain and a plant homeodomain (PHD) motif, allowing Map3k1 to regulate the protein phosphorylation and ubiquitin proteasome systems. As such, Map3k1 has complex roles in the regulation of cell death, survival, migration and differentiation. Numerous mouse and human genetic analyses have demonstrated that Map3k1 is of critical importance for the immune system, cardiac tissue, testis, wound healing, tumorigenesis and cancer. Recent gene knockin of Map3k1 to mutate the E2 binding site within the Map3k1 PHD motif and high throughput ubiquitin protein array screening for Map3k1 PHD motif substrates provide critical novel insights into Map3k1 PHD motif signal transduction and bring a brand-new understanding to Map3k1 signaling in mammalian biology.

  11. PHD/HIF-1 upregulates CA12 to protect against degenerative disc disease: a human sample, in vitro and ex vivo study.

    PubMed

    Chen, Shuai; Fang, Xiang-Qian; Wang, Qiang; Wang, Shao-Wei; Hu, Zhi-Jun; Zhou, Zhi-Jie; Xu, Wen-Bing; Wang, Ji-Ying; Qin, An; Fan, Shun-Wu

    2016-05-01

    Intervertebral disc degeneration is a major cause of low back pain. The nucleus pulposus (NP) is an important intervertebral disc component. Recent studies have shown that carbonic anhydrase 12 (CA12) is a novel NP marker. However, the mechanism by which CA12 is regulated and its physiological function are unclear. In our study, CA12, hypoxia-inducible factor 1α (HIF-1α) and HIF-2α expression levels were examined in 81 human degenerated NP samples using real-time RT-PCR, immunohistochemistry and western blot. Rat NP cells were cultured in a hypoxic environment, and hypoxia-induced CA12 expression was examined. Rat NP cells were treated with HIF-1α siRNA or the prolyl hydroxylase (PHD) inhibitor dimethyloxalylglycine (DMOG) to evaluate the role of PHD/HIF-1 in regulating CA12 expression. Rat NP cells were treated with CA12 siRNA to determine the function of CA12. A rat ex vivo model was established to confirm that PHD, HIF-1, and CA12 have important roles in disc degeneration. We found that CA12 was significantly downregulated in degenerated human NP samples at the mRNA and protein levels. CA12 expression sharply increased by ~30-fold in response to hypoxia. The expression of HIF-1α, but not HIF-2α, also decreased in degenerated human NP samples and was positively correlated with CA12 expression. HIF-1α knockdown under hypoxia reduced the CA12 mRNA and protein expression levels. DMOG treatment increased HIF-1α and CA12 expression. CA12 knockdown significantly inhibited anabolic protein expression, whereas catabolic enzymes remained unchanged. The ex vivo experiments supported our in vitro studies of the role of PHD/HIF-1/CA12. In conclusion, CA12 is downregulated in degenerated NPs, and its expression may be regulated by the PHD/HIF-1 axis. Decreased CA12 expression may lead to decreased extracellular matrix synthesis, which contributes to degenerative disc disease progression.

  12. Research that Guides Practice: Outcome Research in Swedish PhD Theses Across Seven Disciplines 1997-2012.

    PubMed

    Olsson, Tina M; Sundell, Knut

    2016-05-01

    The core of evidence-based practice (EBP) as advocated for within the practice arms of the health and social sciences is to promote the routine incorporation of the best available research evidence into practice efforts. This requires discipline-specific education that is not only grounded in professional practice but also prepares would-be scientists in the application of the sophisticated techniques that characterize today's high research standards. Doctoral-level education is an important primer for future scientific endeavors across disciplines. This study examined 2334 theses published across Sweden in public health, criminology, nursing, psychiatry, psychology, social work, and sociology during the period 1997-2012. Of the theses reviewed, 13% aimed to investigate the effects of interventions. The highest percentage of effectiveness studies was found in nursing, public health, and psychology. The percentage of outcome research increased during the period. Controlled studies (with comparison group and pre- and post-test) occurred primarily within public health, nursing, psychiatry, and psychology. Of the 296 theses that included an intervention effectiveness study, 131 (44%), or 5.6% of all theses reviewed, met all four assessment criteria for quality. PhD education across seven disciplines in Sweden may be producing a professional core of scientists that is ill prepared to produce the type of research that is necessary to inform practice of the effects of its interventions as exposure to the rigors of quality effectiveness research is all but non-existent. This has implications for the advancement of an evidence-based practice and intervention science more broadly.

  13. In what ways do the experiences of students in PhD programs in the molecular biosciences foster knowledge transfer?

    NASA Astrophysics Data System (ADS)

    Prevost, Amy C.

    Doctoral training in the molecular biosciences often fails to prepare students for academic and alternate careers. Several studies of doctoral training have reported a need to improve doctoral education; outlining specific criticisms related to the need to broaden the scope of the doctoral degree in order to prepare students for careers. The development of doctoral students' knowledge transfer skills is the key to making this transition. The theory advanced in this study extends the literature on doctoral education related to student experiences that foster the development of knowledge transfer skills. These insights will be a resource for academic leaders as they develop new programs and the re-develop existing ones; to students and graduates as they become leaders in their field; and to mentors, who have a large role in the development of doctoral students. Research conducted for this dissertation led to the development of theory about elements of the doctoral experience that foster the development of knowledge transfer skills in the molecular biosciences. In exploring ways the experiences of students in PhD programs in the molecular biosciences foster knowledge transfer, I was able to develop a framework for understanding these experiences in the context of doctoral programs. Students' experiences are affected by different elements of doctoral education. As they develop identities as researchers and scientists, and transition from novices to experts, students' experiences are shaped by their mentors, peers, programs and departments. Subjects spoke about their experiences in interviews. This study exposed a need to balance support and challenge for doctoral students to allow them to develop the capacity to perform scientific research and act as leaders. The development of knowledge transfer skills within this context is important preparation for students in the molecular biosciences. Doctoral students in this area need to apply their expertise in increasingly

  14. Sumter S. Arnim, D.D.S., Ph.D.: Texas leader in evidence-based dentistry.

    PubMed

    Johnson, James V; Jeske, Arthur H

    2011-12-01

    Many lessons can be learned from the career of Dr. Sumter Arnim, chief among them that we have a professional obligation to apply scientific knowledge to the practice of dentistry and to involve our patients in their dental care, and to share this translational knowledge with one's colleagues. Arnim's work was an honor not only for the University of Texas Dental Branch (now, The University of Texas School of Dentistry at Houston), but for every school and student with whom he interacted. Our profession is better for having had Sumter Arnim as one of its members, and he can be credited with having played a leadership role in what is now known as evidence-based dentistry in Texas, the United States, and beyond. One of the authors of this paper (JVJ) had the opportunity to be a student at the University of Texas Dental Branch during the time that Dr. Sumter Arnim was faculty member. Dr. Arnim was deservedly respected by his students and faculty colleagues alike, due in no small part to his dedication to dentistry. This dedication to the profession was well known, as Dr. Arnim had been accepted to Yale University Medical School, but soon after enrollment there, he elected to pursue a Ph.D. degree in Pathology, rather than M.D. Dr. Arnim constantly stressed the bacteriologic nature of dental disease and the value of prevention to his Dental Branch students, serving as Director of the Postgraduate School with great distinction. His steadfast belief in the biological basis of dentistry was manifest in his frequent admonition to the student body: "You can either be doctors or hardware merchants." Finally, it is ironic that in 2011, the American Dental Association has reiterated some of Arnim's career themes in its current publication on barriers to oral health in the United States, with primary messages that include, "Prevention is essential. A public health model based on the surgical intervention in disease that could have been prevented after that disease has occurred

  15. MS PHD'S: Effective Pathways to Mentoring for Increasing Diversity in the Geoscience Workforce - What have we done? What can we still do?

    NASA Astrophysics Data System (ADS)

    Ricciardi, L.; Johnson, A.; Williamson Whitney, V.; Ithier-Guzman, W.; Johnson, A.; Braxton, L.

    2011-12-01

    In 2003 a young, African-American geoscientist and professor discovered significant gaps in the recruitment and retention of minority students within the post-secondary educational community and a subsequent correlation of underrepresentation within the geosciences workforce. From this research, a unique concept was born: The Minorities Striving and Pursuing Higher Degrees of Success in Earth System Science Professional Development Program (MS PHD'S PDP). This program was founded upon a vision that minorities can and should play a role in facilitating a network to attract, retain and increase minority representation in the geosciences workforce. In 2003, the pilot MS PHD'S program focused on a simple grass roots concept of effective mentoring and professional development administered by and for minorities through professional development activities. Today the program has grown to an impressive number of alumni who, in addition to establishing careers in the ESS professional workforce, also return to mentor the next generation of upcoming minority geoscientists. Alumni, mentors and current participants not only experience what has grown into a three-phase program but also enjoy enhanced benefits of ongoing interaction through social media, list-servs and webinars. While keeping its feet firmly planted in its grass-roots philosophy of effective mentoring and professional development by and for minorities, the MS PHD'S program looks to the future, by asking the question, "What can we do next to ensure the future of maintaining and growing diverse representation in the geosciences workforce?" Looking ahead, future goals for the program include increasing its pilot representation motto of "by and for minorities", exploring new technologies and digital tools, and expanding its supportive network of distinguished academicians, scientific organizations, industry partners, alumni, peers, and representatives of non-science disciplines.

  16. Biomedical Ph.D. Students Enrolled in Two Elite Universities in the United Kingdom and the United States Report Adopting Multiple Learning Relationships

    PubMed Central

    Kemp, Matthew W.; Lazarus, Benjamin M.; Perron, Gabriel G.; Hanage, William P.; Chapman, Elaine

    2014-01-01

    Objective The ability to form multiple learning relationships is a key element of the doctoral learning environment in the biomedical sciences. Of these relationships, that between student and supervisor has long been viewed as key. There are, however, limited data to describe the student perspective on what makes this relationship valuable. In the present study, we discuss the findings of semi-structured interviews with biomedical Ph.D. students from the United Kingdom and the United States to: i) determine if the learning relationships identified in an Australian biomedical Ph.D. cohort are also important in a larger international student cohort; and ii) improve our understanding of student perceptions of value in their supervisory relationships. Study Design 32 students from two research intensive universities, one in the United Kingdom (n = 17), and one in the United States (n = 15) were recruited to participate in a semi-structured interview. Verbatim transcripts were transcribed, validated and analysed using a Miles and Huberman method for thematic analysis. Results Students reported that relationships with other Ph.D. students, post-doctoral scientists and supervisors were all essential to their learning. Effective supervisory relationships were perceived as the primary source of high-level project guidance, intellectual support and confidence. Relationships with fellow students were viewed as essential for the provision of empathetic emotional support. Technical learning was facilitated, almost exclusively, by relationships with postdoctoral staff. Conclusions These data make two important contributions to the scholarship of doctoral education in the biomedical sciences. Firstly, they provide further evidence for the importance of multiple learning relationships in the biomedical doctorate. Secondly, they clarify the form of a ‘valued’ supervisory relationship from a student perspective. We conclude that biomedical doctoral programs should be

  17. Career Coaches as a Source of Vicarious Learning for Racial and Ethnic Minority PhD Students in the Biomedical Sciences: A Qualitative Study

    PubMed Central

    Williams, Simon N.; Thakore, Bhoomi K.; McGee, Richard

    2016-01-01

    Introduction Many recent mentoring initiatives have sought to help improve the proportion of underrepresented racial and ethnic minorities (URMs) in academic positions across the biomedical sciences. However, the intractable nature of the problem of underrepresentation suggests that many young scientists may require supplemental career development beyond what many mentors are able to offer. As an adjunct to traditional scientific mentoring, we created a novel academic career “coaching” intervention for PhD students in the biomedical sciences. Objective To determine whether and how academic career coaches can provide effective career-development-related learning experiences for URM PhD students in the biomedical sciences. We focus specifically on vicarious learning experiences, where individuals learn indirectly through the experiences of others. Method The intervention is being tested as part of a longitudinal randomized control trial (RCT). Here, we describe a nested qualitative study, using a framework approach to analyze data from a total of 48 semi-structured interviews from 24 URM PhD students (2 interviews per participant, 1 at baseline, 1 at 12-month follow-up) (16 female, 8 male; 11 Black, 12 Hispanic, 1 Native-American). We explored the role of the coach as a source of vicarious learning, in relation to the students’ goal of being future biomedical science faculty. Results Coaches were resources through which most students in the study were able to learn vicariously about how to pursue, and succeed within, an academic career. Coaches were particularly useful in instances where students’ research mentors are unable to provide such vicarious learning opportunities, for example because the mentor is too busy to have career-related discussions with a student, or because they have, or value, a different type of academic career to the type the student hopes to achieve. Implications Coaching can be an important way to address the lack of structured career

  18. Happy Birthday Frederick Douglass: A Model for Teaching Literacy Narratives of Freedom in the Classroom

    ERIC Educational Resources Information Center

    Ciardiello, A. Vincent

    2012-01-01

    This article provides a model for teachers to expand students' thinking about the liberating nature of literacy. Literacy is not just about making kids smarter or preparing them for future careers. Neither is it passive, neutral, or innocent. It is infused with values and ideology. It can be used by people to promote freedom or support…

  19. A cross-section test of Cobb-Douglass production function between market capitalization and GDP

    NASA Astrophysics Data System (ADS)

    Avakian, Adam; Podobnik, Boris; Stanley, H. Eugene

    2012-02-01

    Most classical economic theories imply that both (a) economies with lower output (GDP) per person tend to grow faster in per capita terms and (b) economies with lower capital per person tend to grow faster in per capita terms. It is well-known that the former was found to be wrong. Taking market capitalization as a proxy for physical capital, we analyze a cohort of countries over a 17-year period (1994-2010) and we find the latter statement in agreement with empirical data implying a contradictive result that while capital data worldwide tend to converge, GDP data tend to diverge. However, for the countries analyzed, for which we have both market capitalization and GDP data, we find that even economies with lower output (GDP) per person tend to grow faster in per capita terms. The result that for all countries one obtains divergence while for a group of countries having both market capitalization and GDP data we have convergence is in contrast with the refutation of (a) but our results only apply to countries that have an exchange market, and are thus participating in globalization, indicating the convergent effect of globalization.

  20. Implementation of an education-focused PhD program in anatomy and cell biology at Indiana University: lessons learned and future challenges.

    PubMed

    Brokaw, James J; O'Loughlin, Valerie D

    2015-01-01

    In 2008, the Indiana University School of Medicine, in collaboration with the School of Education, admitted its first student to a newly approved PhD program in Anatomy and Cell Biology focusing on educational research rather than biomedical research. The goal of the program is twofold: (1) to provide students with extensive training in all of the anatomical disciplines coupled with sufficient teaching experience to assume major educational responsibilities upon graduation and (2) to train students to conduct rigorous medical education research and other scholarly work necessary for promotion and tenure. The 90 credit hour curriculum consists of biomedical courses taught within the School of Medicine and education courses taught within the School of Education, including courses in health sciences pedagogy, curriculum development, learning theory, quantitative, and qualitative research methods, statistics, and electives. To date, 16 students have entered the program, seven have passed their qualifying examinations, and five have earned their PhD degrees. Four students have received national recognition for their educational research and four graduates have obtained faculty appointments. Going forward, we must adapt the program's biomedical course requirements to incorporate the new integrated curriculum of the medical school, and we must secure additional funding to support more students. Overcoming these challenges will enable us to continue producing a small but stable supply of doctoral-level anatomy educators for a growing academic market.

  1. Structural Basis for Lower Lysine Methylation State-Specific Readout by MBT Repeats of L3MBTL1 and an Engineered PHD Finger

    SciTech Connect

    Li, Haitao; Fischle, Wolfgang; Wang, Wooikoon; Duncan, Elizabeth M.; Liang, Lena; Murakami-Ishibe, Satoko; Allis, C. David; Patel, Dinshaw J.

    2008-09-17

    Human L3MBTL1, which contains three malignant brain tumor (MBT) repeats, binds monomethylated and dimethylated lysines, but not trimethylated lysines, in several histone sequence contexts. In crystal structures of L3MBTL1 complexes, the monomethyl- and dimethyllysines insert into a narrow and deep cavity of aromatic residue-lined pocket 2, while a proline ring inserts into shallower pocket 1. We have also engineered a single Y to E substitution within the aromatic cage of the BPTF PHD finger, resulting in a reversal of binding preference from trimethyl- to dimethyllysine in an H3K4 sequence context. In both the 'cavity insertion' (L3MBTL1) and 'surface groove' (PHD finger) modes of methyllysine recognition, a carboxylate group both hydrogen bonds and ion pairs to the methylammonium proton. Our structural and binding studies of these two modules provide insights into the molecular principles governing the decoding of lysine methylation states, thereby highlighting a methylation state-specific layer of histone mark readout impacting on epigenetic regulation.

  2. Crystal Structures of Phd-Doc, HigA, and YeeU Establish Multiple Evolutionary Links between Microbial Growth-Regulating Toxin-Antitoxin Systems

    SciTech Connect

    Arbing, Mark A.; Handelman, Samuel K.; Kuzin, Alexandre P.; Verdon, Grégory; Wang, Chi; Su, Min; Rothenbacher, Francesca P.; Abashidze, Mariam; Liu, Mohan; Hurley, Jennifer M.; Xiao, Rong; Acton, Thomas; Inouye, Masayori; Montelione, Gaetano T.; Woychik, Nancy A.; Hunt, John F.

    2010-09-27

    Bacterial toxin-antitoxin (TA) systems serve a variety of physiological functions including regulation of cell growth and maintenance of foreign genetic elements. Sequence analyses suggest that TA families are linked by complex evolutionary relationships reflecting likely swapping of functional domains between different TA families. Our crystal structures of Phd-Doc from bacteriophage P1, the HigA antitoxin from Escherichia coli CFT073, and YeeU of the YeeUWV systems from E. coli K12 and Shigella flexneri confirm this inference and reveal additional, unanticipated structural relationships. The growth-regulating Doc toxin exhibits structural similarity to secreted virulence factors that are toxic for eukaryotic target cells. The Phd antitoxin possesses the same fold as both the YefM and NE2111 antitoxins that inhibit structurally unrelated toxins. YeeU, which has an antitoxin-like activity that represses toxin expression, is structurally similar to the ribosome-interacting toxins YoeB and RelE. These observations suggest extensive functional exchanges have occurred between TA systems during bacterial evolution.

  3. The ePHD protein SPBP interacts with TopBP1 and together they co-operate to stimulate Ets1-mediated transcription

    PubMed Central

    Sjøttem, Eva; Rekdal, Cecilie; Svineng, Gunbjørg; Johnsen, Sylvia Sagen; Klenow, Helle; Uglehus, Rebecca Dale; Johansen, Terje

    2007-01-01

    SPBP (Stromelysin-1 PDGF responsive element binding protein) is a ubiquitously expressed 220 kDa nuclear protein shown to enhance or repress the transcriptional activity of various transcription factors. A yeast two-hybrid screen, with the extended plant homeodomain (ePHD) of SPBP as bait, identified TopBP1 (topoisomerase II β-binding protein 1) as a candidate interaction partner of SPBP. TopBP1 has eight BRCA1 carboxy-terminal (BRCT) domains and is involved in DNA replication, DNA damage responses and in the regulation of gene expression. The interaction between SPBP and TopBP1 was confirmed in vitro and in vivo, and was found to be mediated by the ePHD domain of SPBP and the BRCT6 domain of TopBP1. Both SPBP and TopBP1 enhanced the transcriptional activity of Ets1 on the c-myc P1P2- and matrix metalloproteinase-3 (MMP3) promoters. Together they displayed a more than additive effect. Both proteins were associated with these promoters. The involvement of TopBP1 was dependent on the serine 1159 phosphorylation site, known to be important for transcriptional activation. Depletion of endogenous SPBP by siRNA treatment reduced MMP3 secretion by 50% in phorbol ester-stimulated human fibroblasts. Taken together, our results show that TopBP1 and SPBP interact physically and functionally to co-operate as co-activators of Ets1. PMID:17913746

  4. The PHD Finger Protein MMD1/DUET Ensures the Progression of Male Meiotic Chromosome Condensation and Directly Regulates the Expression of the Condensin Gene CAP-D3.

    PubMed

    Wang, Jun; Niu, Baixiao; Huang, Jiyue; Wang, Hongkuan; Yang, Xiaohui; Dong, Aiwu; Makaroff, Christopher; Ma, Hong; Wang, Yingxiang

    2016-08-01

    Chromosome condensation, a process mediated by the condensin complex, is essential for proper chromosome segregation during cell division. Unlike rapid mitotic chromosome condensation, meiotic chromosome condensation occurs over a relatively long prophase I and is unusually complex due to the coordination with chromosome axis formation and homolog interaction. The molecular mechanisms that regulate meiotic chromosome condensation progression from prophase I to metaphase I are unclear. Here, we show that the Arabidopsis thaliana meiotic PHD-finger protein MMD1/DUET is required for progressive compaction of prophase I chromosomes to metaphase I bivalents. The MMD1 PHD domain is required for its function in chromosome condensation and binds to methylated histone tails. Transcriptome analysis and qRT-PCR showed that several condensin genes exhibit significantly reduced expression in mmd1 meiocytes. Furthermore, MMD1 specifically binds to the promoter region of the condensin subunit gene CAP-D3 to enhance its expression. Moreover, cap-d3 mutants exhibit similar chromosome condensation defects, revealing an MMD1-dependent mechanism for regulating meiotic chromosome condensation, which functions in part by promoting condensin gene expression. Together, these discoveries provide strong evidence that the histone reader MMD1/DUET defines an important step for regulating the progression of meiotic prophase I chromosome condensation.

  5. The Use of Empirical Studies in the Development of High End Computing Applications

    DTIC Science & Technology

    2009-12-01

    research. One MS degree was partially supported: Rola Alameh, 2007; 3 PhD dissertations were partially supported: Lorin Hochstein, 2006, Taiga Nakamura...47 7. Taiga Nakamura, Lorin Hochstein, Victor R. Basili, "Identifying Domain-Specific Defect Classes Using Inspections and Change History...Carver, Lorin Hochstein, Richard P. Kendall, Taiga Nakamura, Marvin V. Zelkowitz, Victor R. Basili and Douglass E. Post, “Observations about

  6. Solar and Space Physics PhD Production and Job Availability: Implications for the Future of the Space Weather Research Workforce

    NASA Astrophysics Data System (ADS)

    Moldwin, M.; Morrow, C. A.; Moldwin, L. A.; Torrence, J.

    2012-12-01

    To assess the state-of-health of the field of Solar and Space Physics an analysis of the number of Ph.D.s produced and number of Job Postings each year was done for the decade 2001-2010. To determine the number of Ph.D's produced in the field, the University of Michigan Ph.D. Dissertation Archive (Proquest) was queried for Solar and Space Physics dissertations produced in North America. The field generated about 30 Ph.D. per year from 2001 to 2006, but then saw the number increase to 50 to 70 per year for the rest of the decade. Only 14 institutions account for the majority of Solar and Space Physics PhDs. To estimate the number of jobs available each year in the field, a compilation of the job advertisements listed in the American Astronomical Society's Solar Physics Division (SPD) and the American Geophysical Union's Space Physics and Aeronomy (SPA) electronic newsletters was done. The positions were sorted into four types (Faculty, Post-doctoral Researcher, and Scientist/Researcher or Staff), institution type (academic, government lab, or industry) and if the position was located inside or outside the United States. Overall worldwide, 943 Solar and Space Physics positions were advertised over the decade. Of this total, 52% were for positions outside the US. Within Solar Physics, 44% of the positions were in the US, while in Space Physics 57% of the positions were for US institutions. The annual average for positions in the US were 26.9 for Solar Physics and 31.5 for Space Physics though there is much variability year-to-year particularly in Solar Physics positions outside the US. A disconcerting trend is a decline in job advertisements in the last two years for Solar Physics positions and between 2009 and 2010 for Space Physics positions. For both communities within the US in 2010, the total job ads reached their lowest levels in the decade (14), approximately half the decadal average number of job advertisements.

  7. Trans-tail regulation of MLL4-catalyzed H3K4 methylation by H4R3 symmetric dimethylation is mediated by a tandem PHD of MLL4.

    PubMed

    Dhar, Shilpa S; Lee, Sung-Hun; Kan, Pu-Yeh; Voigt, Philipp; Ma, Li; Shi, Xiaobing; Reinberg, Danny; Lee, Min Gyu

    2012-12-15

    Mixed-lineage leukemia 4 (MLL4; also called MLL2 and ALR) enzymatically generates trimethylated histone H3 Lys 4 (H3K4me3), a hallmark of gene activation. However, how MLL4-deposited H3K4me3 interplays with other histone marks in epigenetic processes remains largely unknown. Here, we show that MLL4 plays an essential role in differentiating NT2/D1 stem cells by activating differentiation-specific genes. A tandem plant homeodomain (PHD(4-6)) of MLL4 recognizes unmethylated or asymmetrically dimethylated histone H4 Arg 3 (H4R3me0 or H4R3me2a) and is required for MLL4's nucleosomal methyltransferase activity and MLL4-mediated differentiation. Kabuki syndrome mutations in PHD(4-6) reduce PHD(4-6)'s binding ability and MLL4's catalytic activity. PHD(4-6)'s binding strength is inhibited by H4R3 symmetric dimethylation (H4R3me2s), a gene-repressive mark. The protein arginine methyltransferase 7 (PRMT7), but not PRMT5, represses MLL4 target genes by up-regulating H4R3me2s levels and antagonizes MLL4-mediated differentiation. Consistently, PRMT7 knockdown increases MLL4-catalyzed H3K4me3 levels. During differentiation, decreased H4R3me2s levels are associated with increased H3K4me3 levels at a cohort of genes, including many HOXA and HOXB genes. These findings indicate that the trans-tail inhibition of MLL4-generated H3K4me3 by PRMT7-regulated H4R3me2s may result from H4R3me2s's interference with PHD(4-6)'s binding activity and is a novel epigenetic mechanism that underlies opposing effects of MLL4 and PRMT7 on cellular differentiation.

  8. Experimental characterization of a metal-oxide-semiconductor field-effect transistor-based Coulter counter

    PubMed Central

    Sridhar, Manoj; Xu, Dongyan; Kang, Yuejun; Hmelo, Anthony B.; Feldman, Leonard C.; Li, Dongqing; Li, Deyu

    2008-01-01

    We report the detailed characterization of an ultrasensitive microfluidic device used to detect the translocation of small particles through a sensing microchannel. The device connects a fluidic circuit to the gate of a metal-oxide-semiconductor field-effect transistor (MOSFET) and detects particles by monitoring the MOSFET drain current modulation instead of the modulation in the ionic current through the sensing channel. The minimum volume ratio of the particle to the sensing channel detected is 0.006%, which is about ten times smaller than the lowest detected volume ratio previously reported in the literature. This volume ratio is detected at a noise level of about 0.6% of the baseline MOSFET drain current, clearly showing the amplification effects from the fluidic circuits and the MOSFETs. We characterize the device sensitivity as a function of the MOSFET gate potential and show that its sensitivity is higher when the MOSFET is operating below its threshold gate voltage than when it is operating above the threshold voltage. In addition, we demonstrate that the device sensitivity linearly increases with the applied electrical bias across the fluidic circuit. Finally, we show that polystyrene beads and glass beads with similar sizes can be distinguished from each other based on their different translocation times, and the size distribution of microbeads can be obtained with accuracy comparable to that of direct scanning electron microscopy measurements. PMID:19479001

  9. [Estimation of mescaline and pellotine in Lophophora coulter plants (Cactaceae) by means of the oscillographic polarography].

    PubMed

    Gabermann, V

    1978-02-01

    Oscillographic polarography has been applied for the mescaline and pellotine estimation. These alkaloids produce in 0.5 N NaOH electrolyte a sharp peak within the cathode region of the oscillogram, each of them showing different potential. It makes possible to estimate them at a concentration of 5.10(-6) g/ml. All the forms of Lophophora williamsii were found to contain mescaline and lower content of pellothine, L. jourdaniana--to have equal content of both alkaloide, L. diffusa and L. fricii--to contain pellotine and only traces of mescaline. Plants grown in the greenhouse accumulated the same amount of alkaloids as native plants. Grafting on roodstock which does not produce essential amount of the alkaloids, does not affect the ability of Lophophora to synthesize mescaline and pellotine.

  10. Predictors of High Motivation Score for Performing Research Initiation Fellowship, Master 1, Research Master 2, and PhD Curricula During Medical Studies

    PubMed Central

    Feigerlova, Eva; Oussalah, Abderrahim; Fournier, Jean-Paul; Antonelli, Arnaud; Hadjadj, Samy; Marechaud, Richard; Guéant, Jean-Louis; Roblot, Pascal; Braun, Marc

    2016-01-01

    Abstract Translational research plays a crucial role in bridging the gap between fundamental and clinical research. The importance of integrating research training into medical education has been emphasized. Predictive factors that help to identify the most motivated medical students to perform academic research are unknown. In a cross-sectional study on a representative sample of 315 medical students, residents and attending physicians, using a comprehensive structured questionnaire we assessed motivations and obstacles to perform academic research curricula (ie, research initiation fellowship, Master 1, Research Master 2, and PhD). Independent predictive factors associated with high “motivation score” (top quartile on motivation score ranging from 0 to 10) to enroll in academic research curricula were derived using multivariate logistic regression analysis. Independent predictors of high motivation score for performing Master 1 curriculum were: “considering that the integration of translational research in medical curriculum is essential” (OR, 3.79; 95% CI, 1.49–9.59; P = 0.005) and “knowledge of at least 2 research units within the university” (OR, 3.60; 95% CI, 2.01–6.47; P < 0.0001). Independent predictors of high motivation score for performing Research Master 2 curriculum were: “attending physician” (OR, 4.60; 95% CI, 1.86–11.37; P = 0.001); “considering that the integration of translational research in medical curriculum is essential” (OR, 4.12; 95% CI, 1.51–11.23; P = 0.006); “knowledge of at least 2 research units within the university” (OR, 3.51; 95% CI, 1.91–6.46; P = 0.0001); and “male gender” (OR, 1.82; 95% CI, 1.02–3.25; P = 0.04). Independent predictors of high motivation score for performing PhD curriculum were: “considering that the integration of translational research in medical curriculum is essential” (OR, 5.94; 95% CI, 2.33–15.19; P = 0.0002) and “knowledge of at

  11. Predictors of High Motivation Score for Performing Research Initiation Fellowship, Master 1, Research Master 2, and PhD Curricula During Medical Studies: A Strobe-Compliant Article.

    PubMed

    Feigerlova, Eva; Oussalah, Abderrahim; Fournier, Jean-Paul; Antonelli, Arnaud; Hadjadj, Samy; Marechaud, Richard; Guéant, Jean-Louis; Roblot, Pascal; Braun, Marc

    2016-02-01

    Translational research plays a crucial role in bridging the gap between fundamental and clinical research. The importance of integrating research training into medical education has been emphasized. Predictive factors that help to identify the most motivated medical students to perform academic research are unknown. In a cross-sectional study on a representative sample of 315 medical students, residents and attending physicians, using a comprehensive structured questionnaire we assessed motivations and obstacles to perform academic research curricula (ie, research initiation fellowship, Master 1, Research Master 2, and PhD). Independent predictive factors associated with high "motivation score" (top quartile on motivation score ranging from 0 to 10) to enroll in academic research curricula were derived using multivariate logistic regression analysis. Independent predictors of high motivation score for performing Master 1 curriculum were: "considering that the integration of translational research in medical curriculum is essential" (OR, 3.79; 95% CI, 1.49-9.59; P = 0.005) and "knowledge of at least 2 research units within the university" (OR, 3.60; 95% CI, 2.01-6.47; P < 0.0001). Independent predictors of high motivation score for performing Research Master 2 curriculum were: "attending physician" (OR, 4.60; 95% CI, 1.86-11.37; P = 0.001); "considering that the integration of translational research in medical curriculum is essential" (OR, 4.12; 95% CI, 1.51-11.23; P = 0.006); "knowledge of at least 2 research units within the university" (OR, 3.51; 95% CI, 1.91-6.46; P = 0.0001); and "male gender" (OR, 1.82; 95% CI, 1.02-3.25; P = 0.04). Independent predictors of high motivation score for performing PhD curriculum were: "considering that the integration of translational research in medical curriculum is essential" (OR, 5.94; 95% CI, 2.33-15.19; P = 0.0002) and "knowledge of at least 2 research units within the university" (OR, 2.63; 95

  12. ‘AN INCREDIBLY STEEP HILL:’ HOW GENDER, RACE, AND CLASS SHAPE PERSPECTIVES ON ACADEMIC CAREERS AMONG BEGINNING BIOMEDICAL PHD STUDENTS

    PubMed Central

    Wood, Christine V.; Campbell, Patricia B.; McGee, Richard

    2017-01-01

    This paper analyzes perspectives on academic careers among 60 beginning PhD students in the biomedical sciences. It presents seven perspectives on academic careers articulated by the students in the sample and explains the way that race/ethnicity, gender, and students’ family education backgrounds are tied to those perspectives. The findings show that traditionally underrepresented students find the academic career path less navigable than students from well-represented groups. Among underrepresented students, even those from higher family education backgrounds, experiences related to race/ethnicity and gender often inform perceptions of the academic career even before they start their graduate research training. As the composition of the graduate population changes to include more women and underrepresented racial and ethnic minority men, it is important to note that not all graduate students enter with the same perspectives and views of the academic career and that there are meaningful differences in perspectives across demographic lines. Graduate programs can play a critical role in providing information and support for graduate students as they navigate their career choices, particularly at the earliest stages of training. By becoming sensitive to students’ perspectives on career options, and understanding how differences in perspectives arise, mentors and others can align advising strategies with the experiences and views of students. PMID:28239250

  13. Acidosis Acts through HSP90 in a PHD/VHL-Independent Manner to Promote HIF Function and Stem Cell Maintenance in Glioma.

    PubMed

    Filatova, Alina; Seidel, Sascha; Böğürcü, Nuray; Gräf, Sabine; Garvalov, Boyan K; Acker, Till

    2016-10-01

    Hypoxia is a common feature of solid tumors, which controls multiple aspects of cancer progression. One important function of hypoxia and the hypoxia-inducible factors (HIF) is the maintenance of cancer stem-like cells (CSC), a population of tumor cells that possess stem cell-like properties and drives tumor growth. Among the changes promoted by hypoxia is a metabolic shift resulting in acidification of the tumor microenvironment. Here, we show that glioma hypoxia and acidosis functionally cooperate in inducing HIF transcription factors and CSC maintenance. We found that these effects did not involve the classical PHD/VHL pathway for HIF upregulation, but instead involved the stress-induced chaperone protein HSP90. Genetic or pharmacologic inactivation of HSP90 inhibited the increase in HIF levels and abolished the self-renewal and tumorigenic properties of CSCs induced by acidosis. In clinical specimens of glioma, HSP90 was upregulated in the hypoxic niche and was correlated with a CSC phenotype. Our findings highlight the role of tumor acidification within the hypoxic niche in the regulation of HIF and CSC function through HSP90, with implications for therapeutic strategies to target CSC in gliomas and other hypoxic tumors. Cancer Res; 76(19); 5845-56. ©2016 AACR.

  14. GMAG PhD Dissertation Research Award Talk: Dynamic Magnetic Traps for Particle Self-Assembly and Lab-on-Chip Applications

    NASA Astrophysics Data System (ADS)

    Chen, Aaron

    2013-03-01

    Micro-patterned Permalloy thin films serve as an excellent means to architect the spatial profile of magnetic fields with the tunable, high gradients required to manipulate objects with weak induced magnetic moments. In this presentation, I will highlight two projects carried out during my PhD studies. These findings demonstrate the functionalities achieved through carefully designed patterns of different sizes and shapes (e.g. circular, triangular, octagonal profiles): (i) By tuning a precessing magnetic field in conjunction with such Permalloy patterns, microsphere (i.e. dipole) cluster structures ranging from closely packed to frustrated and to plum-pudding-like planar lattices are stabilized. Such self-assembly of components at the micro to nanometer range not only support a rich variety of physical phenomena, but also have applications, for example, as filters or force probes and field-tunable photonic crystals. (ii) Mobile magnetic trap arrays consisting of Permalloy disks have enabled rapid transport of magnetic beads or immunomagnetically labeled cells across surfaces. Integration of these arrays with microfluidic droplet technology allows separation of labeled cells and their subsequent encapsulation into picoliter-sized droplets. The droplets serve as isolated containers for individual cells to be probed without cross-contamination. The separation-encapsulation function could become a critical component in point-of-care single-cell analysis platforms.

  15. The Drosophila Ash1 Gene Product, Which Is Localized at Specific Sites on Polytene Chromosomes, Contains a Set Domain and a Phd Finger

    PubMed Central

    Tripoulas, N.; LaJeunesse, D.; Gildea, J.; Shearn, A.

    1996-01-01

    The determined state of Drosophila imaginal discs depends on stable patterns of homeotic gene expression. The stability of these patterns requires the function of the ash1 gene, a member of the trithorax group. The primary translation product of the 7.5-kb ash1 transcript is predicted to be a basic protein of 2144 amino acids. The ASH1 protein contains a SET domain and a PHD finger. Both of these motifs are found in the products of some trithorax group and Polycomb group genes. We have determined the nucleotide sequence alterations in 10 ash1 mutant alleles and have examined their mutant phenotype. The best candidate for a null allele is ash1(22). The truncated protein product of this mutant allele is predicted to contain only 47 amino acids. The ASH1 protein is localized on polytene chromosomes of larval salivary glands at >100 sites. The chromosomal localization of ASH1 implies that it functions at the transcriptional level to maintain the expression pattern of homeotic selector genes. PMID:8725238

  16. Increasing Diversity at the PhD Level in Astronomy: The Fisk-Vanderbilt Masters-to-PhD Bridge Program

    NASA Astrophysics Data System (ADS)

    Stassun, Keivan; Holley-Bockelmann, K.; Berlind, A. A.

    2013-01-01

    We briefly review the current status of underrepresented minorities in the physical sciences: The underrepresentation of Black-, Hispanic-, and Native-Americans is an order of magnitude problem. We then describe the Fisk-Vanderbilt Masters-to-PhD Bridge program as a successful model for effective partnerships with minority-serving institutions toward addressing this problem. Since 2004 the program has admitted 60 students, 54 of them underrepresented minorities (60% female), with a retention rate of 92%. The program leads the nation in master’s degrees in physics for African Americans, is one of the top ten producers of physics master’s degrees among all US citizens in general, and has become the nation’s top producer of underrepresented minority PhDs in physics, astronomy, and materials science. We summarize the main features of the program including two of its core strategies: (1) partnering a minority-serving institution and a major research university through collaborative research, and (2) using the master’s degree as a deliberate stepping stone to the PhD. We also specifically discuss one of the emerging core theories of the program: the concept of properly identifying students with 'unrealized or unrecognized potential'. We discuss our methods to recognize and select for unrealized potential during the admissions process, and how we cultivate that unrealized potential toward development of successful scientists and leaders.

  17. Enhancing Diversity at the PhD Level in Physics: The Fisk-Vanderbilt Masters-to-PhD Bridge Program

    NASA Astrophysics Data System (ADS)

    Stassun, Keivan

    2011-04-01

    We very briefly review the current status of underrepresented minorities in the physical sciences: The underrepresentation of Black-, Hispanic-, and Native-Americans is an order of magnitude problem. We then describe the Fisk-Vanderbilt Masters-to-PhD Bridge program as a successful model for effective partnerships with minority-serving institutions toward addressing this problem. Since 2004 the program has admitted 42 students, 37 of them underrepresented minorities (60% female), with a retention rate of 92%. The program is on pace to become the nation's top producer of underrepresented minority PhDs in physics, astronomy, and materials science. Already, the program leads the nation in master's degrees in physics for African Americans, and is one of the top ten producers of physics master's degrees among all US citizens in general. We summarize the main features of the program including two of its core strategies: (1) partnering a minority-serving institution and a major research university through collaborative research, and (2) using the master's degree as a deliberate stepping stone to the PhD. We also specifically discuss one of the emerging core theories of the program: the concept of students with ``unrealized or unrecognized potential.'' We discuss our methods to recognize and select for unrealized potential during the admissions process, and how we cultivate that unrealized potential toward development of successful scientists and leaders. Funding support from NSF PAARE grant AST-0849736.

  18. Incorporation of Autopsy Case-Based Learning into PhD Graduate Education: a Novel Approach to Bridging the 'Bench to Bedside' Gap.

    PubMed

    Brooks, Erin G; Thornton, Joanne M; Ranheim, Erik A; Fabry, Zsuzsanna

    2017-03-15

    Given the current rapid expansion of biological knowledge and the challenges of translating that knowledge into clinical practice, finding effective methods of teaching graduate students clinical medicine concepts has become even more critical. The utility of autopsy in medical student and resident education has been well-established. Multiple studies have reported it to be a helpful means of teaching anatomy, pathophysiology, clinical problem-solving skills, and medical diagnostic techniques. While various models of training Ph.D. candidates in clinical medicine have been reported, an autopsy-based curriculum has not been previously described. For over four years, our pathology department has offered a novel semester-long autopsy-based course to educate future Cellular and Molecular Pathology (CMP) scientists about clinical medicine. Our results indicating that this 'hands-on' approach is a popular as well as effective means of teaching the pathogenesis of disease at the level of the cell, organ, and patient. The course reputation has recently led to requests to open registration to graduate students from other university programs as well as undergraduate students. Additionally, it has played an important role in our CMP program's recent receipt of a 5-year renewal National Institutes of Health funded T32 award. Overall, this course model has been successful at our own institution, and could provide a useful template for other institutions seeking to provide graduate investigators with in-depth exposure to clinical medicine.

  19. Perspective: PhD scientists completing medical school in two years: looking at the Miami PhD-to-MD program alumni twenty years later.

    PubMed

    Koniaris, Leonidas G; Cheung, Michael C; Garrison, Gwen; Awad, William M; Zimmers, Teresa A

    2010-04-01

    Producing and retaining physician-scientists remains a major challenge in advancing innovation, knowledge, and patient care across all medical disciplines. Various programs during medical school, including MD-PhD programs, have been instituted to address the need for continued production of physician-scientists. From 1971 through 1989, 508 students with a prior PhD in the sciences, mathematics, or engineering graduated in two years from an accelerated MD program at the University of Miami School of Medicine. The program, designed to address potential clinical physician shortages rather than physician-scientist shortages, quickly attracted many top-notch scientists to medicine. Many program graduates went to top-tier residencies, pursued research careers in academic medicine, and became academic leaders in their respective fields. A retrospective examination of graduates conducted in 2008-2009 demonstrated that approximately 59% took positions in academic university medical departments, 3% worked for governmental agencies, 5% entered industry as researchers or executives, and 33% opted for private practice. Graduates' positions included 85 full professors, 11 university directors or division heads, 14 academic chairs, 2 medical school deans, and 1 astronaut. Overall, 30% of graduates had obtained National Institutes of Health funding after completing the program. These results suggest that accelerated medical training for accomplished scientists can produce a large number of successful physician-scientists and other leaders in medicine. Furthermore, these results suggest that shortening the medical portion of combined MD-PhD programs might also be considered.

  20. Negative Regulation of the Acetyltransferase TIP60-p53 Interplay by UHRF1 (Ubiquitin-like with PHD and RING Finger Domains 1)*

    PubMed Central

    Dai, Chao; Shi, Dingding; Gu, Wei

    2013-01-01

    Numerous studies indicate the importance of acetylation in p53-mediated stress responses upon DNA damage. We and others previously showed that TIP60 (Tat-interacting protein of 60 kDa)-mediated acetylation of p53 at K120 is crucial for p53-dependent apoptotic responses. Nevertheless, it remains unclear how TIP60-mediated effects on p53 are dynamically regulated in vivo. Here, we report that UHRF1 (ubiquitin-like with PHD and RING finger domains 1) interacts with TIP60 both in vitro and in vivo and induces degradation-independent ubiquitination of TIP60. Moreover, UHRF1 expression markedly suppresses the ability of TIP60 to acetylate p53. In contrast, RNAi-mediated knockdown of UHRF1 increases the endogenous levels of p53 acetylation at K120 and p53-mediated apoptosis is significantly enhanced in UHRF1-depleted cells. To elucidate the mechanisms of this regulation, we found that the interaction between TIP60 and p53 is severely inhibited in the presence of UHRF1, suggesting that UHRF1 modulates TIP60-mediated functions in both K120 acetylation-dependent and -independent manners. Consistent with this notion, UHRF1 knockdown promotes activation of p21 and PUMA but not MDM2. These findings demonstrate that UHRF1 is a critical negative regulator of TIP60 and suggest that UHRF1-mediated effects on p53 may contribute, at least in part, to its role in tumorigenesis. PMID:23677994

  1. Society News: PhD theses could win prizes; Last chance for IYA2009 grants; New Fellows; RAS Fellows win prizes; Need a job? Need staff? RAS Library Saturdays

    NASA Astrophysics Data System (ADS)

    2009-08-01

    Fellows who are PhD student supervisors should be on the lookout for exceptionally good work from research students submitting their theses this year, for nomination for the RAS Michael Penston Astronomy Prize and the RAS Keith Runcorn Prize. The RAS is offering one last chance to apply for grants towards International Year of Astronomy activities, but you'll have to apply soon. The Society sends congratulations to Fellows of the RAS who have recently received prestigious awards for their work.

  2. 1,3,8-Triazaspiro[4.5]decane-2,4-diones as efficacious pan-inhibitors of hypoxia-inducible factor prolyl hydroxylase 1-3 (HIF PHD1-3) for the treatment of anemia.

    PubMed

    Vachal, Petr; Miao, Shouwu; Pierce, Joan M; Guiadeen, Deodial; Colandrea, Vincent J; Wyvratt, Matthew J; Salowe, Scott P; Sonatore, Lisa M; Milligan, James A; Hajdu, Richard; Gollapudi, Anantha; Keohane, Carol A; Lingham, Russell B; Mandala, Suzanne M; DeMartino, Julie A; Tong, Xinchun; Wolff, Michael; Steinhuebel, Dietrich; Kieczykowski, Gerard R; Fleitz, Fred J; Chapman, Kevin; Athanasopoulos, John; Adam, Gregory; Akyuz, Can D; Jena, Dhirendra K; Lusen, Jeffrey W; Meng, Juncai; Stein, Benjamin D; Xia, Lei; Sherer, Edward C; Hale, Jeffrey J

    2012-04-12

    The discovery of 1,3,8-triazaspiro[4.5]decane-2,4-diones (spirohydantoins) as a structural class of pan-inhibitors of the prolyl hydroxylase (PHD) family of enzymes for the treatment of anemia is described. The initial hit class, spirooxindoles, was identified through affinity selection mass spectrometry (AS-MS) and optimized for PHD2 inhibition and optimal PK/PD profile (short-acting PHDi inhibitors). 1,3,8-Triazaspiro[4.5]decane-2,4-diones (spirohydantoins) were optimized as an advanced lead class derived from the original spiroindole hit. A new set of general conditions for C-N coupling, developed using a high-throughput experimentation (HTE) technique, enabled a full SAR analysis of the spirohydantoins. This rapid and directed SAR exploration has resulted in the first reported examples of hydantoin derivatives with good PK in preclinical species. Potassium channel off-target activity (hERG) was successfully eliminated through the systematic introduction of acidic functionality to the molecular structure. Undesired upregulation of alanine aminotransferese (ALT) liver enzymes was mitigated and a robust on-/off-target margin was achieved. Spirohydantoins represent a class of highly efficacious, short-acting PHD1-3 inhibitors causing a robust erythropoietin (EPO) upregulation in vivo in multiple preclinical species. This profile deems spirohydantoins as attractive short-acting PHDi inhibitors with the potential for treatment of anemia.

  3. GP Section selects Best Student Paper

    NASA Astrophysics Data System (ADS)

    The AGU Geomagnetism and Paleomagnetism (GP) Section has announced its selection of a paper entitled “Multicomponent Magnetization of the Upper Silurian-Lower Devonian Ringerike Sandstone, Adjacent Dikes, and Permian Lavas, Oslo, Norway” as the best GP student paper presented at the 1986 AGU Spring Meeting. The primary author, Dartmouth College Ph.D. candidate David Douglass, was assisted on the paper by a colleague from Lamont-Doherty Geological Observatory. Douglass received his B.S. in geology from the University of California, Los Angeles, in 1980, and in 1984, he received his M.S. in earth sciences at Dartmouth. His current studies examine the paleomagnetism, structure, and sedimentation of several North Atlantic old red sandstone basins.

  4. Molecular characterization and mRNA expression of two key enzymes of hypoxia-sensing pathways in eastern oysters Crassostrea virginica (Gmelin): Hypoxia-inducible factor α (HIF-α) and HIF-prolyl hydroxylase (PHD)

    PubMed Central

    Piontkivska, Helen; Chung, J. Sook; Ivanina, Anna V.; Sokolov, Eugene P.; Techa, Sirinart; Sokolova, Inna M.

    2010-01-01

    Oxygen homeostasis is crucial for development, survival and normal function of all metazoans. A family of transcription factors called hypoxia-inducible factors (HIF) is critical in mediating the adaptive responses to reduced oxygen availability. The HIF transcription factor consists of a constitutively expressed β subunit and an oxygen-dependent α subunit; the abundance of the latter determines the activity of HIF and is regulated by a family of O2- and Fe2+-dependent enzymes prolyl hydroxylases (PHDs). Currently very little is known about the function of this important pathway and the molecular structure of its key players in hypoxia-tolerant intertidal mollusks including oysters, which are among the animal champions of anoxic and hypoxic tolerance and thus can serve as excellent models to study the role of HIF cascade in adaptations to oxygen deficiency. We have isolated transcripts of two key components of the oxygen sensing pathway - the oxygen-regulated HIF-α subunit and PHD - from an intertidal mollusk, the eastern oyster Crassostrea virginica, and determined the transcriptional responses of these two genes to anoxia, hypoxia and cadmium (Cd) stress. HIF-α and PHD homologs from eastern oysters C. virginica show significant sequence similarity and share key functional domains with the earlier described isoforms from vertebrates and invertebrates. Phylogenetic analysis shows that genetic diversification of HIF and PHD isoforms occurred within the vertebrate lineage indicating functional diversification and specialization of the oxygen-sensing pathways in this group, which parallels situation observed for many other important genes. HIF-α and PHD homologs are broadly expressed at the mRNA level in different oyster tissues and show transcriptional responses to prolonged hypoxia in the gills consistent with their putative role in oxygen sensing and the adaptive response to hypoxia. Similarity in amino acid sequence, domain structure and transcriptional

  5. The Stress Response Factors Yap6, Cin5, Phd1, and Skn7 Direct Targeting of the Conserved Co-Repressor Tup1-Ssn6 in S. cerevisiae

    PubMed Central

    Hanlon, Sean E.; Rizzo, Jason M.; Tatomer, Deirdre C.; Lieb, Jason D.; Buck, Michael J.

    2011-01-01

    Maintaining the proper expression of the transcriptome during development or in response to a changing environment requires a delicate balance between transcriptional regulators with activating and repressing functions. The budding yeast transcriptional co-repressor Tup1-Ssn6 is a model for studying similar repressor complexes in multicellular eukaryotes. Tup1-Ssn6 does not bind DNA directly, but is directed to individual promoters by one or more DNA-binding proteins, referred to as Tup1 recruiters. This functional architecture allows the Tup1-Ssn6 to modulate the expression of genes required for the response to a variety of cellular stresses. To understand the targeting or the Tup1-Ssn6 complex, we determined the genomic distribution of Tup1 and Ssn6 by ChIP-chip. We found that most loci bound by Tup1-Ssn6 could not be explained by co-occupancy with a known recruiting cofactor and that deletion of individual known Tup1 recruiters did not significantly alter the Tup1 binding profile. These observations suggest that new Tup1 recruiting proteins remain to be discovered and that Tup1 recruitment typically depends on multiple recruiting cofactors. To identify new recruiting proteins, we computationally screened for factors with binding patterns similar to the observed Tup1-Ssn6 genomic distribution. Four top candidates, Cin5, Skn7, Phd1, and Yap6, all known to be associated with stress response gene regulation, were experimentally confirmed to physically interact with Tup1 and/or Ssn6. Incorporating these new recruitment cofactors with previously characterized cofactors now explains the majority of Tup1 targeting across the genome, and expands our understanding of the mechanism by which Tup1-Ssn6 is directed to its targets. PMID:21552514

  6. History of the biomedical studies PhD program: a joint graduate program of the Baylor Health Care system and Baylor University

    PubMed Central

    Morel, Christine R.; Horton, Joshua M.; Peng, Han; Xu, Kangling; Batra, Sushil K.; Miles, Jonathan P.

    2008-01-01

    On a sweltering summer morning, throngs of people filed into Jones Theatre at Baylor University in Waco for the graduate student orientation. One could look around and notice the diversity of not only the student population, but also the disciplines being represented. Many students had stepped off planes only hours prior, but even those who had been traveling for days could not contain their excitement. As for me, I was nowhere near any of this. I was still 40 miles north of Waco in Waxahachie, having been pulled over for speeding. After 4 days of traveling with my life in my Volkswagon Jetta, all the way from San Francisco, on one of the most important days of my life, I was late. When I finally arrived at the Hooper Schafer Fine Arts Auditorium, out of breath from running all the way from the parking structure, all of the graduate students were quietly listening to the first introductory speech. I snuck into the back and sat down. My mind was racing, as I knew very little about Waco and Baylor University except for the growing accomplishments of the biomedical studies program. What little I did know about Baylor seemed so different from my very liberal upbringing in California. What would this experience be like for me? But, as I listened to the talks, met with other students, and finally met the entire biomedical studies entering class of 2007, I knew that I had made the right decision in coming to Baylor. This would be an experience unlike any other, and I was wholeheartedly open to embracing it. —Christine Morel, PhD candidate, Institute of Biomedical Studies PMID:18982085

  7. PERSISTENT TAPETAL CELL1 encodes a PHD-finger protein that is required for tapetal cell death and pollen development in rice.

    PubMed

    Li, Hui; Yuan, Zheng; Vizcay-Barrena, Gema; Yang, Caiyun; Liang, Wanqi; Zong, Jie; Wilson, Zoe A; Zhang, Dabing

    2011-06-01

    In higher plants, timely degradation of tapetal cells, the innermost sporophytic cells of the anther wall layer, is a prerequisite for the development of viable pollen grains. However, relatively little is known about the mechanism underlying programmed tapetal cell development and degradation. Here, we report a key regulator in monocot rice (Oryza sativa), PERSISTANT TAPETAL CELL1 (PTC1), which controls programmed tapetal development and functional pollen formation. The evolutionary significance of PTC1 was revealed by partial genetic complementation of the homologous mutation MALE STERILITY1 (MS1) in the dicot Arabidopsis (Arabidopsis thaliana). PTC1 encodes a PHD-finger (for plant homeodomain) protein, which is expressed specifically in tapetal cells and microspores during anther development in stages 8 and 9, when the wild-type tapetal cells initiate a typical apoptosis-like cell death. Even though ptc1 mutants show phenotypic similarity to ms1 in a lack of tapetal DNA fragmentation, delayed tapetal degeneration, as well as abnormal pollen wall formation and aborted microspore development, the ptc1 mutant displays a previously unreported phenotype of uncontrolled tapetal proliferation and subsequent commencement of necrosis-like tapetal death. Microarray analysis indicated that 2,417 tapetum- and microspore-expressed genes, which are principally associated with tapetal development, degeneration, and pollen wall formation, had changed expression in ptc1 anthers. Moreover, the regulatory role of PTC1 in anther development was revealed by comparison with MS1 and other rice anther developmental regulators. These findings suggest a diversified and conserved switch of PTC1/MS1 in regulating programmed male reproductive development in both dicots and monocots, which provides new insights in plant anther development.

  8. Analysis of Training Load and Competition During the PhD Course of a 3000-m Steeplechase Female Master Athlete: An Autobiography

    PubMed Central

    Gabrielli, Elisa; Fulle, Stefania; Fanò-Illic, Giorgio

    2015-01-01

    The first author, Elisa Gabrielli, has been a distance runner for many years, and then at a particular point in her career, she decided to move over to the 3000-m steeplechase. She was attracted by this discipline as she believed that it would be the appropriate discipline for her, due to the challenge it provided her, and the necessary knowledge and awareness she had through her studies. For reasons that are discussed in this report, the 3000-m steeplechase is a race that is more difficult to interpret and manage biomechanically and physiologically than most others. Combining this with her PhD allowed her to use a multidisciplinary approach to review the competitive experience gained in this discipline. During this period, she indeed not only deepened the technical aspects of her training, but also those that underlie this discipline, through her knowledge of sport, with particular reference to the female athlete. Through her technical research, she was able to take ‘snapshots’ of what could happen from the physiological point of view. With satisfaction, she improved her performance in the 3000-m race and in the 3000-m steeplechase. How? In particular, she worked on her running technique through specific exercises. She worked on de-contraction and posture, while saving energy consumption. She worked on the control of her breathing, and she took into account her prevailing heart rate. This was all in combination with the consumption of specific nutrients, as she tried to manage the production of lactate with the training of the red muscle fibres that are rich in mitochondria. Finally, she tried to improve her perception of strenuous work, by training at high altitude. This allowed her not only to improve her physical performance, but especially to improve her mind-set, which allowed her to be more confident in herself and her abilities. PMID:26913156

  9. Important techniques in today's biomedical science research that PhD candidates should be exposed to: a perspective from the FASEB journal.

    PubMed

    John, Theresa Adebola

    2013-06-30

    The need for best evidence has driven researchers into multidisciplinary, collaborative approaches which have become mainstay in today's biomedical science. The multidisciplinary and collaborative approaches to research in research-intensive academic medical centres in the USA and in other countries of affluence has brought in significant advancement in knowledge as well as colossal progress and financial benefits. Therefore the author speculates that for Nigerian and other African PhD graduates in the basic medical sciences to become successful researchers, effective peer reviewers, reliable mentors, and progressive administrators in research-based academia, they need some exposure to multidisciplinary approaches to research during their subject-based training. The present report sought to substantiate this need. Thirty three published articles in the April 2012 FASEB Journal were studied for the methodologies employed and the results showed that the papers utilized an average of nine major biomedical science techniques, 9 being the mean, median, and mode showing the global status quo of diversity of methodology per scientific paper. The most popular procedures and techniques recorded in more than 1/3 of the published articles were: cell isolation; cell culture; in vivo or in situ whole animal studies; animal models of disease; gene/protein expression, sequencing and cloning; transfection, constructs, and genomic interference and silencing; western blotting; fluorescence and confocal microscopy; ELISAs and cell-based assays; and ready-made biotech assay kits. The most popular statistics testing were various forms of student's t-tests at 0.05 confidence levels and ANOVAs. The GraphPad Prism software was the most frequently used statistic software.

  10. Laura Jackson, Ph.D.

    EPA Pesticide Factsheets

    Research Biologist with the EPA. Her current work involves linking natural and built infrastructure to human health and well-being at multiple spatial scales, in order to develop interpretive maps and analytical tools for an interactive, web-based Atlas.

  11. John Iiames, Ph.D.

    EPA Pesticide Factsheets

    Research Biologist within the Landscape Characterization Branch at the U.S. EPA, Research Triangle Park, NC. He is the Principal Investigator for EPA MODIS LAI validation research examining the needle-leaf biome in the southeastern U.S.

  12. George Woodall, Ph.D.

    EPA Pesticide Factsheets

    Dr. George Woodall has over fifteen years of professional experience. This includes performing assessments of risk from exposure to air pollutants, assessing air quality, and managing research and technical projects.

  13. The Importance of MS PHD'S and SEEDS Mentoring and Professional Development Programs in the Retenion of Underrepresented Minorities in STEM Fields

    NASA Astrophysics Data System (ADS)

    Strickland, J.; Johnson, A.; Williamson Whitney, V.; Ricciardi, L.

    2012-12-01

    According to a recent study by the National Academy of Sciences, underrepresented minority (URM) participation in STEM disciplines represents approximately one third of the URM population in the U.S. Thus, the proportion of URM in STEM disciplines would need to triple in order to reflect the demographic makeup in the U.S. Individual programs targeting the recruitment and retention of URM students in STEM have demonstrated that principles of mentoring, community building, networking, and professional skill development are crucial in encouraging URM students to remain in STEM disciplines thereby reducing this disparity in representation. However, to paraphrase an old African proverb, "it takes a village to nurture and develop a URM student entering into the STEM community." Through programs such as the Institute for Broadening Participation's Minorities Striving and Pursuing Higher Degrees of Success (MS PHD'S) Professional Development Program in Earth system science and the Ecological Society of America's Strategies for Ecology Education, Diversity and Sustainability (SEEDS), URM students are successfully identifying and benefitting from meaningful opportunities to develop the professional skills and strategies needed to achieve their academic and career goals. Both programs share a philosophy of professional development, reciprocal mentoring, field trips, internships, employment, research partnerships, collaborations, fellowships, scholarships, grants, and professional meeting travel awards to support URM student retention in STEM. Both programs share a mission to bring more diversity and inclusivity into STEM fields. Both programs share a history of success at facilitating the preparation and advancement of URM students. This success has been documented with the multitude of URM students that have matriculated through the programs and are now actively engaged in the pursuit of advanced degrees in STEM or entering the STEM workforce. Anonymous surveys from

  14. Gerald L. Epstein, PhD: director, center for science, technology, and security policy, American Association for the Advancement of Science (AAAS). Interview by Madeline Drexler.

    PubMed

    Epstein, Gerald L

    2009-12-01

    Over his entire career, Gerald Epstein has toiled at the nexus of science, technology, and security. From 2003 to 2009, he was Senior Fellow for Science and Security at the Center for Strategic and International Studies Homeland Security Program, where he worked on reducing biological weapons threats, improving national preparedness, and easing potential tensions between the scientific research and national security communities. Epstein came to CSIS from the Institute for Defense Analyses. From 1996 to 2001, he served in the White House Office of Science and Technology Policy. And from 1983 to 1989, and again from 1991 until its demise in 1995, Epstein worked at the Congressional Office of Technology Assessment, where he directed a study on the proliferation of weapons of mass destruction, alongside research on other global security topics. A recognized expert in biological risk reduction, Epstein was actually trained as a physicist, having received SB degrees in physics and electrical engineering from MIT, and a PhD in physics from the University of California at Berkeley. How, then, did he come to study the evolving threat from bioterrorism? "What compelled me about bioterrorism was that it was a stellar example of a topic that would lead to a train wreck between the scientific community and the security community unless they figured out how to work together," he said. "The distance between a laboratory and a very large consequence event is a lot shorter in biology than in any other field. I got into bioterrorism to help make sure that the security community doesn't get so scared of the science that it shuts it down, and that the science community isn't so oblivious of security concerns that it pays no attention to them." Epstein spoke on November 6, 2009, with contributing writer Madeline Drexler, author of Emerging Epidemics: The Menace of New Infections (Penguin, 2009), an updated version of an earlier volume. Drexler holds a visiting appointment at the

  15. Isotopic studies of planetary and nuclear materials: A scientific tribute to Ian Douglass Hutcheon (1947-2015)

    NASA Astrophysics Data System (ADS)

    Huss, Gary R.

    2017-03-01

    This issue of Geochimica et Cosmochimica Acta is a scientific tribute to Dr. Ian D. Hutcheon (Fig. 1), who passed away on March 26th, 2015. Ian was a pioneer in the fields of isotope cosmochemistry and nuclear forensics, a friend and colleague to many of us, and an effective and dedicated mentor to young scientists. His scientific interests were wide-ranging and are reflected in the papers in this issue. Many of the authors worked closely with him over the years.

  16. The Porter Douglass Case: Examining the Impact of Power, Politics, and the Press on Academic Decision-Making

    ERIC Educational Resources Information Center

    Jaeger, Audrey J.; Grantham, Ashley; Lynch, Terry

    2014-01-01

    Mixing political appointments and university operations can prove challenging and, in this case, caused the resignation of three senior officials at State University. Bolman and Deal's four frames provide a structure for analyzing this complex case. The political frame and issues of power and coalitions offer a particularly useful lens to…

  17. The PHD Finger Protein MMD1/DUET Ensures the Progression of Male Meiotic Chromosome Condensation and Directly Regulates the Expression of the Condensin Gene CAP-D3[OPEN

    PubMed Central

    Wang, Jun; Niu, Baixiao; Huang, Jiyue; Wang, Hongkuan; Yang, Xiaohui; Dong, Aiwu

    2016-01-01

    Chromosome condensation, a process mediated by the condensin complex, is essential for proper chromosome segregation during cell division. Unlike rapid mitotic chromosome condensation, meiotic chromosome condensation occurs over a relatively long prophase I and is unusually complex due to the coordination with chromosome axis formation and homolog interaction. The molecular mechanisms that regulate meiotic chromosome condensation progression from prophase I to metaphase I are unclear. Here, we show that the Arabidopsis thaliana meiotic PHD-finger protein MMD1/DUET is required for progressive compaction of prophase I chromosomes to metaphase I bivalents. The MMD1 PHD domain is required for its function in chromosome condensation and binds to methylated histone tails. Transcriptome analysis and qRT-PCR showed that several condensin genes exhibit significantly reduced expression in mmd1 meiocytes. Furthermore, MMD1 specifically binds to the promoter region of the condensin subunit gene CAP-D3 to enhance its expression. Moreover, cap-d3 mutants exhibit similar chromosome condensation defects, revealing an MMD1-dependent mechanism for regulating meiotic chromosome condensation, which functions in part by promoting condensin gene expression. Together, these discoveries provide strong evidence that the histone reader MMD1/DUET defines an important step for regulating the progression of meiotic prophase I chromosome condensation. PMID:27385818

  18. Assessment of Chiropractic Treatment for Low Back Pain, Military Readiness and Smoking Cessation in Military Active Duty Personnel

    DTIC Science & Technology

    2016-03-01

    protocol changes. The amendments were routed through all 5 IRBs (RAND, Palmer, NHP, NMCSD, and WRNMMC) prior to site implementation. Samueli ...Chiropractic care on reaction and response times. CONTACT INFORMATION: Ian Coulter, PhD ACT Principal Investigator RAND Corp Samueli Chair in...Chiropractic Research Ph: (563)885-5150 Email: christine.goertz@palmer.edu Joan Walter, JD, PA ACT Co-Investigator Samueli Institute/VP, Military

  19. Arabidopsis AL PHD-PRC1 complexes promote seed germination through H3K4me3-to-H3K27me3 chromatin state switch in repression of seed developmental genes.

    PubMed

    Molitor, Anne Marie; Bu, Zhongyuan; Yu, Yu; Shen, Wen-Hui

    2014-01-01

    Seed germination and subsequent seedling growth define crucial steps for entry into the plant life cycle. For those events to take place properly, seed developmental genes need to be silenced whereas vegetative growth genes are activated. Chromatin structure is generally known to play crucial roles in gene transcription control. However, the transition between active and repressive chromatin states during seed germination is still poorly characterized and the underlying molecular mechanisms remain largely unknown. Here we identified the Arabidopsis PHD-domain H3K4me3-binding ALFIN1-like proteins (ALs) as novel interactors of the Polycomb Repressive Complex 1 (PRC1) core components AtBMI1b and AtRING1a. The interactions were confirmed by diverse in vitro and in vivo assays and were shown to require the AL6 N-terminus containing PAL domain conserved in the AL family proteins and the AtRING1a C-terminus containing RAWUL domain conserved in animal and plant PRC1 ring-finger proteins (including AtRNIG1a/b and AtBMI1a/b). By T-DNA insertion mutant analysis, we found that simultaneous loss of AL6 and AL7 as well as loss of AtBMI1a and AtBMI1b retards seed germination and causes transcriptional derepression and a delayed chromatin state switch from H3K4me3 to H3K27me3 enrichment of several seed developmental genes (e.g. ABI3, DOG1, CRU3, CHO1). We found that AL6 and the PRC1 H3K27me3-reader component LHP1 directly bind at ABI3 and DOG1 loci. In light of these data, we propose that AL PHD-PRC1 complexes, built around H3K4me3, lead to a switch from the H3K4me3-associated active to the H3K27me3-associated repressive transcription state of seed developmental genes during seed germination. Our finding of physical interactions between PHD-domain proteins and PRC1 is striking and has important implications for understanding the connection between the two functionally opposite chromatin marks: H3K4me3 in activation and H3K27me3 in repression of gene transcription.

  20. UHRF2 decreases H3K9ac expression by interacting with it through the PHD and SRA/YDG domain in HepG2 hepatocellular carcinoma cells

    PubMed Central

    Zhang, Ting; Zhao, Linglin; Zeng, Shengyuan; Bai, Lu; Chen, Junxia; Zhang, Zheng; Wang, Yalan; Duan, Changzhu

    2017-01-01

    Ubiquitin-like with PHD and ring finger domains 2 (UHRF2) is a multi-domain E3 ubiquitin ligase which is involved in epigenetic regulation and plays an essential role in tumorigenesis. However, the role of UHRF2 in histone H3 acetylation has not yet been fully elucidated and few studies have reported its role in hepatocellular carcinoma (HCC). In this study, we examined the correlation between UHRF2 and acetylated H3 in HCC. Immunohistochemistry and western blot analysis demonstrated that the levels of histone H3 lysine 9 acetylation (H3K9ac) and histone H3 lysine 14 acetylation (H3K14ac) were higher in the HCC tissues and HepG2 HCC cells compared with the adjacent non-tumor tissues and L02 normal cells. The level of UHRF2 was higher in the HCC tissues compared with the adjacent non-tumor tissues, but its expression did not exhibit a significant difference between the HepG2 HCC cells and the L02 normal cells. In addition, when comparing the HCC tissues, a higher expression of UHRF2 correlated with a lower expression of H3K9ac in the HCC tissues. The overexpression of UHRF2 increased the expression of H3K9ac in L02 normal cells (P<0.01), but decreased the expression of H3K9ac in HepG2 cancer cells (P<0.05). Moreover, immunofluorescence staining and co-immunoprecipitation assay indicated that UHRF2 co-localized and interacted with H3K9ac in L02 and HepG2 cells and the plant homeodomain (PHD) finger domain was the key domain for UHRF2 directly binding to H3K9ac. Taken together, these results suggest that UHRF2 decreases the expression of H3K9ac in HepG2 HCC cells and interacts with it through the PHD domain. PMID:28004105