CUDASW++ 3.0: accelerating Smith-Waterman protein database search by coupling CPU and GPU SIMD instructions.

PubMed

Liu, Yongchao; Wirawan, Adrianto; Schmidt, Bertil

2013-04-04

The maximal sensitivity for local alignments makes the Smith-Waterman algorithm a popular choice for protein sequence database search based on pairwise alignment. However, the algorithm is compute-intensive due to a quadratic time complexity. Corresponding runtimes are further compounded by the rapid growth of sequence databases. We present CUDASW++ 3.0, a fast Smith-Waterman protein database search algorithm, which couples CPU and GPU SIMD instructions and carries out concurrent CPU and GPU computations. For the CPU computation, this algorithm employs SSE-based vector execution units as accelerators. For the GPU computation, we have investigated for the first time a GPU SIMD parallelization, which employs CUDA PTX SIMD video instructions to gain more data parallelism beyond the SIMT execution model. Moreover, sequence alignment workloads are automatically distributed over CPUs and GPUs based on their respective compute capabilities. Evaluation on the Swiss-Prot database shows that CUDASW++ 3.0 gains a performance improvement over CUDASW++ 2.0 up to 2.9 and 3.2, with a maximum performance of 119.0 and 185.6 GCUPS, on a single-GPU GeForce GTX 680 and a dual-GPU GeForce GTX 690 graphics card, respectively. In addition, our algorithm has demonstrated significant speedups over other top-performing tools: SWIPE and BLAST+. CUDASW++ 3.0 is written in CUDA C++ and PTX assembly languages, targeting GPUs based on the Kepler architecture. This algorithm obtains significant speedups over its predecessor: CUDASW++ 2.0, by benefiting from the use of CPU and GPU SIMD instructions as well as the concurrent execution on CPUs and GPUs. The source code and the simulated data are available at http://cudasw.sourceforge.net.

CBESW: sequence alignment on the Playstation 3.

PubMed

Wirawan, Adrianto; Kwoh, Chee Keong; Hieu, Nim Tri; Schmidt, Bertil

2008-09-17

The exponential growth of available biological data has caused bioinformatics to be rapidly moving towards a data-intensive, computational science. As a result, the computational power needed by bioinformatics applications is growing exponentially as well. The recent emergence of accelerator technologies has made it possible to achieve an excellent improvement in execution time for many bioinformatics applications, compared to current general-purpose platforms. In this paper, we demonstrate how the PlayStation 3, powered by the Cell Broadband Engine, can be used as a computational platform to accelerate the Smith-Waterman algorithm. For large datasets, our implementation on the PlayStation 3 provides a significant improvement in running time compared to other implementations such as SSEARCH, Striped Smith-Waterman and CUDA. Our implementation achieves a peak performance of up to 3,646 MCUPS. The results from our experiments demonstrate that the PlayStation 3 console can be used as an efficient low cost computational platform for high performance sequence alignment applications.

CBESW: Sequence Alignment on the Playstation 3

PubMed Central

Wirawan, Adrianto; Kwoh, Chee Keong; Hieu, Nim Tri; Schmidt, Bertil

2008-01-01

Background The exponential growth of available biological data has caused bioinformatics to be rapidly moving towards a data-intensive, computational science. As a result, the computational power needed by bioinformatics applications is growing exponentially as well. The recent emergence of accelerator technologies has made it possible to achieve an excellent improvement in execution time for many bioinformatics applications, compared to current general-purpose platforms. In this paper, we demonstrate how the PlayStation® 3, powered by the Cell Broadband Engine, can be used as a computational platform to accelerate the Smith-Waterman algorithm. Results For large datasets, our implementation on the PlayStation® 3 provides a significant improvement in running time compared to other implementations such as SSEARCH, Striped Smith-Waterman and CUDA. Our implementation achieves a peak performance of up to 3,646 MCUPS. Conclusion The results from our experiments demonstrate that the PlayStation® 3 console can be used as an efficient low cost computational platform for high performance sequence alignment applications. PMID:18798993

Accelerating Smith-Waterman Alignment for Protein Database Search Using Frequency Distance Filtration Scheme Based on CPU-GPU Collaborative System.

PubMed

Liu, Yu; Hong, Yang; Lin, Chun-Yuan; Hung, Che-Lun

2015-01-01

The Smith-Waterman (SW) algorithm has been widely utilized for searching biological sequence databases in bioinformatics. Recently, several works have adopted the graphic card with Graphic Processing Units (GPUs) and their associated CUDA model to enhance the performance of SW computations. However, these works mainly focused on the protein database search by using the intertask parallelization technique, and only using the GPU capability to do the SW computations one by one. Hence, in this paper, we will propose an efficient SW alignment method, called CUDA-SWfr, for the protein database search by using the intratask parallelization technique based on a CPU-GPU collaborative system. Before doing the SW computations on GPU, a procedure is applied on CPU by using the frequency distance filtration scheme (FDFS) to eliminate the unnecessary alignments. The experimental results indicate that CUDA-SWfr runs 9.6 times and 96 times faster than the CPU-based SW method without and with FDFS, respectively.

Homology search with binary and trinary scoring matrices.

PubMed

Smith, Scott F

2006-01-01

Protein homology search can be accelerated with the use of bit-parallel algorithms in conjunction with constraints on the values contained in the scoring matrices. Trinary scoring matrices (containing only the values -1, 0, and 1) allow for significant acceleration without significant reduction in the receiver operating characteristic (ROC) score of a Smith-Waterman search. Binary scoring matrices (containing the values 0 and 1) result in some reduction in ROC score, but result in even more acceleration. Binary scoring matrices and five-bit saturating scores can be used for fast prefilters to the Smith-Waterman algorithm.

Influence of intron length on interaction characters between post-spliced intron and its CDS in ribosomal protein genes

NASA Astrophysics Data System (ADS)

Zhao, Xiaoqing; Li, Hong; Bao, Tonglaga; Ying, Zhiqiang

2012-09-01

Many experiment evidences showed that sequence structures of introns and intron loss/gain can influence gene expression, but current mechanisms did not refer to the functions of post-spliced introns directly. We propose that postspliced introns play their functions in gene expression by interacting with their mRNA sequences and the interaction is characterized by the matched segments between introns and their CDS. In this study, we investigated the interaction characters with length series by improved Smith-Waterman local alignment software for the ribosomal protein genes in C. elegans and D. melanogaster. Our results showed that RF values of five intron groups are significantly high in the central non-conserved region and very low in 5'-end and 3'-end splicing region. It is interesting that the number of the optimal matched regions gradually increases with intron length. Distributions of the optimal matched regions are different for five intron groups. Our study revealed that there are more interaction regions between longer introns and their CDS than shorter, and it provides a positive pattern for regulating the gene expression.

P-Hint-Hunt: a deep parallelized whole genome DNA methylation detection tool.

PubMed

Peng, Shaoliang; Yang, Shunyun; Gao, Ming; Liao, Xiangke; Liu, Jie; Yang, Canqun; Wu, Chengkun; Yu, Wenqiang

2017-03-14

The increasing studies have been conducted using whole genome DNA methylation detection as one of the most important part of epigenetics research to find the significant relationships among DNA methylation and several typical diseases, such as cancers and diabetes. In many of those studies, mapping the bisulfite treated sequence to the whole genome has been the main method to study DNA cytosine methylation. However, today's relative tools almost suffer from inaccuracies and time-consuming problems. In our study, we designed a new DNA methylation prediction tool ("Hint-Hunt") to solve the problem. By having an optimal complex alignment computation and Smith-Waterman matrix dynamic programming, Hint-Hunt could analyze and predict the DNA methylation status. But when Hint-Hunt tried to predict DNA methylation status with large-scale dataset, there are still slow speed and low temporal-spatial efficiency problems. In order to solve the problems of Smith-Waterman dynamic programming and low temporal-spatial efficiency, we further design a deep parallelized whole genome DNA methylation detection tool ("P-Hint-Hunt") on Tianhe-2 (TH-2) supercomputer. To the best of our knowledge, P-Hint-Hunt is the first parallel DNA methylation detection tool with a high speed-up to process large-scale dataset, and could run both on CPU and Intel Xeon Phi coprocessors. Moreover, we deploy and evaluate Hint-Hunt and P-Hint-Hunt on TH-2 supercomputer in different scales. The experimental results illuminate our tools eliminate the deviation caused by bisulfite treatment in mapping procedure and the multi-level parallel program yields a 48 times speed-up with 64 threads. P-Hint-Hunt gain a deep acceleration on CPU and Intel Xeon Phi heterogeneous platform, which gives full play of the advantages of multi-cores (CPU) and many-cores (Phi).

Embedding strategies for effective use of information from multiple sequence alignments.

PubMed Central

Henikoff, S.; Henikoff, J. G.

1997-01-01

We describe a new strategy for utilizing multiple sequence alignment information to detect distant relationships in searches of sequence databases. A single sequence representing a protein family is enriched by replacing conserved regions with position-specific scoring matrices (PSSMs) or consensus residues derived from multiple alignments of family members. In comprehensive tests of these and other family representations, PSSM-embedded queries produced the best results overall when used with a special version of the Smith-Waterman searching algorithm. Moreover, embedding consensus residues instead of PSSMs improved performance with readily available single sequence query searching programs, such as BLAST and FASTA. Embedding PSSMs or consensus residues into a representative sequence improves searching performance by extracting multiple alignment information from motif regions while retaining single sequence information where alignment is uncertain. PMID:9070452

Accelerating Smith-Waterman Algorithm for Biological Database Search on CUDA-Compatible GPUs

NASA Astrophysics Data System (ADS)

Munekawa, Yuma; Ino, Fumihiko; Hagihara, Kenichi

This paper presents a fast method capable of accelerating the Smith-Waterman algorithm for biological database search on a cluster of graphics processing units (GPUs). Our method is implemented using compute unified device architecture (CUDA), which is available on the nVIDIA GPU. As compared with previous methods, our method has four major contributions. (1) The method efficiently uses on-chip shared memory to reduce the data amount being transferred between off-chip video memory and processing elements in the GPU. (2) It also reduces the number of data fetches by applying a data reuse technique to query and database sequences. (3) A pipelined method is also implemented to overlap GPU execution with database access. (4) Finally, a master/worker paradigm is employed to accelerate hundreds of database searches on a cluster system. In experiments, the peak performance on a GeForce GTX 280 card reaches 8.32 giga cell updates per second (GCUPS). We also find that our method reduces the amount of data fetches to 1/140, achieving approximately three times higher performance than a previous CUDA-based method. Our 32-node cluster version is approximately 28 times faster than a single GPU version. Furthermore, the effective performance reaches 75.6 giga instructions per second (GIPS) using 32 GeForce 8800 GTX cards.

Parallel algorithms for large-scale biological sequence alignment on Xeon-Phi based clusters.

PubMed

Lan, Haidong; Chan, Yuandong; Xu, Kai; Schmidt, Bertil; Peng, Shaoliang; Liu, Weiguo

2016-07-19

Computing alignments between two or more sequences are common operations frequently performed in computational molecular biology. The continuing growth of biological sequence databases establishes the need for their efficient parallel implementation on modern accelerators. This paper presents new approaches to high performance biological sequence database scanning with the Smith-Waterman algorithm and the first stage of progressive multiple sequence alignment based on the ClustalW heuristic on a Xeon Phi-based compute cluster. Our approach uses a three-level parallelization scheme to take full advantage of the compute power available on this type of architecture; i.e. cluster-level data parallelism, thread-level coarse-grained parallelism, and vector-level fine-grained parallelism. Furthermore, we re-organize the sequence datasets and use Xeon Phi shuffle operations to improve I/O efficiency. Evaluations show that our method achieves a peak overall performance up to 220 GCUPS for scanning real protein sequence databanks on a single node consisting of two Intel E5-2620 CPUs and two Intel Xeon Phi 7110P cards. It also exhibits good scalability in terms of sequence length and size, and number of compute nodes for both database scanning and multiple sequence alignment. Furthermore, the achieved performance is highly competitive in comparison to optimized Xeon Phi and GPU implementations. Our implementation is available at https://github.com/turbo0628/LSDBS-mpi .

A Novel Partial Sequence Alignment Tool for Finding Large Deletions

PubMed Central

Aruk, Taner; Ustek, Duran; Kursun, Olcay

2012-01-01

Finding large deletions in genome sequences has become increasingly more useful in bioinformatics, such as in clinical research and diagnosis. Although there are a number of publically available next generation sequencing mapping and sequence alignment programs, these software packages do not correctly align fragments containing deletions larger than one kb. We present a fast alignment software package, BinaryPartialAlign, that can be used by wet lab scientists to find long structural variations in their experiments. For BinaryPartialAlign, we make use of the Smith-Waterman (SW) algorithm with a binary-search-based approach for alignment with large gaps that we called partial alignment. BinaryPartialAlign implementation is compared with other straight-forward applications of SW. Simulation results on mtDNA fragments demonstrate the effectiveness (runtime and accuracy) of the proposed method. PMID:22566777

Parasail: SIMD C library for global, semi-global, and local pairwise sequence alignments.

PubMed

Daily, Jeff

2016-02-10

Sequence alignment algorithms are a key component of many bioinformatics applications. Though various fast Smith-Waterman local sequence alignment implementations have been developed for x86 CPUs, most are embedded into larger database search tools. In addition, fast implementations of Needleman-Wunsch global sequence alignment and its semi-global variants are not as widespread. This article presents the first software library for local, global, and semi-global pairwise intra-sequence alignments and improves the performance of previous intra-sequence implementations. A faster intra-sequence local pairwise alignment implementation is described and benchmarked, including new global and semi-global variants. Using a 375 residue query sequence a speed of 136 billion cell updates per second (GCUPS) was achieved on a dual Intel Xeon E5-2670 24-core processor system, the highest reported for an implementation based on Farrar's 'striped' approach. Rognes's SWIPE optimal database search application is still generally the fastest available at 1.2 to at best 2.4 times faster than Parasail for sequences shorter than 500 amino acids. However, Parasail was faster for longer sequences. For global alignments, Parasail's prefix scan implementation is generally the fastest, faster even than Farrar's 'striped' approach, however the opal library is faster for single-threaded applications. The software library is designed for 64 bit Linux, OS X, or Windows on processors with SSE2, SSE41, or AVX2. Source code is available from https://github.com/jeffdaily/parasail under the Battelle BSD-style license. Applications that require optimal alignment scores could benefit from the improved performance. For the first time, SIMD global, semi-global, and local alignments are available in a stand-alone C library.

Parasail: SIMD C library for global, semi-global, and local pairwise sequence alignments

DOE Office of Scientific and Technical Information (OSTI.GOV)

Daily, Jeffrey A.

Sequence alignment algorithms are a key component of many bioinformatics applications. Though various fast Smith-Waterman local sequence alignment implementations have been developed for x86 CPUs, most are embedded into larger database search tools. In addition, fast implementations of Needleman-Wunsch global sequence alignment and its semi-global variants are not as widespread. This article presents the first software library for local, global, and semi-global pairwise intra-sequence alignments and improves the performance of previous intra-sequence implementations. As a result, a faster intra-sequence pairwise alignment implementation is described and benchmarked. Using a 375 residue query sequence a speed of 136 billion cell updates permore » second (GCUPS) was achieved on a dual Intel Xeon E5-2670 12-core processor system, the highest reported for an implementation based on Farrar’s ’striped’ approach. When using only a single thread, parasail was 1.7 times faster than Rognes’s SWIPE. For many score matrices, parasail is faster than BLAST. The software library is designed for 64 bit Linux, OS X, or Windows on processors with SSE2, SSE41, or AVX2. Source code is available from https://github.com/jeffdaily/parasail under the Battelle BSD-style license. In conclusion, applications that require optimal alignment scores could benefit from the improved performance. For the first time, SIMD global, semi-global, and local alignments are available in a stand-alone C library.« less

Parasail: SIMD C library for global, semi-global, and local pairwise sequence alignments

DOE PAGES

Daily, Jeffrey A.

2016-02-10

Sequence alignment algorithms are a key component of many bioinformatics applications. Though various fast Smith-Waterman local sequence alignment implementations have been developed for x86 CPUs, most are embedded into larger database search tools. In addition, fast implementations of Needleman-Wunsch global sequence alignment and its semi-global variants are not as widespread. This article presents the first software library for local, global, and semi-global pairwise intra-sequence alignments and improves the performance of previous intra-sequence implementations. As a result, a faster intra-sequence pairwise alignment implementation is described and benchmarked. Using a 375 residue query sequence a speed of 136 billion cell updates permore » second (GCUPS) was achieved on a dual Intel Xeon E5-2670 12-core processor system, the highest reported for an implementation based on Farrar’s ’striped’ approach. When using only a single thread, parasail was 1.7 times faster than Rognes’s SWIPE. For many score matrices, parasail is faster than BLAST. The software library is designed for 64 bit Linux, OS X, or Windows on processors with SSE2, SSE41, or AVX2. Source code is available from https://github.com/jeffdaily/parasail under the Battelle BSD-style license. In conclusion, applications that require optimal alignment scores could benefit from the improved performance. For the first time, SIMD global, semi-global, and local alignments are available in a stand-alone C library.« less

Cover song identification by sequence alignment algorithms

NASA Astrophysics Data System (ADS)

Wang, Chih-Li; Zhong, Qian; Wang, Szu-Ying; Roychowdhury, Vwani

2011-10-01

Content-based music analysis has drawn much attention due to the rapidly growing digital music market. This paper describes a method that can be used to effectively identify cover songs. A cover song is a song that preserves only the crucial melody of its reference song but different in some other acoustic properties. Hence, the beat/chroma-synchronous chromagram, which is insensitive to the variation of the timber or rhythm of songs but sensitive to the melody, is chosen. The key transposition is achieved by cyclically shifting the chromatic domain of the chromagram. By using the Hidden Markov Model (HMM) to obtain the time sequences of songs, the system is made even more robust. Similar structure or length between the cover songs and its reference are not necessary by the Smith-Waterman Alignment Algorithm.

MOSAIK: a hash-based algorithm for accurate next-generation sequencing short-read mapping.

PubMed

Lee, Wan-Ping; Stromberg, Michael P; Ward, Alistair; Stewart, Chip; Garrison, Erik P; Marth, Gabor T

2014-01-01

MOSAIK is a stable, sensitive and open-source program for mapping second and third-generation sequencing reads to a reference genome. Uniquely among current mapping tools, MOSAIK can align reads generated by all the major sequencing technologies, including Illumina, Applied Biosystems SOLiD, Roche 454, Ion Torrent and Pacific BioSciences SMRT. Indeed, MOSAIK was the only aligner to provide consistent mappings for all the generated data (sequencing technologies, low-coverage and exome) in the 1000 Genomes Project. To provide highly accurate alignments, MOSAIK employs a hash clustering strategy coupled with the Smith-Waterman algorithm. This method is well-suited to capture mismatches as well as short insertions and deletions. To support the growing interest in larger structural variant (SV) discovery, MOSAIK provides explicit support for handling known-sequence SVs, e.g. mobile element insertions (MEIs) as well as generating outputs tailored to aid in SV discovery. All variant discovery benefits from an accurate description of the read placement confidence. To this end, MOSAIK uses a neural-network based training scheme to provide well-calibrated mapping quality scores, demonstrated by a correlation coefficient between MOSAIK assigned and actual mapping qualities greater than 0.98. In order to ensure that studies of any genome are supported, a training pipeline is provided to ensure optimal mapping quality scores for the genome under investigation. MOSAIK is multi-threaded, open source, and incorporated into our command and pipeline launcher system GKNO (http://gkno.me).

MOSAIK: A Hash-Based Algorithm for Accurate Next-Generation Sequencing Short-Read Mapping

PubMed Central

Lee, Wan-Ping; Stromberg, Michael P.; Ward, Alistair; Stewart, Chip; Garrison, Erik P.; Marth, Gabor T.

2014-01-01

MOSAIK is a stable, sensitive and open-source program for mapping second and third-generation sequencing reads to a reference genome. Uniquely among current mapping tools, MOSAIK can align reads generated by all the major sequencing technologies, including Illumina, Applied Biosystems SOLiD, Roche 454, Ion Torrent and Pacific BioSciences SMRT. Indeed, MOSAIK was the only aligner to provide consistent mappings for all the generated data (sequencing technologies, low-coverage and exome) in the 1000 Genomes Project. To provide highly accurate alignments, MOSAIK employs a hash clustering strategy coupled with the Smith-Waterman algorithm. This method is well-suited to capture mismatches as well as short insertions and deletions. To support the growing interest in larger structural variant (SV) discovery, MOSAIK provides explicit support for handling known-sequence SVs, e.g. mobile element insertions (MEIs) as well as generating outputs tailored to aid in SV discovery. All variant discovery benefits from an accurate description of the read placement confidence. To this end, MOSAIK uses a neural-network based training scheme to provide well-calibrated mapping quality scores, demonstrated by a correlation coefficient between MOSAIK assigned and actual mapping qualities greater than 0.98. In order to ensure that studies of any genome are supported, a training pipeline is provided to ensure optimal mapping quality scores for the genome under investigation. MOSAIK is multi-threaded, open source, and incorporated into our command and pipeline launcher system GKNO (http://gkno.me). PMID:24599324

Pairwise Sequence Alignment Library

DOE Office of Scientific and Technical Information (OSTI.GOV)

Jeff Daily, PNNL

2015-05-20

Vector extensions, such as SSE, have been part of the x86 CPU since the 1990s, with applications in graphics, signal processing, and scientific applications. Although many algorithms and applications can naturally benefit from automatic vectorization techniques, there are still many that are difficult to vectorize due to their dependence on irregular data structures, dense branch operations, or data dependencies. Sequence alignment, one of the most widely used operations in bioinformatics workflows, has a computational footprint that features complex data dependencies. The trend of widening vector registers adversely affects the state-of-the-art sequence alignment algorithm based on striped data layouts. Therefore, amore » novel SIMD implementation of a parallel scan-based sequence alignment algorithm that can better exploit wider SIMD units was implemented as part of the Parallel Sequence Alignment Library (parasail). Parasail features: Reference implementations of all known vectorized sequence alignment approaches. Implementations of Smith Waterman (SW), semi-global (SG), and Needleman Wunsch (NW) sequence alignment algorithms. Implementations across all modern CPU instruction sets including AVX2 and KNC. Language interfaces for C/C++ and Python.« less

Accelerated Profile HMM Searches

PubMed Central

Eddy, Sean R.

2011-01-01

Profile hidden Markov models (profile HMMs) and probabilistic inference methods have made important contributions to the theory of sequence database homology search. However, practical use of profile HMM methods has been hindered by the computational expense of existing software implementations. Here I describe an acceleration heuristic for profile HMMs, the “multiple segment Viterbi” (MSV) algorithm. The MSV algorithm computes an optimal sum of multiple ungapped local alignment segments using a striped vector-parallel approach previously described for fast Smith/Waterman alignment. MSV scores follow the same statistical distribution as gapped optimal local alignment scores, allowing rapid evaluation of significance of an MSV score and thus facilitating its use as a heuristic filter. I also describe a 20-fold acceleration of the standard profile HMM Forward/Backward algorithms using a method I call “sparse rescaling”. These methods are assembled in a pipeline in which high-scoring MSV hits are passed on for reanalysis with the full HMM Forward/Backward algorithm. This accelerated pipeline is implemented in the freely available HMMER3 software package. Performance benchmarks show that the use of the heuristic MSV filter sacrifices negligible sensitivity compared to unaccelerated profile HMM searches. HMMER3 is substantially more sensitive and 100- to 1000-fold faster than HMMER2. HMMER3 is now about as fast as BLAST for protein searches. PMID:22039361

Introducing difference recurrence relations for faster semi-global alignment of long sequences.

PubMed

Suzuki, Hajime; Kasahara, Masahiro

2018-02-19

The read length of single-molecule DNA sequencers is reaching 1 Mb. Popular alignment software tools widely used for analyzing such long reads often take advantage of single-instruction multiple-data (SIMD) operations to accelerate calculation of dynamic programming (DP) matrices in the Smith-Waterman-Gotoh (SWG) algorithm with a fixed alignment start position at the origin. Nonetheless, 16-bit or 32-bit integers are necessary for storing the values in a DP matrix when sequences to be aligned are long; this situation hampers the use of the full SIMD width of modern processors. We proposed a faster semi-global alignment algorithm, "difference recurrence relations," that runs more rapidly than the state-of-the-art algorithm by a factor of 2.1. Instead of calculating and storing all the values in a DP matrix directly, our algorithm computes and stores mainly the differences between the values of adjacent cells in the matrix. Although the SWG algorithm and our algorithm can output exactly the same result, our algorithm mainly involves 8-bit integer operations, enabling us to exploit the full width of SIMD operations (e.g., 32) on modern processors. We also developed a library, libgaba, so that developers can easily integrate our algorithm into alignment programs. Our novel algorithm and optimized library implementation will facilitate accelerating nucleotide long-read analysis algorithms that use pairwise alignment stages. The library is implemented in the C programming language and available at https://github.com/ocxtal/libgaba .

PanGEA: identification of allele specific gene expression using the 454 technology.

PubMed

Kofler, Robert; Teixeira Torres, Tatiana; Lelley, Tamas; Schlötterer, Christian

2009-05-14

Next generation sequencing technologies hold great potential for many biological questions. While mainly used for genomic sequencing, they are also very promising for gene expression profiling. Sequencing of cDNA does not only provide an estimate of the absolute expression level, it can also be used for the identification of allele specific gene expression. We developed PanGEA, a tool which enables a fast and user-friendly analysis of allele specific gene expression using the 454 technology. PanGEA allows mapping of 454-ESTs to genes or whole genomes, displaying gene expression profiles, identification of SNPs and the quantification of allele specific gene expression. The intuitive GUI of PanGEA facilitates a flexible and interactive analysis of the data. PanGEA additionally implements a modification of the Smith-Waterman algorithm which deals with incorrect estimates of homopolymer length as occuring in the 454 technology To our knowledge, PanGEA is the first tool which facilitates the identification of allele specific gene expression. PanGEA is distributed under the Mozilla Public License and available at: http://www.kofler.or.at/bioinformatics/PanGEA

PanGEA: Identification of allele specific gene expression using the 454 technology

PubMed Central

Kofler, Robert; Teixeira Torres, Tatiana; Lelley, Tamas; Schlötterer, Christian

2009-01-01

Background Next generation sequencing technologies hold great potential for many biological questions. While mainly used for genomic sequencing, they are also very promising for gene expression profiling. Sequencing of cDNA does not only provide an estimate of the absolute expression level, it can also be used for the identification of allele specific gene expression. Results We developed PanGEA, a tool which enables a fast and user-friendly analysis of allele specific gene expression using the 454 technology. PanGEA allows mapping of 454-ESTs to genes or whole genomes, displaying gene expression profiles, identification of SNPs and the quantification of allele specific gene expression. The intuitive GUI of PanGEA facilitates a flexible and interactive analysis of the data. PanGEA additionally implements a modification of the Smith-Waterman algorithm which deals with incorrect estimates of homopolymer length as occuring in the 454 technology Conclusion To our knowledge, PanGEA is the first tool which facilitates the identification of allele specific gene expression. PanGEA is distributed under the Mozilla Public License and available at: PMID:19442283

Variations on a theme of Lander and Waterman

DOE Office of Scientific and Technical Information (OSTI.GOV)

Speed, T.

1997-12-01

The original Lander and Waterman mathematical analysis was for fingerprinting random clones. Since that time, a number of variants of their theory have appeared, including ones which apply to mapping by anchoring random clones, and to non-random or directed clone mapping. The same theory is now widely used to devise random sequencing strategies. In this talk I will review these developments, and go on the discuss the theory required for directed sequencing strategies.

ProteinWorldDB: querying radical pairwise alignments among protein sets from complete genomes.

PubMed

Otto, Thomas Dan; Catanho, Marcos; Tristão, Cristian; Bezerra, Márcia; Fernandes, Renan Mathias; Elias, Guilherme Steinberger; Scaglia, Alexandre Capeletto; Bovermann, Bill; Berstis, Viktors; Lifschitz, Sergio; de Miranda, Antonio Basílio; Degrave, Wim

2010-03-01

Many analyses in modern biological research are based on comparisons between biological sequences, resulting in functional, evolutionary and structural inferences. When large numbers of sequences are compared, heuristics are often used resulting in a certain lack of accuracy. In order to improve and validate results of such comparisons, we have performed radical all-against-all comparisons of 4 million protein sequences belonging to the RefSeq database, using an implementation of the Smith-Waterman algorithm. This extremely intensive computational approach was made possible with the help of World Community Grid, through the Genome Comparison Project. The resulting database, ProteinWorldDB, which contains coordinates of pairwise protein alignments and their respective scores, is now made available. Users can download, compare and analyze the results, filtered by genomes, protein functions or clusters. ProteinWorldDB is integrated with annotations derived from Swiss-Prot, Pfam, KEGG, NCBI Taxonomy database and gene ontology. The database is a unique and valuable asset, representing a major effort to create a reliable and consistent dataset of cross-comparisons of the whole protein content encoded in hundreds of completely sequenced genomes using a rigorous dynamic programming approach. The database can be accessed through http://proteinworlddb.org

Sequence information signal processor for local and global string comparisons

DOEpatents

Peterson, John C.; Chow, Edward T.; Waterman, Michael S.; Hunkapillar, Timothy J.

1997-01-01

A sequence information signal processing integrated circuit chip designed to perform high speed calculation of a dynamic programming algorithm based upon the algorithm defined by Waterman and Smith. The signal processing chip of the present invention is designed to be a building block of a linear systolic array, the performance of which can be increased by connecting additional sequence information signal processing chips to the array. The chip provides a high speed, low cost linear array processor that can locate highly similar global sequences or segments thereof such as contiguous subsequences from two different DNA or protein sequences. The chip is implemented in a preferred embodiment using CMOS VLSI technology to provide the equivalent of about 400,000 transistors or 100,000 gates. Each chip provides 16 processing elements, and is designed to provide 16 bit, two's compliment operation for maximum score precision of between -32,768 and +32,767. It is designed to provide a comparison between sequences as long as 4,194,304 elements without external software and between sequences of unlimited numbers of elements with the aid of external software. Each sequence can be assigned different deletion and insertion weight functions. Each processor is provided with a similarity measure device which is independently variable. Thus, each processor can contribute to maximum value score calculation using a different similarity measure.

Whale song analyses using bioinformatics sequence analysis approaches

NASA Astrophysics Data System (ADS)

Chen, Yian A.; Almeida, Jonas S.; Chou, Lien-Siang

2005-04-01

Animal songs are frequently analyzed using discrete hierarchical units, such as units, themes and songs. Because animal songs and bio-sequences may be understood as analogous, bioinformatics analysis tools DNA/protein sequence alignment and alignment-free methods are proposed to quantify the theme similarities of the songs of false killer whales recorded off northeast Taiwan. The eighteen themes with discrete units that were identified in an earlier study [Y. A. Chen, masters thesis, University of Charleston, 2001] were compared quantitatively using several distance metrics. These metrics included the scores calculated using the Smith-Waterman algorithm with the repeated procedure; the standardized Euclidian distance and the angle metrics based on word frequencies. The theme classifications based on different metrics were summarized and compared in dendrograms using cluster analyses. The results agree with earlier classifications derived by human observation qualitatively. These methods further quantify the similarities among themes. These methods could be applied to the analyses of other animal songs on a larger scale. For instance, these techniques could be used to investigate song evolution and cultural transmission quantifying the dissimilarities of humpback whale songs across different seasons, years, populations, and geographic regions. [Work supported by SC Sea Grant, and Ilan County Government, Taiwan.

pyPaSWAS: Python-based multi-core CPU and GPU sequence alignment.

PubMed

Warris, Sven; Timal, N Roshan N; Kempenaar, Marcel; Poortinga, Arne M; van de Geest, Henri; Varbanescu, Ana L; Nap, Jan-Peter

2018-01-01

Our previously published CUDA-only application PaSWAS for Smith-Waterman (SW) sequence alignment of any type of sequence on NVIDIA-based GPUs is platform-specific and therefore adopted less than could be. The OpenCL language is supported more widely and allows use on a variety of hardware platforms. Moreover, there is a need to promote the adoption of parallel computing in bioinformatics by making its use and extension more simple through more and better application of high-level languages commonly used in bioinformatics, such as Python. The novel application pyPaSWAS presents the parallel SW sequence alignment code fully packed in Python. It is a generic SW implementation running on several hardware platforms with multi-core systems and/or GPUs that provides accurate sequence alignments that also can be inspected for alignment details. Additionally, pyPaSWAS support the affine gap penalty. Python libraries are used for automated system configuration, I/O and logging. This way, the Python environment will stimulate further extension and use of pyPaSWAS. pyPaSWAS presents an easy Python-based environment for accurate and retrievable parallel SW sequence alignments on GPUs and multi-core systems. The strategy of integrating Python with high-performance parallel compute languages to create a developer- and user-friendly environment should be considered for other computationally intensive bioinformatics algorithms.

Concurrent and Accurate Short Read Mapping on Multicore Processors.

PubMed

Martínez, Héctor; Tárraga, Joaquín; Medina, Ignacio; Barrachina, Sergio; Castillo, Maribel; Dopazo, Joaquín; Quintana-Ortí, Enrique S

2015-01-01

We introduce a parallel aligner with a work-flow organization for fast and accurate mapping of RNA sequences on servers equipped with multicore processors. Our software, HPG Aligner SA (HPG Aligner SA is an open-source application. The software is available at http://www.opencb.org, exploits a suffix array to rapidly map a large fraction of the RNA fragments (reads), as well as leverages the accuracy of the Smith-Waterman algorithm to deal with conflictive reads. The aligner is enhanced with a careful strategy to detect splice junctions based on an adaptive division of RNA reads into small segments (or seeds), which are then mapped onto a number of candidate alignment locations, providing crucial information for the successful alignment of the complete reads. The experimental results on a platform with Intel multicore technology report the parallel performance of HPG Aligner SA, on RNA reads of 100-400 nucleotides, which excels in execution time/sensitivity to state-of-the-art aligners such as TopHat 2+Bowtie 2, MapSplice, and STAR.

[siRNAs with high specificity to the target: a systematic design by CRM algorithm].

PubMed

Alsheddi, T; Vasin, L; Meduri, R; Randhawa, M; Glazko, G; Baranova, A

2008-01-01

'Off-target' silencing effect hinders the development of siRNA-based therapeutic and research applications. Common solution to this problem is an employment of the BLAST that may miss significant alignments or an exhaustive Smith-Waterman algorithm that is very time-consuming. We have developed a Comprehensive Redundancy Minimizer (CRM) approach for mapping all unique sequences ("targets") 9-to-15 nt in size within large sets of sequences (e.g. transcriptomes). CRM outputs a list of potential siRNA candidates for every transcript of the particular species. These candidates could be further analyzed by traditional "set-of-rules" types of siRNA designing tools. For human, 91% of transcripts are covered by candidate siRNAs with kernel targets of N = 15. We tested our approach on the collection of previously described experimentally assessed siRNAs and found that the correlation between efficacy and presence in CRM-approved set is significant (r = 0.215, p-value = 0.0001). An interactive database that contains a precompiled set of all human siRNA candidates with minimized redundancy is available at http://129.174.194.243. Application of the CRM-based filtering minimizes potential "off-target" silencing effects and could improve routine siRNA applications.

PsRobot: a web-based plant small RNA meta-analysis toolbox.

PubMed

Wu, Hua-Jun; Ma, Ying-Ke; Chen, Tong; Wang, Meng; Wang, Xiu-Jie

2012-07-01

Small RNAs (smRNAs) in plants, mainly microRNAs and small interfering RNAs, play important roles in both transcriptional and post-transcriptional gene regulation. The broad application of high-throughput sequencing technology has made routinely generation of bulk smRNA sequences in laboratories possible, thus has significantly increased the need for batch analysis tools. PsRobot is a web-based easy-to-use tool dedicated to the identification of smRNAs with stem-loop shaped precursors (such as microRNAs and short hairpin RNAs) and their target genes/transcripts. It performs fast analysis to identify smRNAs with stem-loop shaped precursors among batch input data and predicts their targets using a modified Smith-Waterman algorithm. PsRobot integrates the expression data of smRNAs in major plant smRNA biogenesis gene mutants and smRNA-associated protein complexes to give clues to the smRNA generation and functional processes. Besides improved specificity, the reliability of smRNA target prediction results can also be evaluated by mRNA cleavage (degradome) data. The cross species conservation statuses and the multiplicity of smRNA target sites are also provided. PsRobot is freely accessible at http://omicslab.genetics.ac.cn/psRobot/.

SW#db: GPU-Accelerated Exact Sequence Similarity Database Search.

PubMed

Korpar, Matija; Šošić, Martin; Blažeka, Dino; Šikić, Mile

2015-01-01

In recent years we have witnessed a growth in sequencing yield, the number of samples sequenced, and as a result-the growth of publicly maintained sequence databases. The increase of data present all around has put high requirements on protein similarity search algorithms with two ever-opposite goals: how to keep the running times acceptable while maintaining a high-enough level of sensitivity. The most time consuming step of similarity search are the local alignments between query and database sequences. This step is usually performed using exact local alignment algorithms such as Smith-Waterman. Due to its quadratic time complexity, alignments of a query to the whole database are usually too slow. Therefore, the majority of the protein similarity search methods prior to doing the exact local alignment apply heuristics to reduce the number of possible candidate sequences in the database. However, there is still a need for the alignment of a query sequence to a reduced database. In this paper we present the SW#db tool and a library for fast exact similarity search. Although its running times, as a standalone tool, are comparable to the running times of BLAST, it is primarily intended to be used for exact local alignment phase in which the database of sequences has already been reduced. It uses both GPU and CPU parallelization and was 4-5 times faster than SSEARCH, 6-25 times faster than CUDASW++ and more than 20 times faster than SSW at the time of writing, using multiple queries on Swiss-prot and Uniref90 databases.

BCM Search Launcher--an integrated interface to molecular biology data base search and analysis services available on the World Wide Web.

PubMed

Smith, R F; Wiese, B A; Wojzynski, M K; Davison, D B; Worley, K C

1996-05-01

The BCM Search Launcher is an integrated set of World Wide Web (WWW) pages that organize molecular biology-related search and analysis services available on the WWW by function, and provide a single point of entry for related searches. The Protein Sequence Search Page, for example, provides a single sequence entry form for submitting sequences to WWW servers that offer remote access to a variety of different protein sequence search tools, including BLAST, FASTA, Smith-Waterman, BEAUTY, PROSITE, and BLOCKS searches. Other Launch pages provide access to (1) nucleic acid sequence searches, (2) multiple and pair-wise sequence alignments, (3) gene feature searches, (4) protein secondary structure prediction, and (5) miscellaneous sequence utilities (e.g., six-frame translation). The BCM Search Launcher also provides a mechanism to extend the utility of other WWW services by adding supplementary hypertext links to results returned by remote servers. For example, links to the NCBI's Entrez data base and to the Sequence Retrieval System (SRS) are added to search results returned by the NCBI's WWW BLAST server. These links provide easy access to auxiliary information, such as Medline abstracts, that can be extremely helpful when analyzing BLAST data base hits. For new or infrequent users of sequence data base search tools, we have preset the default search parameters to provide the most informative first-pass sequence analysis possible. We have also developed a batch client interface for Unix and Macintosh computers that allows multiple input sequences to be searched automatically as a background task, with the results returned as individual HTML documents directly to the user's system. The BCM Search Launcher and batch client are available on the WWW at URL http:@gc.bcm.tmc.edu:8088/search-launcher.html.

PEPlife: A Repository of the Half-life of Peptides

NASA Astrophysics Data System (ADS)

Mathur, Deepika; Prakash, Satya; Anand, Priya; Kaur, Harpreet; Agrawal, Piyush; Mehta, Ayesha; Kumar, Rajesh; Singh, Sandeep; Raghava, Gajendra P. S.

2016-11-01

Short half-life is one of the key challenges in the field of therapeutic peptides. Various studies have reported enhancement in the stability of peptides using methods like chemical modifications, D-amino acid substitution, cyclization, replacement of labile aminos acids, etc. In order to study this scattered data, there is a pressing need for a repository dedicated to the half-life of peptides. To fill this lacuna, we have developed PEPlife (http://crdd.osdd.net/raghava/peplife), a manually curated resource of experimentally determined half-life of peptides. PEPlife contains 2229 entries covering 1193 unique peptides. Each entry provides detailed information of the peptide, like its name, sequence, half-life, modifications, the experimental assay for determining half-life, biological nature and activity of the peptide. We also maintain SMILES and structures of peptides. We have incorporated web-based modules to offer user-friendly data searching and browsing in the database. PEPlife integrates numerous tools to perform various types of analysis such as BLAST, Smith-Waterman algorithm, GGSEARCH, Jalview and MUSTANG. PEPlife would augment the understanding of different factors that affect the half-life of peptides like modifications, sequence, length, route of delivery of the peptide, etc. We anticipate that PEPlife will be useful for the researchers working in the area of peptide-based therapeutics.

Protein alignment algorithms with an efficient backtracking routine on multiple GPUs.

PubMed

Blazewicz, Jacek; Frohmberg, Wojciech; Kierzynka, Michal; Pesch, Erwin; Wojciechowski, Pawel

2011-05-20

Pairwise sequence alignment methods are widely used in biological research. The increasing number of sequences is perceived as one of the upcoming challenges for sequence alignment methods in the nearest future. To overcome this challenge several GPU (Graphics Processing Unit) computing approaches have been proposed lately. These solutions show a great potential of a GPU platform but in most cases address the problem of sequence database scanning and computing only the alignment score whereas the alignment itself is omitted. Thus, the need arose to implement the global and semiglobal Needleman-Wunsch, and Smith-Waterman algorithms with a backtracking procedure which is needed to construct the alignment. In this paper we present the solution that performs the alignment of every given sequence pair, which is a required step for progressive multiple sequence alignment methods, as well as for DNA recognition at the DNA assembly stage. Performed tests show that the implementation, with performance up to 6.3 GCUPS on a single GPU for affine gap penalties, is very efficient in comparison to other CPU and GPU-based solutions. Moreover, multiple GPUs support with load balancing makes the application very scalable. The article shows that the backtracking procedure of the sequence alignment algorithms may be designed to fit in with the GPU architecture. Therefore, our algorithm, apart from scores, is able to compute pairwise alignments. This opens a wide range of new possibilities, allowing other methods from the area of molecular biology to take advantage of the new computational architecture. Performed tests show that the efficiency of the implementation is excellent. Moreover, the speed of our GPU-based algorithms can be almost linearly increased when using more than one graphics card.

A parallel and sensitive software tool for methylation analysis on multicore platforms.

PubMed

Tárraga, Joaquín; Pérez, Mariano; Orduña, Juan M; Duato, José; Medina, Ignacio; Dopazo, Joaquín

2015-10-01

DNA methylation analysis suffers from very long processing time, as the advent of Next-Generation Sequencers has shifted the bottleneck of genomic studies from the sequencers that obtain the DNA samples to the software that performs the analysis of these samples. The existing software for methylation analysis does not seem to scale efficiently neither with the size of the dataset nor with the length of the reads to be analyzed. As it is expected that the sequencers will provide longer and longer reads in the near future, efficient and scalable methylation software should be developed. We present a new software tool, called HPG-Methyl, which efficiently maps bisulphite sequencing reads on DNA, analyzing DNA methylation. The strategy used by this software consists of leveraging the speed of the Burrows-Wheeler Transform to map a large number of DNA fragments (reads) rapidly, as well as the accuracy of the Smith-Waterman algorithm, which is exclusively employed to deal with the most ambiguous and shortest reads. Experimental results on platforms with Intel multicore processors show that HPG-Methyl significantly outperforms in both execution time and sensitivity state-of-the-art software such as Bismark, BS-Seeker or BSMAP, particularly for long bisulphite reads. Software in the form of C libraries and functions, together with instructions to compile and execute this software. Available by sftp to anonymous@clariano.uv.es (password 'anonymous'). juan.orduna@uv.es or jdopazo@cipf.es. © The Author 2015. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

Biologically inspired EM image alignment and neural reconstruction.

PubMed

Knowles-Barley, Seymour; Butcher, Nancy J; Meinertzhagen, Ian A; Armstrong, J Douglas

2011-08-15

Three-dimensional reconstruction of consecutive serial-section transmission electron microscopy (ssTEM) images of neural tissue currently requires many hours of manual tracing and annotation. Several computational techniques have already been applied to ssTEM images to facilitate 3D reconstruction and ease this burden. Here, we present an alternative computational approach for ssTEM image analysis. We have used biologically inspired receptive fields as a basis for a ridge detection algorithm to identify cell membranes, synaptic contacts and mitochondria. Detected line segments are used to improve alignment between consecutive images and we have joined small segments of membrane into cell surfaces using a dynamic programming algorithm similar to the Needleman-Wunsch and Smith-Waterman DNA sequence alignment procedures. A shortest path-based approach has been used to close edges and achieve image segmentation. Partial reconstructions were automatically generated and used as a basis for semi-automatic reconstruction of neural tissue. The accuracy of partial reconstructions was evaluated and 96% of membrane could be identified at the cost of 13% false positive detections. An open-source reference implementation is available in the Supplementary information. seymour.kb@ed.ac.uk; douglas.armstrong@ed.ac.uk Supplementary data are available at Bioinformatics online.

3. Historic American Buildings Survey, Thomas T. Waterman, Photographer March, ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

3. Historic American Buildings Survey, Thomas T. Waterman, Photographer March, 1936 NORTH ELEVATION. 4. Historic American Buildings Survey, Thomas T. Waterman, Photographer March, 1936 EAST ELEVATION. - Paul Hamilton House (Ruins), Russell Creek, Edisto Island, Charleston County, SC

Waterman Award nominations sought

NASA Astrophysics Data System (ADS)

Showstack, Randy

2012-10-01

The U.S. National Science Foundation (NSF) is accepting nominations for the 2013 Alan T. Waterman Award. The award, established in 1975 to commemorate NSF's first director, is the foundation's highest honor for promising, early-career researchers. Nominees are accepted from all sources, from any field of science and engineering that NSF supports. In addition to receiving a medal, the award recipient will also receive a $1,000,000 grant over 5 years for scientific research or advanced study in any field of science or engineering supported by NSF. Completed nomination packages are due by 31 October. For more information, see http://www.nsf.gov/od/waterman/waterman.jsp.

LZW-Kernel: fast kernel utilizing variable length code blocks from LZW compressors for protein sequence classification.

PubMed

Filatov, Gleb; Bauwens, Bruno; Kertész-Farkas, Attila

2018-05-07

Bioinformatics studies often rely on similarity measures between sequence pairs, which often pose a bottleneck in large-scale sequence analysis. Here, we present a new convolutional kernel function for protein sequences called the LZW-Kernel. It is based on code words identified with the Lempel-Ziv-Welch (LZW) universal text compressor. The LZW-Kernel is an alignment-free method, it is always symmetric, is positive, always provides 1.0 for self-similarity and it can directly be used with Support Vector Machines (SVMs) in classification problems, contrary to normalized compression distance (NCD), which often violates the distance metric properties in practice and requires further techniques to be used with SVMs. The LZW-Kernel is a one-pass algorithm, which makes it particularly plausible for big data applications. Our experimental studies on remote protein homology detection and protein classification tasks reveal that the LZW-Kernel closely approaches the performance of the Local Alignment Kernel (LAK) and the SVM-pairwise method combined with Smith-Waterman (SW) scoring at a fraction of the time. Moreover, the LZW-Kernel outperforms the SVM-pairwise method when combined with BLAST scores, which indicates that the LZW code words might be a better basis for similarity measures than local alignment approximations found with BLAST. In addition, the LZW-Kernel outperforms n-gram based mismatch kernels, hidden Markov model based SAM and Fisher kernel, and protein family based PSI-BLAST, among others. Further advantages include the LZW-Kernel's reliance on a simple idea, its ease of implementation, and its high speed, three times faster than BLAST and several magnitudes faster than SW or LAK in our tests. LZW-Kernel is implemented as a standalone C code and is a free open-source program distributed under GPLv3 license and can be downloaded from https://github.com/kfattila/LZW-Kernel. akerteszfarkas@hse.ru. Supplementary data are available at Bioinformatics Online.

Benchmarking protein classification algorithms via supervised cross-validation.

PubMed

Kertész-Farkas, Attila; Dhir, Somdutta; Sonego, Paolo; Pacurar, Mircea; Netoteia, Sergiu; Nijveen, Harm; Kuzniar, Arnold; Leunissen, Jack A M; Kocsor, András; Pongor, Sándor

2008-04-24

Development and testing of protein classification algorithms are hampered by the fact that the protein universe is characterized by groups vastly different in the number of members, in average protein size, similarity within group, etc. Datasets based on traditional cross-validation (k-fold, leave-one-out, etc.) may not give reliable estimates on how an algorithm will generalize to novel, distantly related subtypes of the known protein classes. Supervised cross-validation, i.e., selection of test and train sets according to the known subtypes within a database has been successfully used earlier in conjunction with the SCOP database. Our goal was to extend this principle to other databases and to design standardized benchmark datasets for protein classification. Hierarchical classification trees of protein categories provide a simple and general framework for designing supervised cross-validation strategies for protein classification. Benchmark datasets can be designed at various levels of the concept hierarchy using a simple graph-theoretic distance. A combination of supervised and random sampling was selected to construct reduced size model datasets, suitable for algorithm comparison. Over 3000 new classification tasks were added to our recently established protein classification benchmark collection that currently includes protein sequence (including protein domains and entire proteins), protein structure and reading frame DNA sequence data. We carried out an extensive evaluation based on various machine-learning algorithms such as nearest neighbor, support vector machines, artificial neural networks, random forests and logistic regression, used in conjunction with comparison algorithms, BLAST, Smith-Waterman, Needleman-Wunsch, as well as 3D comparison methods DALI and PRIDE. The resulting datasets provide lower, and in our opinion more realistic estimates of the classifier performance than do random cross-validation schemes. A combination of supervised and random sampling was used to construct model datasets, suitable for algorithm comparison.

1. Historic American Buildings Survey, Thomas T. Waterman, Photographer June, ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

1. Historic American Buildings Survey, Thomas T. Waterman, Photographer June, 1939 SLAVE QUARTERS. - I. Jenkins Mikell House, Servants' Quarters, Rutledge Avenue & Montague Street, Charleston, Charleston County, SC

Humanistic and positive psychology need each other, and to advance, our field needs both.

PubMed

Schneider, Kirk J

2014-01-01

Comments on the article "The humanistic psychology-positive psychology divide: Contrasts in philosophical foundations" by Waterman (see record 2013-12501-001). Alan Waterman's article is an illuminating contribution that will be reviewed and debated for years to come. The current author is appreciative of Waterman for raising key questions about the respective worldviews of humanistic and positive psychology and their potential for rapprochement. That said, the current author thinks Waterman's conclusion that both perspectives are better off pursuing their own independent agendas is a short-sighted one that is likely to have debilitating, if not dire, effects on the future of our profession. The current author believes that there are many ways for existential-humanistic and positive psychology researchers to collaborate. PsycINFO Database Record (c) 2014 APA, all rights reserved.

Incorporating evolution of transcription factor binding sites into annotated alignments.

PubMed

Bais, Abha S; Grossmann, Stefen; Vingron, Martin

2007-08-01

Identifying transcription factor binding sites (TFBSs) is essential to elucidate putative regulatory mechanisms. A common strategy is to combine cross-species conservation with single sequence TFBS annotation to yield "conserved TFBSs". Most current methods in this field adopt a multi-step approach that segregates the two aspects. Again, it is widely accepted that the evolutionary dynamics of binding sites differ from those of the surrounding sequence. Hence, it is desirable to have an approach that explicitly takes this factor into account. Although a plethora of approaches have been proposed for the prediction of conserved TFBSs, very few explicitly model TFBS evolutionary properties, while additionally being multi-step. Recently, we introduced a novel approach to simultaneously align and annotate conserved TFBSs in a pair of sequences. Building upon the standard Smith-Waterman algorithm for local alignments, SimAnn introduces additional states for profiles to output extended alignments or annotated alignments. That is, alignments with parts annotated as gaplessly aligned TFBSs (pair-profile hits)are generated. Moreover,the pair- profile related parameters are derived in a sound statistical framework. In this article, we extend this approach to explicitly incorporate evolution of binding sites in the SimAnn framework. We demonstrate the extension in the theoretical derivations through two position-specific evolutionary models, previously used for modelling TFBS evolution. In a simulated setting, we provide a proof of concept that the approach works given the underlying assumptions,as compared to the original work. Finally, using a real dataset of experimentally verified binding sites in human-mouse sequence pairs,we compare the new approach (eSimAnn) to an existing multi-step tool that also considers TFBS evolution. Although it is widely accepted that binding sites evolve differently from the surrounding sequences, most comparative TFBS identification methods do not explicitly consider this.Additionally, prediction of conserved binding sites is carried out in a multi-step approach that segregates alignment from TFBS annotation. In this paper, we demonstrate how the simultaneous alignment and annotation approach of SimAnn can be further extended to incorporate TFBS evolutionary relationships. We study how alignments and binding site predictions interplay at varying evolutionary distances and for various profile qualities.

Are humanistic and positive psychology really incommensurate?

PubMed

Friedman, Harris

2014-01-01

Comments on the article "The humanistic psychology-positive psychology divide: Contrasts in philosophical foundations" by Waterman (see record 2013-12501-001). Waterman has provided some broad-brush generalizations about differences between humanistic psychology and positive psychology, many of which do not hold in all cases, and he has pointed out some difficulties that would be involved in reconciling them. However, he has not presented any convincing argument that the two are irreconcilable. Essentially, Waterman has confounded difficulties with impossibilities by concluding these are incommensurate. PsycINFO Database Record (c) 2014 APA, all rights reserved.

4. Historic American Buildings Survey Thomas T. Waterman, Photographer 1938 ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

4. Historic American Buildings Survey Thomas T. Waterman, Photographer 1938 GATE PIER Now at Southwest Corner Fifteenth and Constitution Avenue - U.S. Capitol, Gateposts, Nineteenth Street & Constitution (moved from Capitol), Washington, District of Columbia, DC

5. Historic American Buildings Survey Thomas T. Waterman, Photographer 1938 ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

5. Historic American Buildings Survey Thomas T. Waterman, Photographer 1938 GATE PIER Now at Southeast Corner of Fifteenth and Constitution Avenue - U.S. Capitol, Gateposts, Nineteenth Street & Constitution (moved from Capitol), Washington, District of Columbia, DC

3. Historic American Buildings Survey Thomas T. Waterman, Photographer 1938 ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

3. Historic American Buildings Survey Thomas T. Waterman, Photographer 1938 GATE PIER Now at Northwest Corner of Fifteenth and Constitution Avenue - U.S. Capitol, Gateposts, Nineteenth Street & Constitution (moved from Capitol), Washington, District of Columbia, DC

Evolution of biological sequences implies an extreme value distribution of type I for both global and local pairwise alignment scores.

PubMed

Bastien, Olivier; Maréchal, Eric

2008-08-07

Confidence in pairwise alignments of biological sequences, obtained by various methods such as Blast or Smith-Waterman, is critical for automatic analyses of genomic data. Two statistical models have been proposed. In the asymptotic limit of long sequences, the Karlin-Altschul model is based on the computation of a P-value, assuming that the number of high scoring matching regions above a threshold is Poisson distributed. Alternatively, the Lipman-Pearson model is based on the computation of a Z-value from a random score distribution obtained by a Monte-Carlo simulation. Z-values allow the deduction of an upper bound of the P-value (1/Z-value2) following the TULIP theorem. Simulations of Z-value distribution is known to fit with a Gumbel law. This remarkable property was not demonstrated and had no obvious biological support. We built a model of evolution of sequences based on aging, as meant in Reliability Theory, using the fact that the amount of information shared between an initial sequence and the sequences in its lineage (i.e., mutual information in Information Theory) is a decreasing function of time. This quantity is simply measured by a sequence alignment score. In systems aging, the failure rate is related to the systems longevity. The system can be a machine with structured components, or a living entity or population. "Reliability" refers to the ability to operate properly according to a standard. Here, the "reliability" of a sequence refers to the ability to conserve a sufficient functional level at the folded and maturated protein level (positive selection pressure). Homologous sequences were considered as systems 1) having a high redundancy of information reflected by the magnitude of their alignment scores, 2) which components are the amino acids that can independently be damaged by random DNA mutations. From these assumptions, we deduced that information shared at each amino acid position evolved with a constant rate, corresponding to the information hazard rate, and that pairwise sequence alignment scores should follow a Gumbel distribution, which parameters could find some theoretical rationale. In particular, one parameter corresponds to the information hazard rate. Extreme value distribution of alignment scores, assessed from high scoring segments pairs following the Karlin-Altschul model, can also be deduced from the Reliability Theory applied to molecular sequences. It reflects the redundancy of information between homologous sequences, under functional conservative pressure. This model also provides a link between concepts of biological sequence analysis and of systems biology.

Peter Waterman and T-Matrix Methods

NASA Technical Reports Server (NTRS)

Mishchenko, M. I.; Martin, P.A.

2013-01-01

This paper summarizes the scientific legacy of Peter C. Waterman (1928-2012) who introduced concepts and theoretical techniques that have had a major impact on the fields of scattering by particles and particle groups, optical particletcharacterization, radiative transfer, and remote sensing. A biographical sketch is also included.

GAMUT: GPU accelerated microRNA analysis to uncover target genes through CUDA-miRanda

PubMed Central

2014-01-01

Background Non-coding sequences such as microRNAs have important roles in disease processes. Computational microRNA target identification (CMTI) is becoming increasingly important since traditional experimental methods for target identification pose many difficulties. These methods are time-consuming, costly, and often need guidance from computational methods to narrow down candidate genes anyway. However, most CMTI methods are computationally demanding, since they need to handle not only several million query microRNA and reference RNA pairs, but also several million nucleotide comparisons within each given pair. Thus, the need to perform microRNA identification at such large scale has increased the demand for parallel computing. Methods Although most CMTI programs (e.g., the miRanda algorithm) are based on a modified Smith-Waterman (SW) algorithm, the existing parallel SW implementations (e.g., CUDASW++ 2.0/3.0, SWIPE) are unable to meet this demand in CMTI tasks. We present CUDA-miRanda, a fast microRNA target identification algorithm that takes advantage of massively parallel computing on Graphics Processing Units (GPU) using NVIDIA's Compute Unified Device Architecture (CUDA). CUDA-miRanda specifically focuses on the local alignment of short (i.e., ≤ 32 nucleotides) sequences against longer reference sequences (e.g., 20K nucleotides). Moreover, the proposed algorithm is able to report multiple alignments (up to 191 top scores) and the corresponding traceback sequences for any given (query sequence, reference sequence) pair. Results Speeds over 5.36 Giga Cell Updates Per Second (GCUPs) are achieved on a server with 4 NVIDIA Tesla M2090 GPUs. Compared to the original miRanda algorithm, which is evaluated on an Intel Xeon E5620@2.4 GHz CPU, the experimental results show up to 166 times performance gains in terms of execution time. In addition, we have verified that the exact same targets were predicted in both CUDA-miRanda and the original miRanda implementations through multiple test datasets. Conclusions We offer a GPU-based alternative to high performance compute (HPC) that can be developed locally at a relatively small cost. The community of GPU developers in the biomedical research community, particularly for genome analysis, is still growing. With increasing shared resources, this community will be able to advance CMTI in a very significant manner. Our source code is available at https://sourceforge.net/projects/cudamiranda/. PMID:25077821

77 FR 74518 - Alan T. Waterman Award Committee; Notice of Meeting

Federal Register 2010, 2011, 2012, 2013, 2014

2012-12-14

... NATIONAL SCIENCE FOUNDATION Alan T. Waterman Award Committee; Notice of Meeting In accordance with the Federal Advisory Committee Act (Pub. L. 92- 463, as amended), the National Science Foundation..., 2013, 8:30a.m.-1:30 p.m. Place: National Science Foundation, Arlington, Virginia 22230. Type of Meeting...

Peter Waterman and his scientific legacy

NASA Technical Reports Server (NTRS)

Mishchenko, Michael I.; Kahnert, Michael; Mackowski, Daniel W.; Wriedt, Thomas

2013-01-01

Peter C. Waterman, a giant figure in the theory of electromagnetic, acoustic, and elastic wave scattering, passed away on 3 June, 2012. In view of his fundamental contributions, which to a large degree have guided the progress of these disciplines over the past five decades and affected profoundly the multifaceted research published in the Journal of Quantitative Spectroscopy and Radiative Transfer (JQSRT), we felt that it would be appropriate to solicit papers for a special issue of JQSRT commemorating Peter Waterman's scientific legacy. This initiative was endorsed by the JQSRT management and has resulted in a representative collection of high-quality papers which have undergone the same peer scrutiny as any paper submitted to JQSRT.

OPTIMIZATION OF MUD HAMMER DRILLING PERFORMANCE - A PROGRAM TO BENCHMARK THE VIABILITY OF ADVANCED MUD HAMMER DRILLING

DOE Office of Scientific and Technical Information (OSTI.GOV)

Arnis Judzis

2002-10-01

This document details the progress to date on the OPTIMIZATION OF MUD HAMMER DRILLING PERFORMANCE -- A PROGRAM TO BENCHMARK THE VIABILITY OF ADVANCED MUD HAMMER DRILLING contract for the quarter starting July 2002 through September 2002. Even though we are awaiting the optimization portion of the testing program, accomplishments include the following: (1) Smith International agreed to participate in the DOE Mud Hammer program. (2) Smith International chromed collars for upcoming benchmark tests at TerraTek, now scheduled for 4Q 2002. (3) ConocoPhillips had a field trial of the Smith fluid hammer offshore Vietnam. The hammer functioned properly, though themore » well encountered hole conditions and reaming problems. ConocoPhillips plan another field trial as a result. (4) DOE/NETL extended the contract for the fluid hammer program to allow Novatek to ''optimize'' their much delayed tool to 2003 and to allow Smith International to add ''benchmarking'' tests in light of SDS Digger Tools' current financial inability to participate. (5) ConocoPhillips joined the Industry Advisors for the mud hammer program. (6) TerraTek acknowledges Smith International, BP America, PDVSA, and ConocoPhillips for cost-sharing the Smith benchmarking tests allowing extension of the contract to complete the optimizations.« less

SMITH: a LIMS for handling next-generation sequencing workflows

PubMed Central

2014-01-01

Background Life-science laboratories make increasing use of Next Generation Sequencing (NGS) for studying bio-macromolecules and their interactions. Array-based methods for measuring gene expression or protein-DNA interactions are being replaced by RNA-Seq and ChIP-Seq. Sequencing is generally performed by specialized facilities that have to keep track of sequencing requests, trace samples, ensure quality and make data available according to predefined privileges. An integrated tool helps to troubleshoot problems, to maintain a high quality standard, to reduce time and costs. Commercial and non-commercial tools called LIMS (Laboratory Information Management Systems) are available for this purpose. However, they often come at prohibitive cost and/or lack the flexibility and scalability needed to adjust seamlessly to the frequently changing protocols employed. In order to manage the flow of sequencing data produced at the Genomic Unit of the Italian Institute of Technology (IIT), we developed SMITH (Sequencing Machine Information Tracking and Handling). Methods SMITH is a web application with a MySQL server at the backend. Wet-lab scientists of the Centre for Genomic Science and database experts from the Politecnico of Milan in the context of a Genomic Data Model Project developed SMITH. The data base schema stores all the information of an NGS experiment, including the descriptions of all protocols and algorithms used in the process. Notably, an attribute-value table allows associating an unconstrained textual description to each sample and all the data produced afterwards. This method permits the creation of metadata that can be used to search the database for specific files as well as for statistical analyses. Results SMITH runs automatically and limits direct human interaction mainly to administrative tasks. SMITH data-delivery procedures were standardized making it easier for biologists and analysts to navigate the data. Automation also helps saving time. The workflows are available through an API provided by the workflow management system. The parameters and input data are passed to the workflow engine that performs de-multiplexing, quality control, alignments, etc. Conclusions SMITH standardizes, automates, and speeds up sequencing workflows. Annotation of data with key-value pairs facilitates meta-analysis. PMID:25471934

SMITH: a LIMS for handling next-generation sequencing workflows.

PubMed

Venco, Francesco; Vaskin, Yuriy; Ceol, Arnaud; Muller, Heiko

2014-01-01

Life-science laboratories make increasing use of Next Generation Sequencing (NGS) for studying bio-macromolecules and their interactions. Array-based methods for measuring gene expression or protein-DNA interactions are being replaced by RNA-Seq and ChIP-Seq. Sequencing is generally performed by specialized facilities that have to keep track of sequencing requests, trace samples, ensure quality and make data available according to predefined privileges. An integrated tool helps to troubleshoot problems, to maintain a high quality standard, to reduce time and costs. Commercial and non-commercial tools called LIMS (Laboratory Information Management Systems) are available for this purpose. However, they often come at prohibitive cost and/or lack the flexibility and scalability needed to adjust seamlessly to the frequently changing protocols employed. In order to manage the flow of sequencing data produced at the Genomic Unit of the Italian Institute of Technology (IIT), we developed SMITH (Sequencing Machine Information Tracking and Handling). SMITH is a web application with a MySQL server at the backend. Wet-lab scientists of the Centre for Genomic Science and database experts from the Politecnico of Milan in the context of a Genomic Data Model Project developed SMITH. The data base schema stores all the information of an NGS experiment, including the descriptions of all protocols and algorithms used in the process. Notably, an attribute-value table allows associating an unconstrained textual description to each sample and all the data produced afterwards. This method permits the creation of metadata that can be used to search the database for specific files as well as for statistical analyses. SMITH runs automatically and limits direct human interaction mainly to administrative tasks. SMITH data-delivery procedures were standardized making it easier for biologists and analysts to navigate the data. Automation also helps saving time. The workflows are available through an API provided by the workflow management system. The parameters and input data are passed to the workflow engine that performs de-multiplexing, quality control, alignments, etc. SMITH standardizes, automates, and speeds up sequencing workflows. Annotation of data with key-value pairs facilitates meta-analysis.

A Waterman's Journey: Tim Junkin's Bloodsworth

ERIC Educational Resources Information Center

Ward, Nathan

2004-01-01

Before he was wrongly sent to death row for the rape and murder of a nine-year-old girl in 1984, Kirk Bloodsworth enjoyed the life of a Chesapeake Bay waterman. Convicted largely on the testimony of a seven- and a ten-year-old eyewitness, by 1989 Johnson had exhausted almost every legal option available--after winning a new trial, he was convicted…

Citation Matching in Sanskrit Corpora Using Local Alignment

NASA Astrophysics Data System (ADS)

Prasad, Abhinandan S.; Rao, Shrisha

Citation matching is the problem of finding which citation occurs in a given textual corpus. Most existing citation matching work is done on scientific literature. The goal of this paper is to present methods for performing citation matching on Sanskrit texts. Exact matching and approximate matching are the two methods for performing citation matching. The exact matching method checks for exact occurrence of the citation with respect to the textual corpus. Approximate matching is a fuzzy string-matching method which computes a similarity score between an individual line of the textual corpus and the citation. The Smith-Waterman-Gotoh algorithm for local alignment, which is generally used in bioinformatics, is used here for calculating the similarity score. This similarity score is a measure of the closeness between the text and the citation. The exact- and approximate-matching methods are evaluated and compared. The methods presented can be easily applied to corpora in other Indic languages like Kannada, Tamil, etc. The approximate-matching method can in particular be used in the compilation of critical editions and plagiarism detection in a literary work.

NERBio: using selected word conjunctions, term normalization, and global patterns to improve biomedical named entity recognition.

PubMed

Tsai, Richard Tzong-Han; Sung, Cheng-Lung; Dai, Hong-Jie; Hung, Hsieh-Chuan; Sung, Ting-Yi; Hsu, Wen-Lian

2006-12-18

Biomedical named entity recognition (Bio-NER) is a challenging problem because, in general, biomedical named entities of the same category (e.g., proteins and genes) do not follow one standard nomenclature. They have many irregularities and sometimes appear in ambiguous contexts. In recent years, machine-learning (ML) approaches have become increasingly common and now represent the cutting edge of Bio-NER technology. This paper addresses three problems faced by ML-based Bio-NER systems. First, most ML approaches usually employ singleton features that comprise one linguistic property (e.g., the current word is capitalized) and at least one class tag (e.g., B-protein, the beginning of a protein name). However, such features may be insufficient in cases where multiple properties must be considered. Adding conjunction features that contain multiple properties can be beneficial, but it would be infeasible to include all conjunction features in an NER model since memory resources are limited and some features are ineffective. To resolve the problem, we use a sequential forward search algorithm to select an effective set of features. Second, variations in the numerical parts of biomedical terms (e.g., "2" in the biomedical term IL2) cause data sparseness and generate many redundant features. In this case, we apply numerical normalization, which solves the problem by replacing all numerals in a term with one representative numeral to help classify named entities. Third, the assignment of NE tags does not depend solely on the target word's closest neighbors, but may depend on words outside the context window (e.g., a context window of five consists of the current word plus two preceding and two subsequent words). We use global patterns generated by the Smith-Waterman local alignment algorithm to identify such structures and modify the results of our ML-based tagger. This is called pattern-based post-processing. To develop our ML-based Bio-NER system, we employ conditional random fields, which have performed effectively in several well-known tasks, as our underlying ML model. Adding selected conjunction features, applying numerical normalization, and employing pattern-based post-processing improve the F-scores by 1.67%, 1.04%, and 0.57%, respectively. The combined increase of 3.28% yields a total score of 72.98%, which is better than the baseline system that only uses singleton features. We demonstrate the benefits of using the sequential forward search algorithm to select effective conjunction feature groups. In addition, we show that numerical normalization can effectively reduce the number of redundant and unseen features. Furthermore, the Smith-Waterman local alignment algorithm can help ML-based Bio-NER deal with difficult cases that need longer context windows.

A Statistical Framework for the Functional Analysis of Metagenomes

DOE Office of Scientific and Technical Information (OSTI.GOV)

Sharon, Itai; Pati, Amrita; Markowitz, Victor

2008-10-01

Metagenomic studies consider the genetic makeup of microbial communities as a whole, rather than their individual member organisms. The functional and metabolic potential of microbial communities can be analyzed by comparing the relative abundance of gene families in their collective genomic sequences (metagenome) under different conditions. Such comparisons require accurate estimation of gene family frequencies. They present a statistical framework for assessing these frequencies based on the Lander-Waterman theory developed originally for Whole Genome Shotgun (WGS) sequencing projects. They also provide a novel method for assessing the reliability of the estimations which can be used for removing seemingly unreliable measurements.more » They tested their method on a wide range of datasets, including simulated genomes and real WGS data from sequencing projects of whole genomes. Results suggest that their framework corrects inherent biases in accepted methods and provides a good approximation to the true statistics of gene families in WGS projects.« less

OPTIMIZATION OF MUD HAMMER DRILLING PERFORMANCE - A PROGRAM TO BENCHMARK THE VIABILITY OF ADVANCED MUD HAMMER DRILLING

DOE Office of Scientific and Technical Information (OSTI.GOV)

Arnis Judzis

2003-01-01

This document details the progress to date on the ''OPTIMIZATION OF MUD HAMMER DRILLING PERFORMANCE -- A PROGRAM TO BENCHMARK THE VIABILITY OF ADVANCED MUD HAMMER DRILLING'' contract for the quarter starting October 2002 through December 2002. Even though we are awaiting the optimization portion of the testing program, accomplishments included the following: (1) Smith International participated in the DOE Mud Hammer program through full scale benchmarking testing during the week of 4 November 2003. (2) TerraTek acknowledges Smith International, BP America, PDVSA, and ConocoPhillips for cost-sharing the Smith benchmarking tests allowing extension of the contract to add to themore » benchmarking testing program. (3) Following the benchmark testing of the Smith International hammer, representatives from DOE/NETL, TerraTek, Smith International and PDVSA met at TerraTek in Salt Lake City to review observations, performance and views on the optimization step for 2003. (4) The December 2002 issue of Journal of Petroleum Technology (Society of Petroleum Engineers) highlighted the DOE fluid hammer testing program and reviewed last years paper on the benchmark performance of the SDS Digger and Novatek hammers. (5) TerraTek's Sid Green presented a technical review for DOE/NETL personnel in Morgantown on ''Impact Rock Breakage'' and its importance on improving fluid hammer performance. Much discussion has taken place on the issues surrounding mud hammer performance at depth conditions.« less

Baseline tests of the C. H. Waterman Renault 5 electric passenger vehicle

NASA Technical Reports Server (NTRS)

Sargent, N. B.; Mcbrien, E. F.; Slavick, R. J.

1977-01-01

The Waterman vehicle, a four passenger Renault 5 GTL, performance test results are presented and characterized the state-of-the-art of electric vehicles. It was powered by sixteen 6-volt traction batteries through a two-step contactor controller actuated by a foot throttle to change the voltage applied to the 6.7 -kilowatt motor. The motor output shaft was connected to a front-wheel-drive transaxle that contains a four-speed manual transmission and clutch. The braking system was a conventional hydraulic braking system.

Baseline tests of the C. H. Waterman DAF electric passenger vehicle

NASA Technical Reports Server (NTRS)

Sargent, N. B.; Maslowski, E. A.; Soltis, R. F.; Schuh, R. M.

1977-01-01

An electric vehicle was tested as part of an Energy Research Development Administration (ERDA) project to characterize the state-of-the-art of electric vehicles. The Waterman vehicle performance test results are presented in this report. The vehicle is a converted four-passenger DAF 46 sedan. It is powered by sixteen 6-volt traction batteries through a three-step contactor controller actuated by a foot throttle to change the voltage applied to the 6.7 kW motor. The braking system is a conventional hydraulic braking system.

Sequencing the Unrearranged Human Immunoglobin

DOE Office of Scientific and Technical Information (OSTI.GOV)

Warren, Rene

2010-06-03

Rene Warren from Canada's Michael Smith Genome Sciences Centre discusses sequencing and finishing the IgH heavy chain locus on June 3, 2010 at the "Sequencing, Finishing, Analysis in the Future" meeting in Santa Fe, NM.

SIMAP—the database of all-against-all protein sequence similarities and annotations with new interfaces and increased coverage

PubMed Central

Arnold, Roland; Goldenberg, Florian; Mewes, Hans-Werner; Rattei, Thomas

2014-01-01

The Similarity Matrix of Proteins (SIMAP, http://mips.gsf.de/simap/) database has been designed to massively accelerate computationally expensive protein sequence analysis tasks in bioinformatics. It provides pre-calculated sequence similarities interconnecting the entire known protein sequence universe, complemented by pre-calculated protein features and domains, similarity clusters and functional annotations. SIMAP covers all major public protein databases as well as many consistently re-annotated metagenomes from different repositories. As of September 2013, SIMAP contains >163 million proteins corresponding to ∼70 million non-redundant sequences. SIMAP uses the sensitive FASTA search heuristics, the Smith–Waterman alignment algorithm, the InterPro database of protein domain models and the BLAST2GO functional annotation algorithm. SIMAP assists biologists by facilitating the interactive exploration of the protein sequence universe. Web-Service and DAS interfaces allow connecting SIMAP with any other bioinformatic tool and resource. All-against-all protein sequence similarity matrices of project-specific protein collections are generated on request. Recent improvements allow SIMAP to cover the rapidly growing sequenced protein sequence universe. New Web-Service interfaces enhance the connectivity of SIMAP. Novel tools for interactive extraction of protein similarity networks have been added. Open access to SIMAP is provided through the web portal; the portal also contains instructions and links for software access and flat file downloads. PMID:24165881

Ecology, Behavior and Bionomics: First Genotyping of Spodoptera frugiperda (J. E. Smith)(Lepidoptera: Noctuidae) Progeny from Crosses between Bt-Resistant and Bt-Susceptible Populations, and 65-Locus Discrimination of Isofami

USDA-ARS?s Scientific Manuscript database

Simple sequence repeat (SSR) markers from Spodoptera frugiperda (J. E. Smith) were analyzed in crosses of this species between Bacillus thuringiensis (Berliner) (Bacillales: Bacillaceae) (Bt) resistant and susceptible populations to determine a possible association between markers and Bt resistance....

Comprehensive T-Matrix Reference Database: A 2012 - 2013 Update

NASA Technical Reports Server (NTRS)

Mishchenko, Michael I.; Videen, Gorden; Khlebtsov, Nikolai G.; Wriedt, Thomas

2013-01-01

The T-matrix method is one of the most versatile, efficient, and accurate theoretical techniques widely used for numerically exact computer calculations of electromagnetic scattering by single and composite particles, discrete random media, and particles imbedded in complex environments. This paper presents the fifth update to the comprehensive database of peer-reviewed T-matrix publications initiated by us in 2004 and includes relevant publications that have appeared since 2012. It also lists several earlier publications not incorporated in the original database, including Peter Waterman's reports from the 1960s illustrating the history of the T-matrix approach and demonstrating that John Fikioris and Peter Waterman were the true pioneers of the multi-sphere method otherwise known as the generalized Lorenz - Mie theory.

On the Computation of Optimal Designs for Certain Time Series Models with Applications to Optimal Quantile Selection for Location or Scale Parameter Estimation.

DTIC Science & Technology

1981-07-01

process is observed over all of (0,1], the reproducing kernel Hilbert space (RKHS) techniques developed by Parzen (1961a, 1961b) 2 may be used to construct...covariance kernel,R, for the process (1.1) is the reproducing kernel for a reproducing kernel Hilbert space (RKHS) which will be denoted as H(R) (c.f...2.6), it is known that (c.f. Eubank, Smith and Smith (1981a, 1981b)), i) H(R) is a Hilbert function space consisting of functions which satisfy for fEH

ProteinWorldDB: querying radical pairwise alignments among protein sets from complete genomes

PubMed Central

Otto, Thomas Dan; Catanho, Marcos; Tristão, Cristian; Bezerra, Márcia; Fernandes, Renan Mathias; Elias, Guilherme Steinberger; Scaglia, Alexandre Capeletto; Bovermann, Bill; Berstis, Viktors; Lifschitz, Sergio; de Miranda, Antonio Basílio; Degrave, Wim

2010-01-01

Motivation: Many analyses in modern biological research are based on comparisons between biological sequences, resulting in functional, evolutionary and structural inferences. When large numbers of sequences are compared, heuristics are often used resulting in a certain lack of accuracy. In order to improve and validate results of such comparisons, we have performed radical all-against-all comparisons of 4 million protein sequences belonging to the RefSeq database, using an implementation of the Smith–Waterman algorithm. This extremely intensive computational approach was made possible with the help of World Community Grid™, through the Genome Comparison Project. The resulting database, ProteinWorldDB, which contains coordinates of pairwise protein alignments and their respective scores, is now made available. Users can download, compare and analyze the results, filtered by genomes, protein functions or clusters. ProteinWorldDB is integrated with annotations derived from Swiss-Prot, Pfam, KEGG, NCBI Taxonomy database and gene ontology. The database is a unique and valuable asset, representing a major effort to create a reliable and consistent dataset of cross-comparisons of the whole protein content encoded in hundreds of completely sequenced genomes using a rigorous dynamic programming approach. Availability: The database can be accessed through http://proteinworlddb.org Contact: otto@fiocruz.br PMID:20089515

Accelerated probabilistic inference of RNA structure evolution

PubMed Central

Holmes, Ian

2005-01-01

Background Pairwise stochastic context-free grammars (Pair SCFGs) are powerful tools for evolutionary analysis of RNA, including simultaneous RNA sequence alignment and secondary structure prediction, but the associated algorithms are intensive in both CPU and memory usage. The same problem is faced by other RNA alignment-and-folding algorithms based on Sankoff's 1985 algorithm. It is therefore desirable to constrain such algorithms, by pre-processing the sequences and using this first pass to limit the range of structures and/or alignments that can be considered. Results We demonstrate how flexible classes of constraint can be imposed, greatly reducing the computational costs while maintaining a high quality of structural homology prediction. Any score-attributed context-free grammar (e.g. energy-based scoring schemes, or conditionally normalized Pair SCFGs) is amenable to this treatment. It is now possible to combine independent structural and alignment constraints of unprecedented general flexibility in Pair SCFG alignment algorithms. We outline several applications to the bioinformatics of RNA sequence and structure, including Waterman-Eggert N-best alignments and progressive multiple alignment. We evaluate the performance of the algorithm on test examples from the RFAM database. Conclusion A program, Stemloc, that implements these algorithms for efficient RNA sequence alignment and structure prediction is available under the GNU General Public License. PMID:15790387

6. Historic American Buildings Survey, George J. Vaillancourt, Photographer, 1940 ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

6. Historic American Buildings Survey, George J. Vaillancourt, Photographer, 1940 LIVING ROOM FIREPLACE, FIRST STORY. - Governor James Fenner House, 41 Waterman Street, Providence, Providence County, RI

Analysis of X-ray structures of matrix metalloproteinases via chaotic map clustering.

PubMed

Giangreco, Ilenia; Nicolotti, Orazio; Carotti, Angelo; De Carlo, Francesco; Gargano, Gianfranco; Bellotti, Roberto

2010-10-08

Matrix metalloproteinases (MMPs) are well-known biological targets implicated in tumour progression, homeostatic regulation, innate immunity, impaired delivery of pro-apoptotic ligands, and the release and cleavage of cell-surface receptors. With this in mind, the perception of the intimate relationships among diverse MMPs could be a solid basis for accelerated learning in designing new selective MMP inhibitors. In this regard, decrypting the latent molecular reasons in order to elucidate similarity among MMPs is a key challenge. We describe a pairwise variant of the non-parametric chaotic map clustering (CMC) algorithm and its application to 104 X-ray MMP structures. In this analysis electrostatic potentials are computed and used as input for the CMC algorithm. It was shown that differences between proteins reflect genuine variation of their electrostatic potentials. In addition, the analysis has been also extended to analyze the protein primary structures and the molecular shapes of the MMP co-crystallised ligands. The CMC algorithm was shown to be a valuable tool in knowledge acquisition and transfer from MMP structures. Based on the variation of electrostatic potentials, CMC was successful in analysing the MMP target family landscape and different subsites. The first investigation resulted in rational figure interpretation of both domain organization as well as of substrate specificity classifications. The second made it possible to distinguish the MMP classes, demonstrating the high specificity of the S1' pocket, to detect both the occurrence of punctual mutations of ionisable residues and different side-chain conformations that likely account for induced-fit phenomena. In addition, CMC demonstrated a potential comparable to the most popular UPGMA (Unweighted Pair Group Method with Arithmetic mean) method that, at present, represents a standard clustering bioinformatics approach. Interestingly, CMC and UPGMA resulted in closely comparable outcomes, but often CMC produced more informative and more easy interpretable dendrograms. Finally, CMC was successful for standard pairwise analysis (i.e., Smith-Waterman algorithm) of protein sequences and was used to convincingly explain the complementarity existing between the molecular shapes of the co-crystallised ligand molecules and the accessible MMP void volumes.

Analysis and Algorithms for Imperfect Sensor Deployment and Operations

DTIC Science & Technology

2016-05-23

fortification-interdiction-routing games that take place over the traveling salesman problem (TSP) in reference 16. This study reveals that a straightforward...Journal on Optimization. 16. Lozano, L., Smith, J.C., and Kurz, M.E., Solving the Traveling Salesman Problem with Interdiction and Fortification...the Traveling Salesman Problem with Interdiction and Fortification, submitted to Operations Research Letters. Tadayon, B. and Smith, J.C., A Survey of

A comparison of free weight squat to Smith machine squat using electromyography.

PubMed

Schwanbeck, Shane; Chilibeck, Philip D; Binsted, Gordon

2009-12-01

The purpose of this experiment was to determine whether free weight or Smith machine squats were optimal for activating the prime movers of the legs and the stabilizers of the legs and the trunk. Six healthy participants performed 1 set of 8 repetitions (using a weight they could lift 8 times, i.e., 8RM, or 8 repetition maximum) for each of the free weight squat and Smith machine squat in a randomized order with a minimum of 3 days between sessions, while electromyographic (EMG) activity of the tibialis anterior, gastrocnemius, vastus medialis, vastus lateralis, biceps femoris, lumbar erector spinae, and rectus abdominus were simultaneously measured. Electromyographic activity was significantly higher by 34, 26, and 49 in the gastrocnemius, biceps femoris, and vastus medialis, respectively, during the free weight squat compared to the Smith machine squat (p < 0.05). There were no significant differences between free weight and Smith machine squat for any of the other muscles; however, the EMG averaged over all muscles during the free weight squat was 43% higher when compared to the Smith machine squat (p < 0.05). The free weight squat may be more beneficial than the Smith machine squat for individuals who are looking to strengthen plantar flexors, knee flexors, and knee extensors.

The PerkinElmer Omics Laboratory (Seventh Annual Sequencing, Finishing, Analysis in the Future (SFAF) Meeting 2012)

ScienceCinema

Smith, Todd

2017-12-22

Todd Smith of the PerkinElmer Omics Laboratory gives a talk about his lab and its work at the 7th Annual Sequencing, Finishing, Analysis in the Future (SFAF) Meeting held in June, 2012 in Santa Fe, NM.

The Planning, Implementation, and Movement of an Academic Library Collection.

ERIC Educational Resources Information Center

Kurkul, Donna Lee

1983-01-01

Discusses methodology, logistics, and time/cost study of planning, implementation, and relocation of 682,810 volume Smith College Library collection into its newly constructed and renovated facility. Call number sequence location, collection movement phasing and formulas for sequence distribution, and personnel requirements are noted. Elementary…

The PerkinElmer Omics Laboratory (Seventh Annual Sequencing, Finishing, Analysis in the Future (SFAF) Meeting 2012)

DOE Office of Scientific and Technical Information (OSTI.GOV)

Smith, Todd

2012-06-01

Todd Smith of the PerkinElmer Omics Laboratory gives a talk about his lab and its work at the 7th Annual Sequencing, Finishing, Analysis in the Future (SFAF) Meeting held in June, 2012 in Santa Fe, NM.

Practicing what we preach in humanistic and positive psychology.

PubMed

Churchill, Scott D; Mruk, Christopher J

2014-01-01

Comments on the article "The humanistic psychology-positive psychology divide: Contrasts in philosophical foundations" by Waterman (see record 2013-12501-001). With a largely backward glance cast toward humanistic psychology's early successes, Waterman's article concluded by turning toward positive psychology's "vibrant" future and pointed to irreconcilable differences that would limit further dialogue between the two fields. From the current authors' perspective, such an assessment results in premature closure on the relationship between the two subdisciplines, as we in the humanistic tradition continue to appreciate and place our trust in the power of dialogue. Psychologists on both sides of this epistemological boundary might therefore benefit from focusing on the possibilities offered by an interface between the two approaches rather than on a divide that is far more likely to push us apart. PsycINFO Database Record (c) 2014 APA, all rights reserved.

8. GENERAL VIEW FROM SOUTHEAST (Title Insurance Co. collection, San ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

8. GENERAL VIEW FROM SOUTHEAST (Title Insurance Co. collection, San Diego Historical Society). Historical view, no date, photocopied for HABS, 1975 - Long-Waterman House, 2408 First Avenue, San Diego, San Diego County, CA

Acoustic Modeling Using a Three-Dimensional Coupled-Mode Model

DTIC Science & Technology

2013-09-30

isobath. During the experiment, the R/V Walton Smith towed a source broadcasting a 2-minute sequence of signals [Heaney and Murray (2009)]. The...source was towed at a depth of 100 m as the R/V Walton Smith traveled north-northwest, parallel to the Florida coastline until it was approximately 63 km...continental shelf environment. J. Acoust. Soc. Am., 131(3): 1969 –1977, 2012. B. A. Brunson, M. M. Truxillo, and R. B. Evans. Environmental effects on low

OPTIMIZATION OF MUD HAMMER DRILLING PERFORMANCE - A PROGRAM TO BENCHMARK THE VIABILITY OF ADVANCED MUD HAMMER DRILLING

DOE Office of Scientific and Technical Information (OSTI.GOV)

Alan Black; Arnis Judzis

2003-01-01

Progress during current reporting year 2002 by quarter--Progress during Q1 2002: (1) In accordance to Task 7.0 (D. No.2 Technical Publications) TerraTek, NETL, and the Industry Contributors successfully presented a paper detailing Phase 1 testing results at the February 2002 IADC/SPE Drilling Conference, a prestigious venue for presenting DOE and private sector drilling technology advances. The full reference is as follows: IADC/SPE 74540 ''World's First Benchmarking of Drilling Mud Hammer Performance at Depth Conditions'' authored by Gordon A. Tibbitts, TerraTek; Roy C. Long, US Department of Energy, Brian E. Miller, BP America, Inc.; Arnis Judzis, TerraTek; and Alan D. Black,more » TerraTek. Gordon Tibbitts, TerraTek, will presented the well-attended paper in February of 2002. The full text of the Mud Hammer paper was included in the last quarterly report. (2) The Phase 2 project planning meeting (Task 6) was held at ExxonMobil's Houston Greenspoint offices on February 22, 2002. In attendance were representatives from TerraTek, DOE, BP, ExxonMobil, PDVSA, Novatek, and SDS Digger Tools. (3) PDVSA has joined the advisory board to this DOE mud hammer project. PDVSA's commitment of cash and in-kind contributions were reported during the last quarter. (4) Strong Industry support remains for the DOE project. Both Andergauge and Smith Tools have expressed an interest in participating in the ''optimization'' phase of the program. The potential for increased testing with additional Industry cash support was discussed at the planning meeting in February 2002. Progress during Q2 2002: (1) Presentation material was provided to the DOE/NETL project manager (Dr. John Rogers) for the DOE exhibit at the 2002 Offshore Technology Conference. (2) Two meeting at Smith International and one at Andergauge in Houston were held to investigate their interest in joining the Mud Hammer Performance study. (3) SDS Digger Tools (Task 3 Benchmarking participant) apparently has not negotiated a commercial deal with Halliburton on the supply of fluid hammers to the oil and gas business. (4) TerraTek is awaiting progress by Novatek (a DOE contractor) on the redesign and development of their next hammer tool. Their delay will require an extension to TerraTek's contracted program. (5) Smith International has sufficient interest in the program to start engineering and chroming of collars for testing at TerraTek. (6) Shell's Brian Tarr has agreed to join the Industry Advisory Group for the DOE project. The addition of Brian Tarr is welcomed as he has numerous years of experience with the Novatek tool and was involved in the early tests in Europe while with Mobil Oil. (7) Conoco's field trial of the Smith fluid hammer for an application in Vietnam was organized and has contributed to the increased interest in their tool. Progress during Q3 2002: (1) Smith International agreed to participate in the DOE Mud Hammer program. (2) Smith International chromed collars for upcoming benchmark tests at TerraTek, now scheduled for 4Q 2002. (3) ConocoPhillips had a field trial of the Smith fluid hammer offshore Vietnam. The hammer functioned properly, though the well encountered hole conditions and reaming problems. ConocoPhillips plan another field trial as a result. (4) DOE/NETL extended the contract for the fluid hammer program to allow Novatek to ''optimize'' their much delayed tool to 2003 and to allow Smith International to add ''benchmarking'' tests in light of SDS Digger Tools' current financial inability to participate. (5) ConocoPhillips joined the Industry Advisors for the mud hammer program. Progress during Q4 2002: (1) Smith International participated in the DOE Mud Hammer program through full scale benchmarking testing during the week of 4 November 2003. (2) TerraTek acknowledges Smith International, BP America, PDVSA, and ConocoPhillips for cost-sharing the Smith benchmarking tests allowing extension of the contract to add to the benchmarking testing program. (3) Following the benchmark testing of the Smith International hammer, representatives from DOE/NETL, TerraTek, Smith International and PDVSA met at TerraTek in Salt Lake City to review observations, performance and views on the optimization step for 2003. (4) The December 2002 issue of Journal of Petroleum Technology (Society of Petroleum Engineers) highlighted the DOE fluid hammer testing program and reviewed last years paper on the benchmark performance of the SDS Digger and Novatek hammers. (5) TerraTek's Sid Green presented a technical review for DOE/NETL personnel in Morgantown on ''Impact Rock Breakage'' and its importance on improving fluid hammer performance. Much discussion has taken place on the issues surrounding mud hammer performance at depth conditions.« less

ROSIE: A Programming Environment for Expert Systems

DTIC Science & Technology

1985-10-01

ence on Artificial Inteligence , Tbilisi, USSR, 1975. Fain, J., D. Gorlin, F. Hayes-Roth, S. Rosenschein, H. Sowizral, and D. Waterman, The ROSIE Language...gramming environment for artificial intelligence (AI) applications. It provides particular support for designing expert systems, systems that embody

OPTIMIZATION OF MUD HAMMER DRILLING PERFORMANCE--A PROGRAM TO BENCHMARK THE VIABILITY OF ADVANCED MUD HAMMER DRILLING

DOE Office of Scientific and Technical Information (OSTI.GOV)

Arnis Judzis

2004-07-01

This document details the progress to date on the ''OPTIMIZATION OF MUD HAMMER DRILLING PERFORMANCE--A PROGRAM TO BENCHMARK THE VIABILITY OF ADVANCED MUD HAMMER DRILLING'' contract for the quarter starting April 2004 through June 2004. The DOE and TerraTek continue to wait for Novatek on the optimization portion of the testing program (they are completely rebuilding their fluid hammer). The latest indication is that the Novatek tool would be ready for retesting only 4Q 2004 or later. Smith International's hammer was tested in April of 2004 (2Q 2004 report). Accomplishments included the following: (1) TerraTek re-tested the ''optimized'' fluid hammermore » provided by Smith International during April 2004. Many improvements in mud hammer rates of penetration were noted over Phase 1 benchmark testing from November 2002. (2) Shell Exploration and Production in The Hague was briefed on various drilling performance projects including Task 8 ''Cutter Impact Testing''. Shell interest and willingness to assist in the test matrix as an Industry Advisor is appreciated. (3) TerraTek participated in a DOE/NETL Review meeting at Morgantown on April 15, 2004. The discussions were very helpful and a program related to the Mud Hammer optimization project was noted--Terralog modeling work on percussion tools. (4) Terralog's Dr. Gang Han witnessed some of the full-scale optimization testing of the Smith International hammer in order to familiarize him with downhole tools. TerraTek recommends that modeling first start with single cutters/inserts and progress in complexity. (5) The final equipment problem on the impact testing task was resolved through the acquisition of a high data rate laser based displacement instrument. (6) TerraTek provided Novatek much engineering support for the future re-testing of their optimized tool. Work was conducted on slip ring [electrical] specifications and tool collar sealing in the testing vessel with a reconfigured flow system on Novatek's collar.« less

Inference of Markovian properties of molecular sequences from NGS data and applications to comparative genomics.

PubMed

Ren, Jie; Song, Kai; Deng, Minghua; Reinert, Gesine; Cannon, Charles H; Sun, Fengzhu

2016-04-01

Next-generation sequencing (NGS) technologies generate large amounts of short read data for many different organisms. The fact that NGS reads are generally short makes it challenging to assemble the reads and reconstruct the original genome sequence. For clustering genomes using such NGS data, word-count based alignment-free sequence comparison is a promising approach, but for this approach, the underlying expected word counts are essential.A plausible model for this underlying distribution of word counts is given through modeling the DNA sequence as a Markov chain (MC). For single long sequences, efficient statistics are available to estimate the order of MCs and the transition probability matrix for the sequences. As NGS data do not provide a single long sequence, inference methods on Markovian properties of sequences based on single long sequences cannot be directly used for NGS short read data. Here we derive a normal approximation for such word counts. We also show that the traditional Chi-square statistic has an approximate gamma distribution ,: using the Lander-Waterman model for physical mapping. We propose several methods to estimate the order of the MC based on NGS reads and evaluate those using simulations. We illustrate the applications of our results by clustering genomic sequences of several vertebrate and tree species based on NGS reads using alignment-free sequence dissimilarity measures. We find that the estimated order of the MC has a considerable effect on the clustering results ,: and that the clustering results that use a N: MC of the estimated order give a plausible clustering of the species. Our implementation of the statistics developed here is available as R package 'NGS.MC' at http://www-rcf.usc.edu/∼fsun/Programs/NGS-MC/NGS-MC.html fsun@usc.edu Supplementary data are available at Bioinformatics online. © The Author 2015. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

Measuring the distance between multiple sequence alignments.

PubMed

Blackburne, Benjamin P; Whelan, Simon

2012-02-15

Multiple sequence alignment (MSA) is a core method in bioinformatics. The accuracy of such alignments may influence the success of downstream analyses such as phylogenetic inference, protein structure prediction, and functional prediction. The importance of MSA has lead to the proliferation of MSA methods, with different objective functions and heuristics to search for the optimal MSA. Different methods of inferring MSAs produce different results in all but the most trivial cases. By measuring the differences between inferred alignments, we may be able to develop an understanding of how these differences (i) relate to the objective functions and heuristics used in MSA methods, and (ii) affect downstream analyses. We introduce four metrics to compare MSAs, which include the position in a sequence where a gap occurs or the location on a phylogenetic tree where an insertion or deletion (indel) event occurs. We use both real and synthetic data to explore the information given by these metrics and demonstrate how the different metrics in combination can yield more information about MSA methods and the differences between them. MetAl is a free software implementation of these metrics in Haskell. Source and binaries for Windows, Linux and Mac OS X are available from http://kumiho.smith.man.ac.uk/whelan/software/metal/.

Effective Business Practices Can Be Applied to Schools.

ERIC Educational Resources Information Center

DuFour, Richard P.

Despite the claims of conventional wisdom, business and education can learn from each other. An examination of "In Search of Excellence: Lessons from America's Best Run Companies," by Thomas Peters and Robert Waterman, reveals several ideas and practices that schools can use effectively. (1) A bias for action: hold daily administrative…

DELIVERING TIMELY ENVIRONMENTAL INFORMATION TO YOUR COMMUNITY: THE BOULDER AREA SUSTAINABILITY INFORMATION NETWORK: OTHER

EPA Science Inventory

NRMRL-CIN-1577 Petersen*, D., Barber, L., Dilworth, G, Fiebelkorn, T., McCaffrey, M., Murphy, S., Rudkin, C., Scott, D., and Waterman, J. Delivering Timely Environmental Information to your Community: The Boulder Area Sustainability Information Network. EPA/625/C-01/010. The Te...

Behavior Management by Walking Around

ERIC Educational Resources Information Center

Boardman, Randolph M.

2004-01-01

An emerging concept from the field of business is to manage organizations by wandering around and engaging staff and consumers in informal interactions. The author extends these ideas to settings serving children and youth. In the best seller, In Search of Excellence, Peters and Waterman (1982) introduced Management by Walking Around (MBWA) as an…

High-Resolution Functional Mapping of the Venezuelan Equine Encephalitis Virus Genome by Insertional Mutagenesis and Massively Parallel Sequencing

DTIC Science & Technology

2010-10-14

High-Resolution Functional Mapping of the Venezuelan Equine Encephalitis Virus Genome by Insertional Mutagenesis and Massively Parallel Sequencing...Venezuelan equine encephalitis virus (VEEV) genome. We initially used a capillary electrophoresis method to gain insight into the role of the VEEV...Smith JM, Schmaljohn CS (2010) High-Resolution Functional Mapping of the Venezuelan Equine Encephalitis Virus Genome by Insertional Mutagenesis and

The Effects of Travel Path and Source Structure on the Character of Regional Distance Seismograms from Nuclear Explosions

DTIC Science & Technology

1991-12-27

and had a ML of 6.4. The earthquake sequence was very energetic, having a foreshock with a ML of 5.9 and three large aftershocks measuring 5.8, 5.6...regional data-A review, Bull. Seism. Soc. Am. 72, S89-S129. Smith, K. D., and K. F. Priestley (1988). The foreshock sequence of the 1986 Chalfant

New antioxidant treatment with yerba mate ( Ilex paraguariensis) infusion for fresh-cut apples: Modeling, optimization, and acceptability.

PubMed

Rodríguez-Arzuaga, Mariana; Piagentini, Andrea M

2018-04-01

Enzymatic browning affects the sensory and nutritional quality of fresh-cut apples and limits their shelf-life. Yerba mate ( Ilex paraguariensis), a plant widely consumed in South America as an infusion, could potentially be used in minimally processed fruits and vegetables as a natural additive to prevent browning, due to its high content of phenolic compounds with antioxidant capacity. The effects of the concentrations of ascorbic acid, citric acid, and yerba mate in an aqueous dipping solution on the instrumental color parameters, antioxidant capacity, and sensory quality of "Granny Smith" fresh-cut apples were modeled and the solution was optimized to obtain treated apples with maximum antioxidant capacity and minimum browning, without affecting the natural flavor of the fruits. The optimal composition obtained (1.2% yerba mate  + 0.9% citric acid + 1.0% ascorbic acid) increased the antioxidant capacity of the apples by 36%. The sensory acceptability test carried out on the "Granny Smith" fresh-cut apples treated with the optimal dipping solution showed that more than 78% of the surveyed consumers liked the color, flavor, and texture of the apples.

[Studies on the extraction process of total saponins from Paris polyphylla Smith].

PubMed

Sun, Zhi-Guo; Zhang, Lin; Li, Ling-Jun; Tian, Jing-Kui

2007-06-01

To optimize the extraction process of total saopnins from Paris polyphylla Smith. The single factor test and orthogonal experiment were used to determine the optimum extraction process. The optimum extraction process was obtained as follows: the plant materials were extracted with 70% ethanol twice, respectively with 10BV for 2 hours and then with 8BV the solvents for 1.5 hours. The yield of total saponins could be up to 4.24% and the total extraction rate of Paris polyphylla I and Paris polyphylla II was 93.28%. The optimum process obtained is steady, reasonable and feasible.

Identity Formation Re-revisited: A Rejoinder to Waterman on Developmental and Cross-Cultural Issues.

ERIC Educational Resources Information Center

Meeus, W.; Iedema, J.; Vollebergh, W.

1999-01-01

Examines similarities and differences between American and Dutch research on identity formation and psychological well-being in adolescent and young adults. Concludes that identity development is systematically progressive and may be described with the trajectory diffusion?closure/moratorium?achieving commitment. Age differences are found in the…

Differentiating Assessment in Middle and High School Mathematics and Science

ERIC Educational Resources Information Center

Waterman, Sheryn Spencer

2009-01-01

This book by Sheryn Spencer Waterman follows the bestselling "Handbook on Differentiated Instruction for Middle and High Schools." With numerous examples and strategies, it is an all-inclusive manual on assessing student readiness, interests, learning and thinking styles. It includes examples of: (1) Pre-, Formative and Summative assessments; (2)…

Differentiating Assessment in Middle and High School English and Social Studies

ERIC Educational Resources Information Center

Waterman, Sheryn Spencer

2009-01-01

This book by Sheryn Spencer Waterman follows the bestselling "Handbook on Differentiated Instruction for Middle and High Schools." With numerous examples and strategies, it is an all-inclusive manual on assessing student readiness, interests, learning and thinking styles. It includes examples of: (1) Pre-, Formative and Summative assessments; (2)…

New Directions in Career Planning and the Workplace. Practical Strategies for Counselors.

ERIC Educational Resources Information Center

Kummerow, Jean M., Ed.

This book contains seven articles intended to help counselors guide people in career and life planning. Both new directions in career planning and new directions in the workplace are discussed. The following articles are included: "Career and Life Planning: A Personal Gyroscope in Times of Change" (Judith A. Waterman); "Career…

Critical Perspectives on Women's Literacy Education in Latin America. Essay Review.

ERIC Educational Resources Information Center

Prins, Esther

2001-01-01

Reviews works on women's literacy education in Latin America by Fink (1992), Purcell-Gates and Waterman (2000), Stromquist (1995, 1997), and van der Westen (1994). Discusses the Latin American context, critical feminist approach to literacy, implementation of Freirean pedagogy, outcomes and benefits, and gaps in the literature. (Contains 17…

Continuing Education and the Pursuit of Excellence. NCCSCE Working Paper Series.

ERIC Educational Resources Information Center

Mitchell, Helen Buss

Adapting the principles outlined in "In Search of Excellence: Lessons from America's Best Run Companies" (Thomas J. Peters and Robert H. Waterman, Jr.) to the operations of continuing education departments, this paper discusses eight rules for success and provides examples of their application. Rule One, "Bias for Action," emphasizes the…

OPTIMIZATION OF MUD HAMMER DRILLING PERFORMANCE - A PROGRAM TO BENCHMARK THE VIABILITY OF ADVANCED MUD HAMMER DRILLING

DOE Office of Scientific and Technical Information (OSTI.GOV)

Gordon Tibbitts; Arnis Judzis

2002-07-01

This document details the progress to date on the OPTIMIZATION OF MUD HAMMER DRILLING PERFORMANCE -- A PROGRAM TO BENCHMARK THE VIABILITY OF ADVANCED MUD HAMMER DRILLING contract for the quarter starting April 2002 through June 2002. Even though we are awaiting the optimization portion of the testing program, accomplishments include the following: (1) Presentation material was provided to the DOE/NETL project manager (Dr. John Rogers) for the DOE exhibit at the 2002 Offshore Technology Conference. (2) Two meeting at Smith International and one at Andergauge in Houston were held to investigate their interest in joining the Mud Hammer Performancemore » study. (3) SDS Digger Tools (Task 3 Benchmarking participant) apparently has not negotiated a commercial deal with Halliburton on the supply of fluid hammers to the oil and gas business. (4) TerraTek is awaiting progress by Novatek (a DOE contractor) on the redesign and development of their next hammer tool. Their delay will require an extension to TerraTek's contracted program. (5) Smith International has sufficient interest in the program to start engineering and chroming of collars for testing at TerraTek. (6) Shell's Brian Tarr has agreed to join the Industry Advisory Group for the DOE project. The addition of Brian Tarr is welcomed as he has numerous years of experience with the Novatek tool and was involved in the early tests in Europe while with Mobil Oil. (7) Conoco's field trial of the Smith fluid hammer for an application in Vietnam was organized and has contributed to the increased interest in their tool.« less

Provenance and petrofacies, Upper Devonian sandstones, Philip Smith Mountains and Arctic quandrangles, Brooks Range, Alaska: Final report, Project No. 3

DOE Office of Scientific and Technical Information (OSTI.GOV)

Anderson, A.V.; Coney, P.J.

1987-11-01

Late Devonian sandstone beds are exposed as allochthonous sequences that extend for over 1000 km along the east-west strike of the Brooks Range in northern Alaska. These horizons, at least in part, record Late Devonian tectonism and deposition along the southern margin of the Arctic Alaska block. This study identifies clastic petrofacies in the western Philip Smith Mountains and southern Arctic quadrangles and infers the composition of the source terrane. The paleogeography is not known and the original distribution of lithofacies is uncertain, owing to the extensive post-depositional tectonism. In the study area the sandstones are exposed along rugged mountainmore » tops and high ridges. Although exposures are excellent, access is often difficult. Samples were collected from exposures near the western end of the Chandalar Shelf, Atigun Pass, and the Atigun River valley in the Philip Smith Mountains quadrangle and from the Crow Nest Creek and Ottertail Creek areas in the Arctic quadrangle. 34 refs., 17 figs.« less

The Relationship between U.S. Teachers' Attitudes and Frequency of Principals' Walk-Throughs

ERIC Educational Resources Information Center

Mounts, Samia Sayegh

2009-01-01

Peters and Waterman (1982) viewed management by walking around (MBWA) excellence in leadership. Administrators in the education community face many challenges stemming from not spending enough time in classrooms to gain understanding and insight into what goes on in the classroom. The intent of the present descriptive, cross-sectional study was to…

AGOR 28: SIO Shipyard Representative Bi-Weekly Progress Report

DTIC Science & Technology

2013-05-10

WATERMAN SUPPLY)(R/ASR) 368/0 AGOR27 A035- 09 STD Report - FAILURE MODE EFFECT ANALYSIS ( FMEA ) AND DESIGN VERIFCATION TEST PROCEDURE (DVTP) (DI-035-09... FMEA & DVTP - Multidrives)(R/ASR) 4/0 AGOR27 A006- 08 STD Report - PURCHASE ORDER (PO) INDEX ( PO INDEX 4-26- 13) 37/0 AGOR28 A006- 08 STD

Exploring the Sums of Powers of Consecutive q-Integers

ERIC Educational Resources Information Center

Kim, T.; Ryoo, C. S.; Jang, L. C.; Rim, S. H.

2005-01-01

The Bernoulli numbers are among the most interesting and important number sequences in mathematics. They first appeared in the posthumous work "Ars Conjectandi" (1713) by Jacob Bernoulli (1654-1705) in connection with sums of powers of consecutive integers (Bernoulli, 1713; or Smith, 1959). Bernoulli numbers are particularly important in number…

Postcolonial Appalachia: Bhabha, Bakhtin, and Diane Gilliam Fisher's "Kettle Bottom"

ERIC Educational Resources Information Center

Stevenson, Sheryl

2006-01-01

Diane Gilliam Fisher's 2004 award-winning book of poems, "Kettle Bottom," offers students a revealing vantage point for seeing Appalachian regional culture in a postcolonial context. An artful and accessible poetic sequence that was selected as the 2005 summer reading for entering students at Smith College, "Kettle Bottom"…

Template Based Design of Anti-Metastatic Drugs from the Active Conformation of Laminin Peptide II

DTIC Science & Technology

2001-01-01

p40 (LBP/p40) gene Maeda, M., Kawasaki, K., Mu, Y., Kamada, H., during sea urchin development. Exp. Cell Res. 221, Tsutsumi, Y., Smith, T. J. & Mayumi...represents the average of six replicates + SEM . minance of putative heparin-binding phage recov- ered from elution with peptide 11. Putative heparin...scrambled sequence peptide, WAQADSTPE, was used as a sequence specificity control. The data shown is the average of six replicate wells ± SEM . Statistics were

Striving for Excellence: Applications of Successful Business Principles. Ideas for Action in Education and Work.

ERIC Educational Resources Information Center

Owens, Tom

Eight principles that have been used to reach excellence in business and industry and ways that schools can apply those principles are described. The principles, identified by Thomas J. Peters and Robert N. Waterman, Jr. in "In Search of Excellence: Lessons from America's Best-Run Companies" are: (1) a bias for action (not waiting for…

In Search of Excellence--For Ordinary People. [Parts 1 and 2]. Innovation Abstracts, Volume VI, Numbers 22 and 32.

ERIC Educational Resources Information Center

DeHart, A. Robert

1984-01-01

"In Search of Excellence," by Peters and Waterman identifies one characteristic of corporate excellence as "unusual effort on the part of apparently ordinary employees." The community college has many students who fit into the category of "ordinary people." Their academic performance can be maximized by recognizing their individual differences,…

The Pitfalls of Valenced Labels and the Benefits of Properly Calibrated Psychological Flexibility

ERIC Educational Resources Information Center

McNulty, James K.; Fincham, Frank D.

2012-01-01

Replies to comments by Sonja Lyubomirsky (see record 2012-27130-008), Riva Guiseppe (see record 2012-27130-009), and Alan S. Waterman (see record 2012-27130-010) on the original article by McNulty and Fincham (see record 2011-15476-001) regarding the pitfalls of valenced labels and the benefits of properly calibrated psychological flexibility.

Reading and Reality. Proceedings of the Annual Reading Conference (14th, Terre Haute, Indiana, June 14, 1984).

ERIC Educational Resources Information Center

Gibbs, Vanita M., Comp.; Waterman, David C., Comp.

Intended for reading teachers, this pamphlet contains the presentations of the 14th annual reading conference at Indiana State University, beginning with opening remarks by David C. Waterman and welcoming comments by J. Stephen Hazlett. In the opening address, "What Good is Comprehension without Composition?" by Sharon and David Moore, the role of…

The integrated manual and automatic control of complex flight systems

NASA Technical Reports Server (NTRS)

Schmidt, D. K.

1985-01-01

Pilot/vehicle analysis techniques for optimizing aircraft handling qualities are presented. The analysis approach considered is based on the optimal control frequency domain techniques. These techniques stem from an optimal control approach of a Neal-Smith like analysis on aircraft attitude dynamics extended to analyze the flared landing task. Some modifications to the technique are suggested and discussed. An in depth analysis of the effect of the experimental variables, such as prefilter, is conducted to gain further insight into the flared land task for this class of vehicle dynamics.

Multiple mobile promoter regions for the rare carbapenem resistance gene of Bacteroides fragilis.

PubMed

Podglajen, I; Breuil, J; Rohaut, A; Monsempes, C; Collatz, E

2001-06-01

Two novel insertion sequences (IS), IS1187 and IS1188, are described upstream from the carbapenem resistance gene cfiA in strains of Bacteroides fragilis. Mapping, with the RACE procedure, of transcription start sites of cfiA in these and two other previously reported IS showed that transcription of this rarely encountered gene is initiated close to a variety of B. fragilis consensus promoter sequences, as recently defined (D. P. Bayley, E. R. Rocha, and C. J. Smith, FEMS Microbiol. Lett. 193:149-154, 2000). In the cases of IS1186 and IS1188, these sequences overlap with putative Esigma(70) promoter sequences, while in IS942 and IS1187 such sequences can be observed either upstream or downstream of the B. fragilis promoters.

Excellence in the Surface Coast Guard.

DTIC Science & Technology

1984-12-01

about succesful business organizations in their book, IN SEARCH OF EXCELLENCE. What Peters and Waterman called "Productivity through People ", we talked as... PEOPLE HAVE THE RIGHT STUFF--------- 23 E. A GOOD SHIP LOOKS GOOD--------------------- 25 F. TRAINING THE TROOPS------------------------ 26 TV. THE...8217~. ~ . h ~ * ~ * ACKNOWLEDGEMENTS The authors would like to thank the many Coast Guard - officers and enlisted people who took the time and effort to talk

Preliminary Work for Examining the Scalability of Reinforcement Learning

NASA Technical Reports Server (NTRS)

Clouse, Jeff

1998-01-01

Researchers began studying automated agents that learn to perform multiple-step tasks early in the history of artificial intelligence (Samuel, 1963; Samuel, 1967; Waterman, 1970; Fikes, Hart & Nilsonn, 1972). Multiple-step tasks are tasks that can only be solved via a sequence of decisions, such as control problems, robotics problems, classic problem-solving, and game-playing. The objective of agents attempting to learn such tasks is to use the resources they have available in order to become more proficient at the tasks. In particular, each agent attempts to develop a good policy, a mapping from states to actions, that allows it to select actions that optimize a measure of its performance on the task; for example, reducing the number of steps necessary to complete the task successfully. Our study focuses on reinforcement learning, a set of learning techniques where the learner performs trial-and-error experiments in the task and adapts its policy based on the outcome of those experiments. Much of the work in reinforcement learning has focused on a particular, simple representation, where every problem state is represented explicitly in a table, and associated with each state are the actions that can be chosen in that state. A major advantage of this table lookup representation is that one can prove that certain reinforcement learning techniques will develop an optimal policy for the current task. The drawback is that the representation limits the application of reinforcement learning to multiple-step tasks with relatively small state-spaces. There has been a little theoretical work that proves that convergence to optimal solutions can be obtained when using generalization structures, but the structures are quite simple. The theory says little about complex structures, such as multi-layer, feedforward artificial neural networks (Rumelhart & McClelland, 1986), but empirical results indicate that the use of reinforcement learning with such structures is promising. These empirical results make no theoretical claims, nor compare the policies produced to optimal policies. A goal of our work is to be able to make the comparison between an optimal policy and one stored in an artificial neural network. A difficulty of performing such a study is finding a multiple-step task that is small enough that one can find an optimal policy using table lookup, yet large enough that, for practical purposes, an artificial neural network is really required. We have identified a limited form of the game OTHELLO as satisfying these requirements. The work we report here is in the very preliminary stages of research, but this paper provides background for the problem being studied and a description of our initial approach to examining the problem. In the remainder of this paper, we first describe reinforcement learning in more detail. Next, we present the game OTHELLO. Finally we argue that a restricted form of the game meets the requirements of our study, and describe our preliminary approach to finding an optimal solution to the problem.

Cirrus: Inducing Subject Models from Protocol Data

DTIC Science & Technology

1988-08-16

behavior scientists, and more recently, by knowledge engineers who wish to embed the knowledge of human experts in an expert system. However, protocol...analysis is notoriously difficult and time comsuming . Several systems have been developed to aid in protocol analysis. Waterman and Newell (1971, 1973...developed a system that could read the natural langauge of the protocol and produce a formal trace of it (a problem behavior graph). The system, however

Genie: An Inference Engine with Applications to Vulnerability Analysis.

DTIC Science & Technology

1986-06-01

Stanford Artifcial intelligence Laboratory, 1976. 15 D. A. Waterman and F. Hayes-Roth, eds. Pattern-Directed Inference Systems. Academic Press, Inc...Continue an reverse aide It nlecessary mid Identify by block rnmbor) ; f Expert Systems Artificial Intelligence % Vulnerability Analysis Knowledge...deduction it is used wherever possible in data -driven mode (forward chaining). Production rules - JIM 0 g79OOFMV55@S I INCLASSTpnF SECURITY CLASSIFICATION OF

Gender differences in the self-defining activities and identity experiences of adolescents and emerging adults.

PubMed

Sharp, Erin Hiley; Coatsworth, J Douglas; Darling, Nancy; Cumsille, Patricio; Ranieri, Sonia

2007-04-01

Activity participation provides a unique context for adolescents and emerging adults to explore interests, talents, and skills and for identity work to occur. Research has found consistent gender differences in the types of activities in which males and females participate. The current study drew on Eudaimonistic identity theory to examine the subjective identity-related experiences of personal expressiveness, flow experiences, and goal-directed behaviour [Waterman, 1984; Waterman, 2004. Finding someone to be: Studies on the role of intrinsic motivation in identity formation. Identity, 4, 209-228] within a special type of activity, self-defining activities, or those activities that participants identify as being important to who they are as a person. This study also tested for gender and country differences in a sample of 572 adolescents and emerging adults from the United States, Italy, and Chile. Findings indicate gender and country differences in the types of self-defining activities for males and females, but no gender differences in the reported identity-related experiences within those activities. This finding held across the three countries. Results from Multivariate Analyses of Variance also indicate that identity-related experiences differ significantly across seven broad activity classes. Findings are discussed in the context of the growing literature on adolescent activity involvement and time use, gender, and their relations to identity exploration.

Common Aero Vehicle Autonomous Reentry Trajectory Optimization Satisfying Waypoint and No-Fly Zone Constraints

DTIC Science & Technology

2007-09-01

Control Conference and Exhibit. 5-8 August 2002. AIAA-2002-4457. 25. ElGindy, Hossam and Lachlan Wetherall. “A Simple Voronoi Diagram Algorithm for a...Jacobs, Thomas H., Elan T. Smith , and Michael W. Garrambone. “Space Ac- cess Vehicles Mission and Operations Simulation (SAVMOS) For Simulating

Development of antibrowning and antimicrobial formulations to minimize listeria monocytogenes contamination and inhibit browning of fresh-cut "Granny Smith" apples

USDA-ARS?s Scientific Manuscript database

In recent years, there have been a number of Listeria monocytogenes recalls involving fresh-cut apples, probably contaminated during treatments with antibrowning solutions. In the present study, we used response surface methodology to develop and optimize formulations for reducing L. monocytogenes ...

Analysis of neighborhood behavior in lead optimization and array design.

PubMed

Papadatos, George; Cooper, Anthony W J; Kadirkamanathan, Visakan; Macdonald, Simon J F; McLay, Iain M; Pickett, Stephen D; Pritchard, John M; Willett, Peter; Gillet, Valerie J

2009-02-01

Neighborhood behavior describes the extent to which small structural changes defined by a molecular descriptor are likely to lead to small property changes. This study evaluates two methods for the quantification of neighborhood behavior: the optimal diagonal method of Patterson et al. and the optimality criterion method of Horvath and Jeandenans. The methods are evaluated using twelve different types of fingerprint (both 2D and 3D) with screening data derived from several lead optimization projects at GlaxoSmithKline. The principal focus of the work is the design of chemical arrays during lead optimization, and the study hence considers not only biological activity but also important drug properties such as metabolic stability, permeability, and lipophilicity. Evidence is provided to suggest that the optimality criterion method may provide a better quantitative description of neighborhood behavior than the optimal diagonal method.

22. RW Meyer Sugar Mill: 18761889. Sorghum Pan. Manufactured by ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

22. RW Meyer Sugar Mill: 1876-1889. Sorghum Pan. Manufactured by John Nott & Co., Honolulu, Hawaii, 1878. View: Historical view, 1934, T.T. Waterman Collection, Hawaiian Sugar Planters' Association, Oahu, Hawaii. View looking toward east end of sorghum pan and interior of east end of the boiling house. Walls and final compartment of the sorghum pan are still intact. - R. W. Meyer Sugar Mill, State Route 47, Kualapuu, Maui County, HI

Optimizing a Synthetic Signaling System, Using Mathematical Modeling to Direct Experimental Work

DTIC Science & Technology

2014-09-05

Journal of Experimental Botany 53, 1871-1877, doi:10.1093/jxb/erf050 (2002). 52 Looger, L. L., Dwyer, M. A., Smith, J. J. & Hellinga, H. W...P. F., Christie, J. M. & Terry, M. J. Many hands make light work. Journal of Experimental Botany 58, 3071-3077, doi:10.1093/jxb/erm251 (2007).

Applications of Polarimetric Radar to the Hydrometeorology of Urban Floods in St. Louis

NASA Astrophysics Data System (ADS)

Chaney, M. M.; Smith, J. A.; Baeck, M. L.

2017-12-01

Predicting and responding to flash flooding requires accurate spatial and temporal representation of rainfall rates. The polarimetric upgrade of all US radars has led to optimism about more accurate rainfall rate estimation from the NEXRAD network of WSR-88D radars in the US. Previous work has proposed different algorithms to do so, but significant uncertainties remain, especially for extreme short-term rainfall rates that control flash floods in urban settings. We will examine the relationship between radar rainfall estimates and gage rainfall rates for a catalog of 30 storms in St. Louis during the period of polarimetric radar measurements, 2012-2016. The storms are selected to provide a large sample of extreme rainfall measurements at the 15-minute to 3-hour time scale. A network of 100 rain gages and a lack of orographic or coastal effects make St. Louis an interesting location to study these relationships. A better understanding of the relationships between polarimetric radar measurements and gage rainfall rates will aid in refining polarimetric radar rainfall algorithms, in turn helping hydrometeorologists predict flash floods and other hazards associated with severe rainfall. Given the fact that St. Louis contains some of the flashiest watersheds in the United States (Smith and Smith, 2015), it is an especially important urban area in which to have accurate, real-time rainfall data. Smith, Brianne K, and James A Smith. "The Flashiest Watersheds in the Contiguous United States." American Meteorological Society (2015): 2365-2381. Web.

Investigation on Toxins and Venoms by Novel MS Techniques. Mass Spectral Investigations on Blue-Green Algal Toxic Peptides and Other Toxins

DTIC Science & Technology

1990-08-15

the same sequences and chira Jies of the amino acids as reported earlier in other microcystins."’ ’ All contain two variant amino acids in the L... Williams , D. H.; Santikarn, S.; Smith, R. J.; Hammond, S. J., Chem. Soc. Perkin Tran., 1984, 2311. 2. Marfey, P. Carlsberg Res. Commun., 1984, 49, 591

DOE Office of Scientific and Technical Information (OSTI.GOV)

Brigantic, Robert T.; Papatyi, Anthony F.; Perkins, Casey J.

This report summarizes a study and corresponding model development conducted in support of the United States Pacific Command (USPACOM) as part of the Federal Energy Management Program (FEMP) American Reinvestment and Recovery Act (ARRA). This research was aimed at developing a mathematical programming framework and accompanying optimization methodology in order to simultaneously evaluate energy efficiency (EE) and renewable energy (RE) opportunities. Once developed, this research then demonstrated this methodology at a USPACOM installation - Camp H.M. Smith, Hawaii. We believe this is the first time such an integrated, joint EE and RE optimization methodology has been constructed and demonstrated.

Application Characterization at Scale: Lessons learned from developing a distributed Open Community Runtime system for High Performance Computing

DOE Office of Scientific and Technical Information (OSTI.GOV)

Landwehr, Joshua B.; Suetterlein, Joshua D.; Marquez, Andres

2016-05-16

Since 2012, the U.S. Department of Energy’s X-Stack program has been developing solutions including runtime systems, programming models, languages, compilers, and tools for the Exascale system software to address crucial performance and power requirements. Fine grain programming models and runtime systems show a great potential to efficiently utilize the underlying hardware. Thus, they are essential to many X-Stack efforts. An abundant amount of small tasks can better utilize the vast parallelism available on current and future machines. Moreover, finer tasks can recover faster and adapt better, due to a decrease in state and control. Nevertheless, current applications have been writtenmore » to exploit old paradigms (such as Communicating Sequential Processor and Bulk Synchronous Parallel processing). To fully utilize the advantages of these new systems, applications need to be adapted to these new paradigms. As part of the applications’ porting process, in-depth characterization studies, focused on both application characteristics and runtime features, need to take place to fully understand the application performance bottlenecks and how to resolve them. This paper presents a characterization study for a novel high performance runtime system, called the Open Community Runtime, using key HPC kernels as its vehicle. This study has the following contributions: one of the first high performance, fine grain, distributed memory runtime system implementing the OCR standard (version 0.99a); and a characterization study of key HPC kernels in terms of runtime primitives running on both intra and inter node environments. Running on a general purpose cluster, we have found up to 1635x relative speed-up for a parallel tiled Cholesky Kernels on 128 nodes with 16 cores each and a 1864x relative speed-up for a parallel tiled Smith-Waterman kernel on 128 nodes with 30 cores.« less

Brian Smith | NREL

Science.gov Websites

Smith Photo of Brian Smith Brian Smith Laboratory Program Manager II - Mechanical Engineering Brian.Smith@nrel.gov | 303-384-6911 Brian Smith is Partnership Manager for the NWTC and focuses on portfolio

1. RW Meyer Sugar Mill: 18761889. Threeroll sugar mill: oneton ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

1. RW Meyer Sugar Mill: 1876-1889. Three-roll sugar mill: one-ton daily processing capacity. Manufactured by Edwin Maw, Liverpool, England, ca. 1855-1870. View: Historical view, 1934, from T.T. Waterman collection, Hawaiian Sugar Planters' Association. Large rectangular piece lying in front of the mill is the top of the mill frame appearing in its proper place in 1928 views. - R. W. Meyer Sugar Mill, State Route 47, Kualapuu, Maui County, HI

Kristin Smith | NREL

Science.gov Websites

Smith Photo of Kristin Smith Kristin Smith Thermochemical Process Design Engineer Kristin.Smith @nrel.gov | 303-384-7877 Orcid ID http://orcid.org/0000-0001-6397-031X Research Interests Kristin Smith is a

77 FR 4973 - Endangered and Threatened Wildlife and Plants; 90-Day Finding on a Petition to List the San...

Federal Register 2010, 2011, 2012, 2013, 2014

2012-02-01

... arboreal lichens and vegetation (Hall 1991, p. 616, Pyare and Longland 2001, p. 684; Smith 2007, p. 869...'s habitat seems to be related to conditions that are optimal for nesting and provide an ample supply... nonclimate conditions (e.g., habitat fragmentation). We use our expert judgment to weigh relevant information...

College Students and Academic Performance: A Case of Taking Control

ERIC Educational Resources Information Center

Mansfield, Phylis M.; Pinto, Mary Beth; Parente, Diane H.; Wortman, Thomas I.

2004-01-01

College students face a myriad of pressures and challenges in the academic environment as they seek to maintain optimal performance or even to remain in the academic program. In 2002, it was reported that more than 30% of first-year students did not return for their second year of college (Smith), and only 40% are reported to actually compete…

College Students and Academic Performance: A Case of Taking Control

ERIC Educational Resources Information Center

Mansfield, Phylis M.; Pinto, Mary Beth; Parente, Diane H.; Wortman, Thomas I.

2009-01-01

College students face a myriad of pressures and challenges in the academic environment as they seek to maintain optimal performance or even to remain in the academic program. In 2002, it was reported that more than 30% of first-year students did not return for their second year of college (Smith), and only 40% are reported to actually compete…

Gas-liquid mass transfer and flow phenomena in the Peirce-Smith converter: a water model study

NASA Astrophysics Data System (ADS)

Zhao, Xing; Zhao, Hong-liang; Zhang, Li-feng; Yang, Li-qiang

2018-01-01

A water model with a geometric similarity ratio of 1:5 was developed to investigate the gas-liquid mass transfer and flow characteristics in a Peirce-Smith converter. A gas mixture of CO2 and Ar was injected into a NaOH solution bath. The flow field, volumetric mass transfer coefficient per unit volume ( Ak/V; where A is the contact area between phases, V is the volume, and k is the mass transfer coefficient), and gas utilization ratio ( η) were then measured at different gas flow rates and blow angles. The results showed that the flow field could be divided into five regions, i.e., injection, strong loop, weak loop, splashing, and dead zone. Whereas the Ak/V of the bath increased and then decreased with increasing gas flow rate, and η steadily increased. When the converter was rotated clockwise, both Ak/V and η increased. However, the flow condition deteriorated when the gas flow rate and blow angle were drastically increased. Therefore, these parameters must be controlled to optimal conditions. In the proposed model, the optimal gas flow rate and blow angle were 7.5 m3·h-1 and 10°, respectively.

Molecular Characterization of Wetland Soil Bacterial Community in Constructed Mesocosms

DTIC Science & Technology

2006-06-01

promise. In order to better understand this process and test its legitimacy, a treatment wetland was constructed at Wright-Patterson AFB, Dayton, Ohio...fruition. Dr. Smith, without your patient instruction in the process of DNA extraction, PCR amplification, cloning, sequencing, and analysis those...then, wetlands have also been designed and constructed to treat process waters from industry (Kadlec and Knight, 1996) and are being used more and

Thrust stand evaluation of engine performance improvement algorithms in an F-15 airplane

NASA Technical Reports Server (NTRS)

Conners, Timothy R.

1992-01-01

Results are presented from the evaluation of the performance seeking control (PSC) optimization algorithm developed by Smith et al. (1990) for F-15 aircraft, which optimizes the quasi-steady-state performance of an F100 derivative turbofan engine for several modes of operation. The PSC algorithm uses onboard software engine model that calculates thrust, stall margin, and other unmeasured variables for use in the optimization. Comparisons are presented between the load cell measurements, PSC onboard model thrust calculations, and posttest state variable model computations. Actual performance improvements using the PSC algorithm are presented for its various modes. The results of using PSC algorithm are compared with similar test case results using the HIDEC algorithm.

Interactions between Artificial Gravity, Affected Physiological Systems, and Nutrition

NASA Technical Reports Server (NTRS)

Heer, Martina; Baecker, Natalie; Zwart, Sara; Smith, Scott M.

2007-01-01

Malnutrition, either by insufficient supply of some nutrients or by overfeeding has a profound effect on the health of an organism. Therefore, optimal nutrition is mandatory on Earth (1 g), in microgravity and also when applying artificial gravity to the human system. Immobilization like in microgravity or bed rest also has a profound effect on different physiological systems, like body fluid regulation, the cardiovascular, the musculoskeletal, the immunological system and others. Up to now there is no countermeasure available which is effective to counteract cardiovascular deconditioning (rf. Chapter 5) together with maintenance of the musculoskeletal system in a rather short period of time. Gravity seems therefore to be one of the main stimuli to keep these systems and application of certain duration of artificial gravity per day by centrifugation has often been proposed as a very potential countermeasure against the weakening of the physiological systems. Up to now, neither optimal intensity nor optimal length of application of artificial gravity has been studied sufficiently to recommend a certain, effective and efficient protocol. However, as shown in chapter 5 on cardiovascular system, in chapter 6 on the neuromuscular system and chapter 7 (bone and connective system) artificial gravity has a very high potential to counteract any degradation caused by immobilization. But, nutrient supply -which ideally should match the actual needs- will interact with these changes and therefore has also to be taken into account. It is well known that astronauts beside the Skylab missions- were and are still not optimally nourished during their stay in space (Bourland et al. 2000;Heer et al. 1995;Heer et al. 2000b;Smith et al. 1997;Smith & Lane 1999;Smith et al. 2001;Smith et al. 2005). It has also been described anecdotally that astronauts have lower appetites. One possible explanation could be altered taste and smell sensations during space flight, although in some early space flights no significant changes were found (Heidelbaugh et al. 1968;Watt et al. 1985). However, data from a recent head-down bed rest study showed significant decrease in smell sensation (Enck et al. unpublished data) suggesting that fluid shifts might have an impact. If this holds true and which has to be validated in further studies, this seems to play an important role for lowered food intake causing insufficient energy intake and subsequently insufficient supply of most of the macro- and micronutrients. Other nutrients are taken in excess, for example sodium. As it is very well known from daily food consumption especially premanufactured food with high salt content seems to be more palatable than that with low salt content. Salt also functions as preservation which is very important taking into account the space food system limitations (i.e., lack of refrigerators and freezers). The preference for food with high salt intake by astronauts might therefore very likely be caused by altered smell and taste sensations in microgravity.

36 CFR 292.62 - Valid existing rights.

Code of Federal Regulations, 2010 CFR

2010-07-01

... RECREATION AREAS Smith River National Recreation Area § 292.62 Valid existing rights. (a) Definition. For the... “wild” segments of the Wild and Scenic Smith River, Middle Fork Smith River, North Fork Smith River, Siskiyou Fork Smith River, South Fork Smith River, and their designated tributaries, except Peridotite...

Development of a Heuristic Knowledge Base for the Selection of Applicable or Relevant and Appropriate Environmental Requirements

DTIC Science & Technology

1992-09-01

David King. Expert Systems: Artificial Intelligence in Bins. New York: John Wiley and Sons Inc., 1985. 10. Hayes-Roth, Frederick, Donald A. Waterman...Technology (AU), Wright-Patterson AFB, OH, July 1992. 26. Simmons, Asa B. and Steven G. Chappel. " Artificial Intelligence - Defini- tion and Practice," IEEE...information on treatment standards is through the publication of the CERCLA Compane With Other Laws Manual and the Co endium of CERCIA ARARs Fact Sheets

A Study to Determine Patient Preferences for Primary Care at Dwight David Eisenhower Army Medical Center

DTIC Science & Technology

1986-06-12

Sacramento, California (1977). 18 Philip Kotler and Roberta N. Clarke, "Creating the Responsive Organization." Healthcare Forum 2 (3) (May/June 1986), p. 30...19 Philip Kotler and Roberta N. Clarke, "Creating the Responsive Organization." Healthcare Forum 2 (3) (May/June 1986), p. 32. 20 Thomas J. Peters...and Robert H.Waterman, Jr. IarchQo xcelenc. New York: Warner Books, 1984. 21 Philip Kotler and Roberta N. Clarke, "Creating the Responsive Organization

75 FR 41922 - Notice of Intent To Rule on Request To Release Airport Property at Fort Smith Regional Airport...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-07-19

... To Release Airport Property at Fort Smith Regional Airport, Fort Smith, AR AGENCY: Federal Aviation... rule and invites public comment on the release of land at Fort Smith Regional Airport under the.... John Parker, Airport Director, Fort Smith Regional Airport, at the following address: Fort Smith...

Interacting Brain Modules for Memory: An Adaptive Representations Architecture

DTIC Science & Technology

2008-06-01

term intention goal is to satisfy hunger . This decision will be passed back to the prefrontal cortex and forwarded to more motor planning areas...continues until the first action of the sequence is decided upon, perhaps rising from a chair. The medium term goal of hunger satiation remains. The... Neuropsychology , 20, 451-486. Smith, L., & Gasser, M. (2005). The development of embodied cognition: Six lessons from babies. Artificial Life, 11, 13

Optimal decision making modeling for copper-matte Peirce-Smith converting process by means of data mining

NASA Astrophysics Data System (ADS)

Song, Yanpo; Peng, Xiaoqi; Tang, Ying; Hu, Zhikun

2013-07-01

To improve the operation level of copper converter, the approach to optimal decision making modeling for coppermatte converting process based on data mining is studied: in view of the characteristics of the process data, such as containing noise, small sample size and so on, a new robust improved ANN (artificial neural network) modeling method is proposed; taking into account the application purpose of decision making model, three new evaluation indexes named support, confidence and relative confidence are proposed; using real production data and the methods mentioned above, optimal decision making model for blowing time of S1 period (the 1st slag producing period) are developed. Simulation results show that this model can significantly improve the converting quality of S1 period, increase the optimal probability from about 70% to about 85%.

Targeting legume loci: A comparison of three methods for target enrichment bait design in Leguminosae phylogenomics.

PubMed

Vatanparast, Mohammad; Powell, Adrian; Doyle, Jeff J; Egan, Ashley N

2018-03-01

The development of pipelines for locus discovery has spurred the use of target enrichment for plant phylogenomics. However, few studies have compared pipelines from locus discovery and bait design, through validation, to tree inference. We compared three methods within Leguminosae (Fabaceae) and present a workflow for future efforts. Using 30 transcriptomes, we compared Hyb-Seq, MarkerMiner, and the Yang and Smith (Y&S) pipelines for locus discovery, validated 7501 baits targeting 507 loci across 25 genera via Illumina sequencing, and inferred gene and species trees via concatenation- and coalescent-based methods. Hyb-Seq discovered loci with the longest mean length. MarkerMiner discovered the most conserved loci with the least flagged as paralogous. Y&S offered the most parsimony-informative sites and putative orthologs. Target recovery averaged 93% across taxa. We optimized our targeted locus set based on a workflow designed to minimize paralog/ortholog conflation and thus present 423 loci for legume phylogenomics. Methods differed across criteria important for phylogenetic marker development. We recommend Hyb-Seq as a method that may be useful for most phylogenomic projects. Our targeted locus set is a resource for future, community-driven efforts to reconstruct the legume tree of life.

Structural Rearrangements in DNA Repair Genes in Breast Cancer

DTIC Science & Technology

2013-10-01

number was measured with the CNV assay from Q biomarkers using a stable region on Chr17 as a control. A line highlights the normal 2 copies. Black...Tanner M, Stokke T, Chen L, Smith HS, Pinkel D, Gray JW, Waldman FM. Detection and mapping of amplified DNA sequences in breast cancer by comparative...1850703 3. Isola JJ, Kallioniemi OP, Chu LW, Fuqua SA, Hilsenbeck SG, Osborne CK, Waldman FM. Genetic aberrations detected by comparative genomic

77 FR 58181 - Power Resources, Inc., Smith Ranch Highland Uranium Project; License Renewal Request, Opportunity...

Federal Register 2010, 2011, 2012, 2013, 2014

2012-09-19

... NUCLEAR REGULATORY COMMISSION [Docket No. 04008964, NRC-2012-0214] Power Resources, Inc., Smith... available in ADAMS) is provided the first time that a document is referenced. The Smith Ranch Highland... (Smith Ranch Technical Report); Accession No. ML12234A539 (Smith Ranch Environmental Report). In addition...

77 FR 13593 - PowerSmith Cogeneration Project, LP; Notice of Request for Waiver

Federal Register 2010, 2011, 2012, 2013, 2014

2012-03-07

...] PowerSmith Cogeneration Project, LP; Notice of Request for Waiver Take notice that on February 27, 2012... CFR 292.205(c), PowerSmith Cogeneration Project, LP (PowerSmith) filed a Request for Waiver, for... Regulations for the topping- cycle cogeneration facility owned and operated by PowerSmith located in Oklahoma...

78 FR 23845 - Drawbridge Operation Regulations; Narrow Bay, Smith Point, NY

Federal Register 2010, 2011, 2012, 2013, 2014

2013-04-23

... Operation Regulations; Narrow Bay, Smith Point, NY AGENCY: Coast Guard, DHS. ACTION: Notice of temporary... deviation from the regulation governing the operation of the Smith Point Bridge, mile 6.1, across Narrow Bay, between Smith Point and Fire Island, New York. The deviation is necessary to facilitate the Smith Point...

7. RW Meyer Sugar Mill: 18761889. Engine and boiler house; ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

7. RW Meyer Sugar Mill: 1876-1889. Engine and boiler house; ca. 1881. Simple, single-cylinder, horizontal, reciprocating steam engine, model No. 1, 5' x 10', 6 hp, 175 rpm. Manufactured by Ames Iron Works, Oswego, New York, 1879. View: Historical view, 1934, from T. T. Waterman collection, Hawaiian Sugar Planters' Association. View shows interior of engine and boiler house intact. The steam-feed pipe is still attached to throttle valve, not the case in 1978 view. - R. W. Meyer Sugar Mill, State Route 47, Kualapuu, Maui County, HI

Characterizing avulsion stratigraphy in ancient alluvial deposits

NASA Astrophysics Data System (ADS)

Jones, H. L.; Hajek, E. A.

2007-11-01

Guidelines for identifying ancient avulsion deposits were set forth by Kraus and Wells [Kraus, M.J., Wells, T.M., 1999. Recognizing avulsion deposits in the ancient stratigraphical record. In: Smith, N.D., Rogers, J. (Eds.), Fluvial Sedimentology VI, Special Publication of the International Association of Sedimentologists, vol. 28, pp. 251-268], building on the study by Smith et al. [Smith, N.D., Cross, T.A., Dufficy, J.P., Clough, S.R., 1989. Anatomy of an avulsion. Sedimentology 36, 1-23] of the modern Saskatchewan River system (Cumberland Marshes, central Canada), and serve to characterize avulsion depositional sequences in the ancient Willwood and Fort Union Formations (Paleogene, Bighorn Basin, NW Wyoming, USA). We recognize, however, that the model is not universally applicable to avulsion-dominated successions, specifically systems which lack defining "heterolithic avulsion deposits", set forth by Kraus and Wells [Kraus, M.J., Wells, T.M., 1999. Recognizing avulsion deposits in the ancient stratigraphical record. In: Smith, N.D., Rogers, J. (Eds.), Fluvial Sedimentology VI, Special Publication of the International Association of Sedimentologists, vol. 28, pp. 251-268]. Observations in several fluvial intervals suggest that the avulsion stratigraphy outlined by Kraus and Wells [Kraus, M.J., Wells, T.M., 1999. Recognizing avulsion deposits in the ancient stratigraphical record. In: Smith, N.D., Rogers, J. (Eds.), Fluvial Sedimentology VI, Special Publication of the International Association of Sedimentologists, vol. 28, pp. 251-268] represents one category of avulsion stratigraphy found in the rock record, but does not capture the nature of avulsion deposits everywhere. Based on observations (using measured sections, outcrop photo-panels, and aerial photographs) in the Willwood Formation (Eocene, Wyoming) and Ferris Formation (Cretaceous/Paleogene, Wyoming), we present two end-member categories of avulsion stratigraphy in ancient deposits; stratigraphically abrupt, when a main paleochannel is stratigraphically juxtaposed directly atop floodplain/overbank deposits, and stratigraphically transitional, where crevasse splays and other non-floodplain/-overbank deposits stratigraphically precede a main paleochannel. This characterization provides a broader, more inclusive way to recognize and describe avulsion stratigraphy in ancient deposits and may be an important factor to consider when modeling connectivity in fluvial reservoirs. Furthermore, our observations show that one type of avulsion channel stratigraphy may prevail over another within an ancient basin, suggesting that system-wide factors such as splay-proneness or avulsion style (i.e. aggradational, incisional, etc.; [Slingerland, R., Smith, N.D., 2004. River avulsions and their deposits. Annual Review of Earth and Planetary Sciences 32, 257-285]) may be primary controls on the type of avulsion stratigraphy deposited and preserved in ancient basin-fills.

Genetics Home Reference: Smith-Lemli-Opitz syndrome

MedlinePlus

... Twitter Home Health Conditions Smith-Lemli-Opitz syndrome Smith-Lemli-Opitz syndrome Printable PDF Open All Close ... Javascript to view the expand/collapse boxes. Description Smith-Lemli-Opitz syndrome is a developmental disorder that ...

Automation of reverse engineering process in aircraft modeling and related optimization problems

NASA Technical Reports Server (NTRS)

Li, W.; Swetits, J.

1994-01-01

During the year of 1994, the engineering problems in aircraft modeling were studied. The initial concern was to obtain a surface model with desirable geometric characteristics. Much of the effort during the first half of the year was to find an efficient way of solving a computationally difficult optimization model. Since the smoothing technique in the proposal 'Surface Modeling and Optimization Studies of Aerodynamic Configurations' requires solutions of a sequence of large-scale quadratic programming problems, it is important to design algorithms that can solve each quadratic program in a few interactions. This research led to three papers by Dr. W. Li, which were submitted to SIAM Journal on Optimization and Mathematical Programming. Two of these papers have been accepted for publication. Even though significant progress has been made during this phase of research and computation times was reduced from 30 min. to 2 min. for a sample problem, it was not good enough for on-line processing of digitized data points. After discussion with Dr. Robert E. Smith Jr., it was decided not to enforce shape constraints in order in order to simplify the model. As a consequence, P. Dierckx's nonparametric spline fitting approach was adopted, where one has only one control parameter for the fitting process - the error tolerance. At the same time the surface modeling software developed by Imageware was tested. Research indicated a substantially improved fitting of digitalized data points can be achieved if a proper parameterization of the spline surface is chosen. A winning strategy is to incorporate Dierckx's surface fitting with a natural parameterization for aircraft parts. The report consists of 4 chapters. Chapter 1 provides an overview of reverse engineering related to aircraft modeling and some preliminary findings of the effort in the second half of the year. Chapters 2-4 are the research results by Dr. W. Li on penalty functions and conjugate gradient methods for quadratic programming problems.

An Invitation to Open Innovation in Malaria Drug Discovery: 47 Quality Starting Points from the TCAMS.

PubMed

Calderón, Félix; Barros, David; Bueno, José María; Coterón, José Miguel; Fernández, Esther; Gamo, Francisco Javier; Lavandera, José Luís; León, María Luisa; Macdonald, Simon J F; Mallo, Araceli; Manzano, Pilar; Porras, Esther; Fiandor, José María; Castro, Julia

2011-10-13

In 2010, GlaxoSmithKline published the structures of 13533 chemical starting points for antimalarial lead identification. By using an agglomerative structural clustering technique followed by computational filters such as antimalarial activity, physicochemical properties, and dissimilarity to known antimalarial structures, we have identified 47 starting points for lead optimization. Their structures are provided. We invite potential collaborators to work with us to discover new clinical candidates.

Development of a Novel, Non-Invasive Diagnostic Test for Prostate Cancer

DTIC Science & Technology

2006-01-01

Chang JJ, Bhargava V , Shinohara K. The optimal systematic prostate biopsy scheme should include 8 rather than 6 biopsies: results of a prospective...sextant and laterally directed biopsies for the detection of prostate cancer. J Urol, 2001, 165:1554-9. 19. Djavan B, Ravery V , Zlotta A, Dobronski P...Smith-Jones PM, Navarro V , Goldsmith SJ, Bander NH. Radioimmunotherapy of prostate cancer in human xenografts using monoclonal antibodies specific to

[Establishment of systemic lupus erythematosus-like murine model with Sm mimotope].

PubMed

Xie, Hong-Fu; Feng, Hao; Zeng, Hai-Yan; Li, Ji; Shi, Wei; Yi, Mei; Wu, Bin

2007-04-01

To establish systemic lupus erythematosus (SLE) -like murine model by immunizing BALB/C mice with Sm mimotope. Sm mimotope was identified by screening a 12-mer random peptide library with monoclonal anti-Smith antibody. Sm mimotope was initially defined with sandwich ELISA, DNA sequencing, and deduced amino acid sequence; and BALB/C mice were subcutaneously injected with mixture phages clones. Sera Sm antibody, anti-double stranded DNA (dsDNA) antibody, and antinuclear antibody (ANA) of mice were detected using direct immunofluorescence; kidney histological changes were examined by HE staining. Five randomly selected peptides were sequenced and the amino acid sequences IR, SQ, and PP were detected in a higher frequency. High-titer IgG autoantibodies of dsDNA, Sm, and ANA in the sera of experiment group were detected by ELISA 28 days after having been immunized by Sm mimotope. Proteinuria was detected 33 days later; immune complex and nephritis were observed in kidney specimens. SLE-like murine model can be successfully induced by Sm phage mimotope.

Determining the optimal load for jump squats: a review of methods and calculations.

PubMed

Dugan, Eric L; Doyle, Tim L A; Humphries, Brendan; Hasson, Christopher J; Newton, Robert U

2004-08-01

There has been an increasing volume of research focused on the load that elicits maximum power output during jump squats. Because of a lack of standardization for data collection and analysis protocols, results of much of this research are contradictory. The purpose of this paper is to examine why differing methods of data collection and analysis can lead to conflicting results for maximum power and associated optimal load. Six topics relevant to measurement and reporting of maximum power and optimal load are addressed: (a) data collection equipment, (b) inclusion or exclusion of body weight force in calculations of power, (c) free weight versus Smith machine jump squats, (d) reporting of average versus peak power, (e) reporting of load intensity, and (f) instructions given to athletes/ participants. Based on this information, a standardized protocol for data collection and reporting of jump squat power and optimal load is presented.

Dr. Marco Marra: Pioneer and Visionary in Cancer Genomics Research | Office of Cancer Genomics

Cancer.gov

Dr. Marco Marra is a highly distinguished genomics and bioinformatics researcher. He is the Director of Canada’s Michael Smith Genome Sciences Centre at the BC Cancer Agency and holds a faculty position at the University of British Columbia. The Centre is a state-of-the-art sequencing facility in Vancouver, Canada, with a major focus on the study of cancers.  Many of their research projects are undertaken in collaborations with other Canadian and international institutions.

On the shape of martian dust and water ice aerosols

NASA Astrophysics Data System (ADS)

Pitman, K. M.; Wolff, M. J.; Clancy, R. T.; Clayton, G. C.

2000-10-01

Researchers have often calculated radiative properties of Martian aerosols using either Mie theory for homogeneous spheres or semi-empirical theories. Given that these atmospheric particles are randomly oriented, this approach seems fairly reasonable. However, the idea that randomly oriented nonspherical particles have scattering properties equivalent to even a select subset of spheres is demonstratably false} (Bohren and Huffman 1983; Bohren and Koh 1985, Appl. Optics, 24, 1023). Fortunately, recent computational developments now enable us to directly compute scattering properties for nonspherical particles. We have combined a numerical approach for axisymmetric particle shapes, i.e., cylinders, disks, spheroids (Waterman's T-Matrix approach as improved by Mishchenko and collaborators; cf., Mishchenko et al. 1997, JGR, 102, D14, 16,831), with a multiple-scattering radiative transfer algorithm to constrain the shape of water ice and dust aerosols. We utilize a two-stage iterative process. First, we empirically derive a scattering phase function for each aerosol component (starting with some ``guess'') from radiative transfer models of MGS Thermal Emission Spectrometer Emission Phase Function (EPF) sequences (for details on this step, see Clancy et al., DPS 2000). Next, we perform a series of scattering calculations, adjusting our parameters to arrive at a ``best-fit'' theoretical phase function. In this presentation, we provide details on the second step in our analysis, including the derived phase functions (for several characteristic EPF sequences) as well as the particle properties of the best-fit theoretical models. We provide a sensitivity analysis for the EPF model-data comparisons in terms of perturbations in the particle properties (i.e., range of axial ratios, sizes, refractive indices, etc). This work is supported through NASA grant NAGS-9820 (MJW) and JPL contract no. 961471 (RTC).

20 CFR 416.1166a - How we deem income to you from your sponsor if you are an alien.

Code of Federal Regulations, 2010 CFR

2010-04-01

.... Mr. and Mrs. Smith are an alien couple who have no income and who have been sponsored by Mr. Hart. Mr... $660. This amount must be deemed independently to Mr. and Mrs. Smith. Mr. and Mrs. Smith would qualify... ($660 each to Mr. and Mrs. Smith) deemed income is unearned income to Mr. and Mrs. Smith and is subject...

Efficient searching and annotation of metabolic networks using chemical similarity

PubMed Central

Pertusi, Dante A.; Stine, Andrew E.; Broadbelt, Linda J.; Tyo, Keith E.J.

2015-01-01

Motivation: The urgent need for efficient and sustainable biological production of fuels and high-value chemicals has elicited a wave of in silico techniques for identifying promising novel pathways to these compounds in large putative metabolic networks. To date, these approaches have primarily used general graph search algorithms, which are prohibitively slow as putative metabolic networks may exceed 1 million compounds. To alleviate this limitation, we report two methods—SimIndex (SI) and SimZyme—which use chemical similarity of 2D chemical fingerprints to efficiently navigate large metabolic networks and propose enzymatic connections between the constituent nodes. We also report a Byers–Waterman type pathway search algorithm for further paring down pertinent networks. Results: Benchmarking tests run with SI show it can reduce the number of nodes visited in searching a putative network by 100-fold with a computational time improvement of up to 105-fold. Subsequent Byers–Waterman search application further reduces the number of nodes searched by up to 100-fold, while SimZyme demonstrates ∼90% accuracy in matching query substrates with enzymes. Using these modules, we have designed and annotated an alternative to the methylerythritol phosphate pathway to produce isopentenyl pyrophosphate with more favorable thermodynamics than the native pathway. These algorithms will have a significant impact on our ability to use large metabolic networks that lack annotation of promiscuous reactions. Availability and implementation: Python files will be available for download at http://tyolab.northwestern.edu/tools/. Contact: k-tyo@northwestern.edu Supplementary information: Supplementary data are available at Bioinformatics online. PMID:25417203

Efficient searching and annotation of metabolic networks using chemical similarity.

PubMed

Pertusi, Dante A; Stine, Andrew E; Broadbelt, Linda J; Tyo, Keith E J

2015-04-01

The urgent need for efficient and sustainable biological production of fuels and high-value chemicals has elicited a wave of in silico techniques for identifying promising novel pathways to these compounds in large putative metabolic networks. To date, these approaches have primarily used general graph search algorithms, which are prohibitively slow as putative metabolic networks may exceed 1 million compounds. To alleviate this limitation, we report two methods--SimIndex (SI) and SimZyme--which use chemical similarity of 2D chemical fingerprints to efficiently navigate large metabolic networks and propose enzymatic connections between the constituent nodes. We also report a Byers-Waterman type pathway search algorithm for further paring down pertinent networks. Benchmarking tests run with SI show it can reduce the number of nodes visited in searching a putative network by 100-fold with a computational time improvement of up to 10(5)-fold. Subsequent Byers-Waterman search application further reduces the number of nodes searched by up to 100-fold, while SimZyme demonstrates ∼ 90% accuracy in matching query substrates with enzymes. Using these modules, we have designed and annotated an alternative to the methylerythritol phosphate pathway to produce isopentenyl pyrophosphate with more favorable thermodynamics than the native pathway. These algorithms will have a significant impact on our ability to use large metabolic networks that lack annotation of promiscuous reactions. Python files will be available for download at http://tyolab.northwestern.edu/tools/. Supplementary data are available at Bioinformatics online. © The Author 2014. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

M(sub W) = 7.2-7.4 Estimated for A.D. 900 Seattle Fault Earthquake by Modeling the Uplift of a Lidar-Mapped Marine Terrace

NASA Technical Reports Server (NTRS)

Muller, Jordan R.; Harding, David J.

2006-01-01

Inverse modeling of slip on the Seattle fault system, constrained by elevations of uplifted marine terraces, provides a well-constrained estimate of the magnitude of the largest known upper-crust earthquake in the Puget Sound region within the past 2500 years. The terrace elevations that constrain the slip inversion are extracted from elevation and slope images generated from LIDAR surveys of the Puget Sound collected in 1996-2002. The images reveal a single uplifted terrace, dated to 1000 cal yr B.P. near Restoration Point, which is morphologically continuous along the southern shoreline of Bainbridge Island and is visible at comparable elevations within a 25 km by 12 km region encompassing coastlines of West Seattle, Bremerton, East Bremerton, Port Orchard, and Waterman Point. Considering sea level changes since A.D. 900, the maximum uplift magnitudes of shoreline inner edges approach 9 m and are located at the southernmost coastline of Bainbridge Island and the northern tip of Waterman Point, while tilt magnitudes are modest - approaching 0.1 degrees. For each of several different Seattle fault geometry interpretations, we use a linear inversion code to solve for distributed slip on the fault surfaces. Moment magnitudes of 7.2 to 7.4 are calculated directly from the different slip solutions. In general, the greatest slip of the A.D. 900 event was confined to the frontal thrust of the Seattle fault system and was centered beneath Puget Sound between Restoration Point and Alki Point.

Latest Holocene Mapping of Tsunamigenically- and Seismogenically-Influenced Beach, Dune and Fluvial Landforms at Tolowa Dunes State Park, Northwestern California

NASA Astrophysics Data System (ADS)

Vaughan, P. R.

2015-12-01

Beach, dune, fluvial, and marine terrace deposits comprise a 16 kilometer (km) coastal strip immediately south of the Smith River at Tolowa Dunes State Park (TDSP), ~ 3.5 km north-northwest from downtown Crescent City, California. The park has numerous Native American sites that are vulnerable to sea level rise and coastal erosion, part of which may be influenced by Cascadia interseismic deformation. Efforts at removal of exotic beach grass (Ammophila arenaria) that stabilizes most of the dune complex have begun; vegetation removal will remobilize the dunes and could obscure and also expose near surficial geologic features. Using a LiDAR base to capture extant data and give context to future resource protection projects, I surficially mapped the dunes and provisionally interpreted, tsunamigenically-derived cobbles (which are more than five feet thick in one road cut exposure) that extensively mantle the deflation plain in the lee of the foredune. Natural, test pit and auger exposures helped characterize fluvial and marsh deposits in the southern bank and floodplain of the Smith River. Optically stimulated luminescence and/or radiocarbon dates constrain the ages for cobble deposits and dunes throughout the park, and liquefaction features exposed in the southern bank of the Smith River. In combination with estimated rates of dune formation and migration at TDSP since the A.D. 1700 Cascadia earthquake, the ages for seismogenically-sourced sediment associated with dune ridges and cobble deposits are tentatively correlated with the ages of latest Holocene Cascadia triggered turbidites dated by Goldfinger et al. (2012) on the Smith River platform. The mapping also helped identify a marine terrace sequence on the southern limb of the northwest-trending Lake Earl Syncline that bifurcates the park, and suggests projection of the northwest-trending Cemetery Scarp, part of the Point St. George fault complex (Polenz and Kelsey 1999), through the southern part of the park.

NACA Conference on Aircraft Loads, Flutter, and Structures: A compilation of Papers Presented.

DTIC Science & Technology

1953-03-04

Variation of Atmospheric Turbulence With Altitude and Its Effect on Airplane Gust Loads . . . by Robert L. McDougal, Thomas L. Coleman, and Philip L. Smith ...SKOPINSKI, T. H. NACA - Langley Laboratory xvii CONFIDENTIAL CONFIDENTIAL SMETHERS, Rollo G. Bureau of Aeronautics SMITH , Dana W. NACA Subcommittee on...Aircraft Structural Materials SMITH , Frank C. National Bureau of Standards SMITH , Henry G. Hughes Aircraft Co. SMITH , Howard W. NACA Subcommittee on Aircraft

76 FR 60733 - Drawbridge Operation Regulations; Narrow Bay, Smith Point, NY

Federal Register 2010, 2011, 2012, 2013, 2014

2011-09-30

... Operation Regulations; Narrow Bay, Smith Point, NY AGENCY: Coast Guard, DHS. ACTION: Notice of temporary... deviation from the regulation governing the operation of the Smith Point Bridge, 6.1, across Narrow Bay, between Smith Point and Fire Island, New York. The deviation is necessary to facilitate bridge...

Electric and Plug-In Hybrid Electric Vehicle Publications | Transportation

Science.gov Websites

, Kandler Smith, and Kevin Walkowicz. (2016) Medium-Duty Plug-in Electric Delivery Truck Fleet Evaluation . (2014) Smith Newton Electric Delivery Trucks Smith Newton Vehicle Performance Evaluation (Gen 1 ), Cumulative Report: November 2011-June 2014. Adam Ragatz. (2014) Smith Newton Vehicle Performance Evaluation

Differentiating mass from density: The effect of modeling and student dialogue in a sixth-grade classroom

NASA Astrophysics Data System (ADS)

Deich, Martha L.

The concept of density can be difficult to learn. In the middle grades, students characteristically conflate mass and density, and even after instruction many students do not distinguish them consistently (Smith, Maclin, Grosslight, & Davis, 1997). Few develop a conceptualization of density that accounts for the implications of changing mass, volume, temperature, and/or state. My work looks specifically at how students make sense of the relationship between mass and volume as they refine their understanding of density. The concept of density is challenging to teach. Traditional methods of teaching density in middle-school classrooms typically involve either the measurement of an object's mass and volume and the subsequent calculation of the ratio of the two quantities, or the observation of different materials in water to learn about their buoyancy. Unfortunately, as Carol Smith and her colleagues have documented (1985, 1992, 1997), these approaches leave many students stuck in their "commonsense frameworks" that merge mass and density into one concept. Teachers need better ways to teach density. Hence I designed an intervention to study the effects of some possibly more effective ways to teach density. I developed and taught a complex intervention (Brown, 1992) featuring student modeling, extensive student dialogue on data and data analyses, formative assessments, the substitution of hands-on inquiry for mathematical problem sets, and multiple thought experiments. The hallmarks of the intervention were modeling and student dialogue, and the research question I posed was: Does classroom practice that encourages modeling with open-ended discourse help students differentiate between the concepts of mass and density? I patterned my research on a Smith study of density instruction in eighth grade (Smith, Maclin, Grosslight, & Davis, 1997), which had a quasiexperimental research design that compared the results of teaching density differently in two classrooms. I selected an intervention class and a comparison class from those I was teaching. The core of the density curriculum was similar in both classes. Instead of the intervention, though, the comparison class closely followed the lesson sequences provided by the classroom textbook, which tended to focus on formal and formulaic density instruction. I modified Smith's assessments for sixth graders. After teaching one class the intervention curriculum and the other the textbook-based curriculum, I evaluated and compared the progress of research participants in both classrooms by means of a pre- and post-instruction clinical interview, a pre- and post-instruction written test, and the end-of-chapter test from the textbook used in the comparison classroom. The results of my study were consistent: the intervention students outperformed and showed greater improvement on all assessments compared to the comparison students. In this study, modeling and student discourse were more effective ways to teach density than a standard textbook-based lesson sequence. The intervention helped students start to disrupt the conflation of mass and density, fostering both the comprehension of volume as a variable property of matter, and a nuanced understanding of density beyond formulaic reasoning. This dissertation is a report of my study for two audiences---academics and science educators. For the latter, I include recommendations for improving density instruction that are informed by my research.

13. RW Meyer Sugar Mill: 18761889. Engine and boiler house, ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

13. RW Meyer Sugar Mill: 1876-1889. Engine and boiler house, ca. 1881. Locomotive-type, fire-tube, portable boiler, no. I model. Manufactured by Ames Iron Works, Oswego, New York, 1879. 120 lbs./sq. in. working pressure, 66 sq. ft. heating surface in tubes. View: Historical view, 1934, from T.T. Waterman Collection, Hawaiian Sugar Planters' Association. View shows engine and boiler house structure intact. The water and pressure gauge to the right of the boiler are in more complete condition than in 1978 views. - R. W. Meyer Sugar Mill, State Route 47, Kualapuu, Maui County, HI

26. RW Meyer Sugar Mill: 18761889. Centrifugals, 1879, 1881. Manufacturer, ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

26. RW Meyer Sugar Mill: 1876-1889. Centrifugals, 1879, 1881. Manufacturer, unknown. Supplied by Honolulu Ironworks, Honolulu, Hawaii, 1879, 1881. View: Historical view, 1934, from T. T. Waterman collection, Hawaiian Sugar Planters' Association. Once the molasses was separated from the sugar crystals it flowed through the spouts in the base of the centrifugals. The centrifugals' pulleys can be seen underneath the centrifugal. The centrifugal on the right has been reinforced with seven metal bands. The handles for the clutch mechanism are located above the centrifugal. - R. W. Meyer Sugar Mill, State Route 47, Kualapuu, Maui County, HI

Servant Leadership, Emotional Intelligence: Essential for Baccalaureate Nursing Students.

PubMed

Anderson, Della

2016-08-01

Baker University Bachelor of Science in Nursing students study servant leadership and emotional intelligence in a Leadership and Management in Professional Nursing course. The acquisition of these skills increases collaboration with clients and colleagues. Servant leadership improves care through encouragement and facilitation rather than power (Waterman, 2011). Emotional intelligence allows individuals to deal effectively with emotions and is associated with better health (Por, Barriball, Fitzpatrick, & Roberts, 2011). Knowledge of servant leadership, combined with emotional intelligence, creates a relationship with self; encourages relationships with others, clients, and providers; allows teamwork participation; and impacts the entire community.

Optimization of parameter values for complex pulse sequences by simulated annealing: application to 3D MP-RAGE imaging of the brain.

PubMed

Epstein, F H; Mugler, J P; Brookeman, J R

1994-02-01

A number of pulse sequence techniques, including magnetization-prepared gradient echo (MP-GRE), segmented GRE, and hybrid RARE, employ a relatively large number of variable pulse sequence parameters and acquire the image data during a transient signal evolution. These sequences have recently been proposed and/or used for clinical applications in the brain, spine, liver, and coronary arteries. Thus, the need for a method of deriving optimal pulse sequence parameter values for this class of sequences now exists. Due to the complexity of these sequences, conventional optimization approaches, such as applying differential calculus to signal difference equations, are inadequate. We have developed a general framework for adapting the simulated annealing algorithm to pulse sequence parameter value optimization, and applied this framework to the specific case of optimizing the white matter-gray matter signal difference for a T1-weighted variable flip angle 3D MP-RAGE sequence. Using our algorithm, the values of 35 sequence parameters, including the magnetization-preparation RF pulse flip angle and delay time, 32 flip angles in the variable flip angle gradient-echo acquisition sequence, and the magnetization recovery time, were derived. Optimized 3D MP-RAGE achieved up to a 130% increase in white matter-gray matter signal difference compared with optimized 3D RF-spoiled FLASH with the same total acquisition time. The simulated annealing approach was effective at deriving optimal parameter values for a specific 3D MP-RAGE imaging objective, and may be useful for other imaging objectives and sequences in this general class.

Dialogue of Differences: The Writing of Henry Holmes Smith.

ERIC Educational Resources Information Center

Bossen, Howard

In addition to surveying the writings of Henry Holmes Smith, this paper explains his importance as a theoretician and practitioner of photography. After a discussion of Smith's ideas on "reading photographs" and his concerns with the ethics of photography, particularly of photojournalism, the essays in the book, "Henry Holmes Smith:…

40 CFR 81.63 - Metropolitan Fort Smith Interstate Air Quality Control Region.

Code of Federal Regulations, 2010 CFR

2010-07-01

... 40 Protection of Environment 17 2010-07-01 2010-07-01 false Metropolitan Fort Smith Interstate Air... Air Quality Control Regions § 81.63 Metropolitan Fort Smith Interstate Air Quality Control Region. The Metropolitan Fort Smith Interstate Air Quality Control Region (Arkansas-Oklahoma) has been revised to consist...

78 FR 32250 - CDM Smith and Dynamac Corp; Transfer of Data

Federal Register 2010, 2011, 2012, 2013, 2014

2013-05-29

... ENVIRONMENTAL PROTECTION AGENCY [EPA-HQ-OPP-2013-0036; FRL-9387-5] CDM Smith and Dynamac Corp... the submitter, will be transferred to CDM Smith and its subcontractor, Dynamac Corp, in accordance with 40 CFR 2.307(h)(3) and 2.308(i)(2). CDM Smith and its subcontractor, Dynamac Corp, have been...

Alternative Fuels Data Center: Smith Dairy Deploys Natural Gas Vehicles and

Science.gov Websites

Fueling Infrastructure in the Midwest Smith Dairy Deploys Natural Gas Vehicles and Fueling Infrastructure in the Midwest to someone by E-mail Share Alternative Fuels Data Center: Smith Dairy Deploys Data Center: Smith Dairy Deploys Natural Gas Vehicles and Fueling Infrastructure in the Midwest on

A Cabinet of Mathematical Curiosities at Teachers College: David Eugene Smith's Collection

ERIC Educational Resources Information Center

Murray, Diane R.

2012-01-01

This dissertation is a history of David Eugene Smith's collection of historical books, manuscripts, portraits, and instruments related to mathematics. The study analyzes surviving documents, images, objects, college announcements and catalogs, and secondary sources related to Smith's collection. David Eugene Smith (1860-1944) travelled…

'Nothing is so soon forgot as pain': Reading Agony in Adam Smith's The Theory of Moral Sentiments.

PubMed

Franson, Craig

2014-01-01

Giving a rigorous philosophical explanation to the imagination's role in sympathy, Adam Smith's The Theory of Moral Sentiments became a central text in Romantic aesthetics. It not only justified the age's vogue for making suffering an object of artistic pleasure, it treated suffering's affectivity as the very foundation of society. Depicting agony as a spectacle to be read by others, Smith transformed morality into rhetoric, making human subjects into readers of a sentimentalised, textual world. Yet Smith's work restricted the bonds of sympathy, too, following established distinctions between mind and body that helped him to exclude physical pain from sympathetic response. This essay looks to Smith's context in the overlapping philosophical and medical discourses of the Scottish Enlightenment, exploring his moral theory's resonance with the nerve theories of Robert Whytt and William Cullen, then the leading figures in Scotland's rising medical community. Deepening our understanding of Smith's probable sources, it reframes Smith's intellectual and ideological legacy, foregrounding some of the ambivalent cultural and political implications of Smith's troubling censure of physical pain.

The education and medical practice of Dr. James McCune Smith (1813-1865), first black American to hold a medical degree.

PubMed Central

Morgan, Thomas M.

2003-01-01

James McCune Smith (1813-1865)--first black American to obtain a medical degree, prominent abolitionist and suffragist, compassionate physician, prolific writer, and public intellectual--has been relatively neglected by historians of medicine. No biography of Smith exists to this day, though he has been the subject of several essays. Born, in his own words, "the son of a self-emancipated bond-woman," and denied admission to colleges in the United States, his native land, Smith earned medical, master's, and baccalaureate degrees at Glasgow University in Scotland. On his return to New York City in 1837, Smith became the first black physician to publish articles in US medical journals. Smith was broadly involved in the anti-slavery and suffrage movements, contributing to and editing abolitionist newspapers and serving as an officer of many organizations for the improvement of social conditions in the black community. In his scientific writings Smith debunked the racial theories in Thomas Jefferson's Notes on the State of Virginia, refuted phrenology and homeopathy, and responded with a forceful statistical critique to the racially biased US Census of 1840. Frederick Douglass, Gerrit Smith, and John Brown personally collaborated with James McCune Smith in the fight for black freedom. As the learned physician-scholar of the abolition movement, Smith was instrumental in making the overthrow of slavery credible and successful. Images Figure 1 PMID:12911258

Aase syndrome

MedlinePlus

Aase-Smith syndrome; Hypoplastic anemia - triphalangeal thumbs, Aase-Smith type ... Jones KL, Jones MC, Del Campo M, eds. Smith's Recognizable Patterns of Human Malformation . 7th ed. Philadelphia, ...

Exploring the Use of Alfven Waves in Magnetometer Calibration at Geosynchronous Orbit

NASA Technical Reports Server (NTRS)

Bentley, John; Sheppard, David; RIch, Frederick; Redmon, Robert; Loto'aniu, Paul; Chu, Donald

2016-01-01

An Alfven wave is a type magnetohydrodynamicwave that travels through a conducting fluid under the influence of a magnetic field. Researchers have successfully calculated offset vectors of magnetometers in interplanetary space by optimizing the offset to maximize certain Alfvenic properties of observed waves (Leinweber, Belcher). If suitable Alfven waves can be found in the magnetosphere at geosynchronous altitude then these techniques could be used to augment the overall calibration plan for magnetometers in this region such as on the GOES spacecraft, possibly increasing the time between regular maneuvers. Calibration maneuvers may be undesirable because they disrupt the activities of other instruments. Various algorithms to calculate an offset using Alfven waves were considered. A new variation of the Davis-Smith method was derived because it can be mathematically shown that the Davis-Smith method tolerates filtered data, which expands potential applications. The variant developed was designed to find only the offset in the plane normal to the main field because the overall direction of Earth's magnetic field rarely changes, and theory suggests the Alfvenic disturbances occur transverse to the main field. Other variations of the Davis-Smith method encounter problems with data containing waves that propagate in mostly the same direction. A searching algorithm was then designed to look for periods of time with potential Alfven waves in GOES 15 data based on parameters requiring that disturbances be normal to the main field and not change field magnitude. Final waves for calculation were hand-selected. These waves produced credible two-dimensional offset vectors when input to the Davis-Smith method. Multiple two-dimensional solutions in different planes can be combined to get a measurement of the complete offset. The resulting three dimensional offset did not show sufficient precision over several years to be used as a primary calibration method, but reflected changes in the offset fairly well, suggesting that the method could be helpful in monitoring trends of the offset vector when maneuvers cannot be used.

A taxonomic revision of the southern African leaf-cutter bees, Megachile Latreille sensu stricto and Heriadopsis Cockerell (Hymenoptera: Apoidea: Megachilidae).

PubMed

Eardley, Connal

2013-01-11

The five southern African subgenera of Megachile with recessed cutting edges between their teeth are revised. The entire group comprises 37 valid species, two of which are new: Megachile (Eutricharaea) gobabebensis sp. n. and Megachile (Eutricharaea) goegabensis sp. n. Other species are: Megachile (Amegachile) fimbriata Smith, Megachile (Amegachile) nasalis Smith, Megachile (Amegachile) bituberculata Ritsema, Megachile (Eutricharaea) afra Pasteels, Megachile (Eutricharaea) aurifera Cockerell, Megachile (Eutricharaea) barbata Smith, Megachile (Eutricharaea) basalis Smith, Megachile (Eutricharaea) bucephala (Fabricius), Megachile (Eutricharaea) cyanescens Friese, Megachile (Eutricharaea) eurymera Smith, Megachile (Eutricharaea) familiaris Cockerell, Megachile (Eutricharaea) konowiana Friese, Megachile (Eutricharaea) meadewaldoi Brauns, Megachile (Eutricharaea) muansae Friese, Megachile (Eutricharaea) pachyceps Friese, Megachile (Eutricharaea) regina Friese, Megachile (Eutricharaea) salsburyana Friese, Megachile (Eutricharaea) venusta Smith, Megachile (Eutricharaea) wahlbergi Friese, Megachile (Heriadopsis) whiteana Cameron, Megachile (Paracella) admixta Cockerell, Megachile (Paracella) barkeri Cockerell, Megachile (Paracella) chrysopogon Vachal, Megachile (Paracella) curtula Gerstaecker, Megachile (Paracella) edwardsi Friese, Megachile (Paracella) filicornis Friese, Megachile(Paracella) frontalis Smith, Megachile (Paracella) malangensis Friese, Megachile (Paracella) pilosella Friese, Megachile (Paracella) semierma Vachal, Megachile (Paracella) ungulata Smith, Megachile (Platysta) khamana Cockerell. Of the 78 new synonymies fimbriata vulpecula Pasteels is M. fimbriata; volkmanni ventrifasciata Strand is M. nasalis; sjoestedti var. rubripedana Strand is M. tuberculata; gratiosa Gerstaecker,concinna Smith, marusa Cameron, robertiana Cameron, venustella Cockerell, umbiloensis Cockerell and acallognatha Cockerell are M. venusta Smith; latimetatarsis Strand and rozenii Pasteels are M. basalis Smith; semifulva Friese and planatipes Cockerell are M. bucephala (Fabricius); seclusiformis Cockerell is M. salsburyana Friese; flava Friese and rhodoleucura Cockerell are M. eurymera Smith; luteola Pasteels and stellensis Pasteels are M. familiaris Cockerell; nasutula Brauns, coelostoma Cockerell, and nitidicauda Cockerell are M. barbata Smith; venustoides Strand, venustella zambesica Cockerell and pondonis Cockerell are wahlbergi Friese; okanjandica Strand and vittatula Cockerell are cyanescens Friese; leucospilura Cockerell is M. muansae Friese; cordata Smith,tardula Cameron, ekuivella Cockerell, krebsiana Strand, rhodesica Cockerell, natalica Cockerell, masaiella Cockerell, chromatica Cockerell, gratiosella Cockerell, rhodesica haematognatha Cockerell, mackieae Cockerell,flammicauda Cockerell, venusta var. semiflava Cockerell, rufulina Cockerell, rufosuffusa Cockerell, melanura Cockerell, asarna Cockerell, capiticola Cockerell, heteroscopa Cockerell, capiticola Cockerell and chrysognatha Cockerell are M. frontalis Smith; boswendica Cockerell, rubrociliata Pasteels and rufisetosa Pasteels are M. pilosella Friese; apiformis Smith is M. ungulata Smith; stellarum Cockerell, laticeps Friese, malangensis mamalapia Pasteels, obesa Pasteels and ovatomaculata Pasteels are M. malangensis Friese; flavibasis Cockerell,heterotricha Cockerell, candidicauda Cockerell, candidigena Cockerell, candidicauda spinarum Cockerell, neliCockerell, albofilosa Cockerell, discretula Cockerell, rubeola Pasteels and meesi Pasteels are M. chrysopogon Vachal; lydenburgiana Strand, aliceae Cockerell, pretoriaensis Pasteels and pycnocephala Pasteels are M. semierma Vachal; benitocola Strand and granulicauda Cockerell are M. curtula Gerstaecker; and spatulicornis Pasteels is M. edwardsi Friese. Brief descriptions are provided for all the species, as are their distributions in southern Africa, known host plants and parasites. Keys for the identification of the species are also given.

Automated design of minimum drag light aircraft fuselages and nacelles

NASA Technical Reports Server (NTRS)

Smetana, F. O.; Fox, S. R.; Karlin, B. E.

1982-01-01

The constrained minimization algorithm of Vanderplaats is applied to the problem of designing minimum drag faired bodies such as fuselages and nacelles. Body drag is computed by a variation of the Hess-Smith code. This variation includes a boundary layer computation. The encased payload provides arbitrary geometric constraints, specified a priori by the designer, below which the fairing cannot shrink. The optimization may include engine cooling air flows entering and exhausting through specific port locations on the body.

Green Bank Telescope OH Observations of Smith's Cloud: Evidence Of A Lack Of Chemistry

NASA Astrophysics Data System (ADS)

Minter, Anthony

2017-03-01

Smith's Cloud is a large few × 106 Solar Mass cloud which will impact the Milk Way disk in about 35 Million Years (Lockman et al., 2008). Green Bank Telescope OH observations indicate that there are no molecules present in Smith's Cloud, and thus there is no active ongoing chemistry in Smith's Cloud.

Cyber Operational Architecture Training System Cyber for All

DTIC Science & Technology

2015-12-30

Ingenia Services, Inc. Camp H.M. Smith , HI Camp H.M. Smith , HI william.d.wells1.ctr@pacom.mil derek.bryan.ctr@pacom.mil ABSTRACT Current...War Innovation Center USPACOM J81 / Ingenia Services, Inc. Camp H.M. Smith , HI Camp H.M. Smith , HI william.d.wells1.ctr@pacom.mil derek.bryan.ctr

75 FR 11919 - Smith and Nephew, Inc., Wound Management-Largo Division, Including On-Site Leased Workers From...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-03-12

... DEPARTMENT OF LABOR Employment and Training Administration [TA-W-70,151] Smith and Nephew, Inc... November 5, 2009, applicable to workers of Smith and Nephew, Inc., Wound Management-Largo Division, Largo... workers leased from Adecco were employed on-site at the Largo, Florida location of Smith and Nephew, Inc...

77 FR 64411 - Safety Zone; Cooper T. Smith Fireworks Event; Mobile River; Mobile, AL

Federal Register 2010, 2011, 2012, 2013, 2014

2012-10-22

... 1625-AA00 Safety Zone; Cooper T. Smith Fireworks Event; Mobile River; Mobile, AL AGENCY: Coast Guard.... Smith Fireworks Event. Entry into, transiting or anchoring in this zone is prohibited to all vessels... safety hazards associated with a fireworks display. B. Basis and Purpose Cooper T. Smith Corp. has hired...

The Devil in Mr. Smith: A Conversation with Jonathan Z. Smith

ERIC Educational Resources Information Center

Smith, Jonathan Z.; Pearson, Thomas; Gallagher, Eugene V.; Jensen, Tim; Fujiwara, Satoko

2014-01-01

This interview was recorded in November 2012 in Jonathan Z. Smith's Hyde Park graystone. Professor Smith offers insights into how he thinks about his classroom teaching and his students' learning through descriptions of various assignments and classroom activities he has developed over more than forty years of teaching. The discussion…

NREL'S Morgan-Smith Honored by Martin Luther King Commission

Science.gov Websites

Morgan-Smith Honored by Martin Luther King Commission For more information contact: Sarah Holmes Barba, 303-275-3023 email: Sarah Barba Golden, Colo., Jan. 9, 2001 - Syl Morgan-Smith, Colorado . 10 at 6 p.m. The event will honor the life and work of King and the eight 2001 awardees. Morgan-Smith

Memories Are Made of This

ERIC Educational Resources Information Center

Chang, Christine

2010-01-01

In this article, the author shares her memories of Sally Smith, the founder of The Lab School of Washington, where she works as the director of the Occupational Therapy. When the author first met Smith, Smith asked her what brought her to The Lab School at that point in her career. She told Smith that her background was rather eclectic, since she…

High Depth, Whole-Genome Sequencing of Cholera Isolates from Haiti and the Dominican Republic

DTIC Science & Technology

2012-09-11

Yamaichi Y, Calderwood SB, Mekalanos JJ , Schadt EE, Waldor MK: The Origin of the Haitian Cholera Outbreak Strain. N Engl J Med 2011, 364:33–42. 9. Reimer...Prosper JB, Furth K, Hoq MM, Li H, Fraser-Liggett CM, Cravioto A, Huq A, Ravel J, Cebula TA, Colwell RR: PNAS Plus: Genomic diversity of 2010...Sellers P, McDonald L, Utterback T, Fleishmann RD, Nierman WC, White O, Salzberg SL, Smith HO, Colwell RR, Mekalanos JJ , Venter JC, Fraser CM: DNA

Accumulation of the Cyclobutane Thymine Dimer in Defined Sequences of Free and Nucleosomal DNA

DTIC Science & Technology

2013-08-01

cyclobutane dimer in a single-stranded vector , Proc. Natl. Acad. Sci. U. S. A., 1988, 85, 8141–8145. 11 C. A. Smith, M. Wang, N. Jiang, L. Che, X. Zhao and...J.-S. Taylor, Mutation spectra of M13 vectors containing site-specific cis–syn, trans–syn-I, (6-4), and Dewar pyrimi- done photoproducts of thymidylyl...Bypass of a site-specific cis–syn thymine dimer in a SV40 vector during in vitro replication by HeLa and XPV cell-free extracts, Biochemistry, 1998

Diffusion-assisted selective dynamical recoupling: A new approach to measure background gradients in magnetic resonance

NASA Astrophysics Data System (ADS)

Álvarez, Gonzalo A.; Shemesh, Noam; Frydman, Lucio

2014-02-01

Dynamical decoupling, a generalization of the original NMR spin-echo sequence, is becoming increasingly relevant as a tool for reducing decoherence in quantum systems. Such sequences apply non-equidistant refocusing pulses for optimizing the coupling between systems, and environmental fluctuations characterized by a given noise spectrum. One such sequence, dubbed Selective Dynamical Recoupling (SDR) [P. E. S. Smith, G. Bensky, G. A. Álvarez, G. Kurizki, and L. Frydman, Proc. Natl. Acad. Sci. 109, 5958 (2012)], allows one to coherently reintroduce diffusion decoherence effects driven by fluctuations arising from restricted molecular diffusion [G. A. Álvarez, N. Shemesh, and L. Frydman, Phys. Rev. Lett. 111, 080404 (2013)]. The fully-refocused, constant-time, and constant-number-of-pulses nature of SDR also allows one to filter out "intrinsic" T1 and T2 weightings, as well as pulse errors acting as additional sources of decoherence. This article explores such features when the fluctuations are now driven by unrestricted molecular diffusion. In particular, we show that diffusion-driven SDR can be exploited to investigate the decoherence arising from the frequency fluctuations imposed by internal gradients. As a result, SDR presents a unique way of probing and characterizing these internal magnetic fields, given an a priori known free diffusion coefficient. This has important implications in studies of structured systems, including porous media and live tissues, where the internal gradients may serve as fingerprints for the system's composition or structure. The principles of this method, along with full analytical solutions for the unrestricted diffusion-driven modulation of the SDR signal, are presented. The potential of this approach is demonstrated with the generation of a novel source of MRI contrast, based on the background gradients active in an ex vivo mouse brain. Additional features and limitations of this new method are discussed.

CTIO Staff | CTIO

Science.gov Websites

Associate Malcolm Smith Emeritus Malcolm Smith's webpage Sean Points Scientist Sean Points' Web Page Alfredo Zenteno Assistant Scientist Robert Chris Smith Astronomer Regis Cartier Postdoc Research Associate Tim

77 FR 30047 - Notice of Opportunity for Public Comment on Surplus Property Release at Michael J Smith Field...

Federal Register 2010, 2011, 2012, 2013, 2014

2012-05-21

... Comment on Surplus Property Release at Michael J Smith Field, Beaufort, NC AGENCY: Federal Aviation... J Smith Field, be used for aeronautical purposes. DATES: Comments must be received on or before June... property at the Michael J Smith Field. The property consists of one parcel located on the north side of...

76 FR 59115 - Notice of Availability of Patent Fee Changes Under the Leahy-Smith America Invents Act

Federal Register 2010, 2011, 2012, 2013, 2014

2011-09-23

... new programs provided for in the Leahy-Smith America Invents Act (e.g., post-grant review, inter... Availability of Patent Fee Changes Under the Leahy- Smith America Invents Act AGENCY: United States Patent and... of the Leahy-Smith America Invents Act (i.e., September 26, 2011) by operation of the fifteen percent...

U.S. Pacific Command > About USPACOM > History

Science.gov Websites

H.M. Smith, which is also the headquarters of Commander, Marine Forces Pacific. CINCPAC also served Unit Awards. History of Camp H.M. Smith Camp H.M. Smith, home of the headquarters of Commander, U.S highly regarded Marine leader during World War II, General Holland McTyeire Smith. The Marines took up

DOE Office of Scientific and Technical Information (OSTI.GOV)

Li, Heng, E-mail: hengli@mdanderson.org; Zhu, X. Ronald; Zhang, Xiaodong

Purpose: To develop and validate a novel delivery strategy for reducing the respiratory motion–induced dose uncertainty of spot-scanning proton therapy. Methods and Materials: The spot delivery sequence was optimized to reduce dose uncertainty. The effectiveness of the delivery sequence optimization was evaluated using measurements and patient simulation. One hundred ninety-one 2-dimensional measurements using different delivery sequences of a single-layer uniform pattern were obtained with a detector array on a 1-dimensional moving platform. Intensity modulated proton therapy plans were generated for 10 lung cancer patients, and dose uncertainties for different delivery sequences were evaluated by simulation. Results: Without delivery sequence optimization,more » the maximum absolute dose error can be up to 97.2% in a single measurement, whereas the optimized delivery sequence results in a maximum absolute dose error of ≤11.8%. In patient simulation, the optimized delivery sequence reduces the mean of fractional maximum absolute dose error compared with the regular delivery sequence by 3.3% to 10.6% (32.5-68.0% relative reduction) for different patients. Conclusions: Optimizing the delivery sequence can reduce dose uncertainty due to respiratory motion in spot-scanning proton therapy, assuming the 4-dimensional CT is a true representation of the patients' breathing patterns.« less

Setting standards and monitoring quality in the NHS 1999-2013: a classic case of goal conflict.

PubMed

Littlejohns, Peter; Knight, Alec; Littlejohns, Anna; Poole, Tara-Lynn; Kieslich, Katharina

2017-04-01

2013 saw the National Health Service (NHS) in England severely criticized for providing poor quality despite successive governments in the previous 15 years, establishing a range of new institutions to improve NHS quality. This study seeks to understand the contributions of political and organizational influences in enabling the NHS to deliver high-quality care through exploring the experiences of two of the major new organizations established to set standards and monitor NHS quality. We used a mixed method approach: first a cross-sectional, in-depth qualitative interview study and then the application of principal agent modeling (Waterman and Meier broader framework). Ten themes were identified as influencing the functioning of the NHS regulatory institutions: socio-political environment; governance and accountability; external relationships; clarity of purpose; organizational reputation; leadership and management; organizational stability; resources; organizational methods; and organizational performance. The organizations could be easily mapped onto the framework, and their transience between the different states could be monitored. We concluded that differing policy objectives for NHS quality monitoring resulted in central involvement and organizational change. This had a disruptive effect on the ability of the NHS to monitor quality. Constant professional leadership, both clinical and managerial, and basing decisions on best evidence, both technical and organizational, helped one institution to deliver on its remit, even within a changing political/policy environment. Application of the Waterman-Meier framework enabled an understanding and description of the dynamic relationship between central government and organizations in the NHS and may predict when tensions will arise in the future. © 2016 The Authors. The International Journal of Health Planning and Management Published by John Wiley & Sons Ltd. © 2016 The Authors. The International Journal of Health Planning and Management Published by John Wiley & Sons Ltd.

Experimental analysis of chaotic neural network models for combinatorial optimization under a unifying framework.

PubMed

Kwok, T; Smith, K A

2000-09-01

The aim of this paper is to study both the theoretical and experimental properties of chaotic neural network (CNN) models for solving combinatorial optimization problems. Previously we have proposed a unifying framework which encompasses the three main model types, namely, Chen and Aihara's chaotic simulated annealing (CSA) with decaying self-coupling, Wang and Smith's CSA with decaying timestep, and the Hopfield network with chaotic noise. Each of these models can be represented as a special case under the framework for certain conditions. This paper combines the framework with experimental results to provide new insights into the effect of the chaotic neurodynamics of each model. By solving the N-queen problem of various sizes with computer simulations, the CNN models are compared in different parameter spaces, with optimization performance measured in terms of feasibility, efficiency, robustness and scalability. Furthermore, characteristic chaotic neurodynamics crucial to effective optimization are identified, together with a guide to choosing the corresponding model parameters.

A Divergent SAR Study Allows Optimization of a Potent 5-HT2c Inhibitor to a Promising Antimalarial Scaffold.

PubMed

Calderón, Félix; Vidal-Mas, Jaume; Burrows, Jeremy; de la Rosa, Juan Carlos; Jiménez-Díaz, María Belén; Mulet, Teresa; Prats, Sara; Solana, Jorge; Witty, Michael; Gamo, Francisco Javier; Fernández, Esther

2012-05-10

From the 13 533 chemical structures published by GlaxoSmithKline in 2010, we identified 47 quality starting points for lead optimization. One of the most promising hits was the TCMDC-139046, a molecule presenting an indoline core, which is well-known for its anxiolytic properties by interacting with serotonin antagonist receptors 5-HT2. The inhibition of this target will complicate the clinical development of these compounds as antimalarials. Herein, we present the antimalarial profile of this series and our efforts to avoid interaction with this receptor, while maintaining a good antiparasitic potency. By using a double-divergent structure-activity relationship analysis, we have obtained a novel lead compound harboring an indoline core.

Optimization process planning using hybrid genetic algorithm and intelligent search for job shop machining.

PubMed

Salehi, Mojtaba; Bahreininejad, Ardeshir

2011-08-01

Optimization of process planning is considered as the key technology for computer-aided process planning which is a rather complex and difficult procedure. A good process plan of a part is built up based on two elements: (1) the optimized sequence of the operations of the part; and (2) the optimized selection of the machine, cutting tool and Tool Access Direction (TAD) for each operation. In the present work, the process planning is divided into preliminary planning, and secondary/detailed planning. In the preliminary stage, based on the analysis of order and clustering constraints as a compulsive constraint aggregation in operation sequencing and using an intelligent searching strategy, the feasible sequences are generated. Then, in the detailed planning stage, using the genetic algorithm which prunes the initial feasible sequences, the optimized operation sequence and the optimized selection of the machine, cutting tool and TAD for each operation based on optimization constraints as an additive constraint aggregation are obtained. The main contribution of this work is the optimization of sequence of the operations of the part, and optimization of machine selection, cutting tool and TAD for each operation using the intelligent search and genetic algorithm simultaneously.

Optimization process planning using hybrid genetic algorithm and intelligent search for job shop machining

PubMed Central

Salehi, Mojtaba

2010-01-01

Optimization of process planning is considered as the key technology for computer-aided process planning which is a rather complex and difficult procedure. A good process plan of a part is built up based on two elements: (1) the optimized sequence of the operations of the part; and (2) the optimized selection of the machine, cutting tool and Tool Access Direction (TAD) for each operation. In the present work, the process planning is divided into preliminary planning, and secondary/detailed planning. In the preliminary stage, based on the analysis of order and clustering constraints as a compulsive constraint aggregation in operation sequencing and using an intelligent searching strategy, the feasible sequences are generated. Then, in the detailed planning stage, using the genetic algorithm which prunes the initial feasible sequences, the optimized operation sequence and the optimized selection of the machine, cutting tool and TAD for each operation based on optimization constraints as an additive constraint aggregation are obtained. The main contribution of this work is the optimization of sequence of the operations of the part, and optimization of machine selection, cutting tool and TAD for each operation using the intelligent search and genetic algorithm simultaneously. PMID:21845020

75 FR 16099 - Mr. Jerry McMillan and Ms. Christine Smith; Notice of Termination of License by Implied Surrender...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-03-31

... McMillan and Ms. Christine Smith; Notice of Termination of License by Implied Surrender and Soliciting... surrender b. Project No.: P-9907-018 c. Licensees: Mr. Jerry McMillan and Ms. Christine Smith d. Name of... ] 62,282). The project was transferred to Mr. Jerry McMillan and Ms. Christine Smith by order on...

78 FR 16182 - Changes To Implement the First Inventor To File Provisions of the Leahy-Smith America Invents Act...

Federal Register 2010, 2011, 2012, 2013, 2014

2013-03-14

...-2012-0015] RIN 0651-AC77 Changes To Implement the First Inventor To File Provisions of the Leahy-Smith... inventor to file provisions of the Leahy-Smith America Invents Act (AIA) (First Inventor to File Final Rule... provisions of the AIA. See Changes To Implement the First Inventor To File Provisions of the Leahy-Smith...

The Adventures of Captain John Smith, Pocahontas and a Sundial: Cosmology, Mathematics, and Power at the Time of Jamestown

NASA Astrophysics Data System (ADS)

Schechner, Sara J.

2007-12-01

While exploring the Chickahominy River in Virginia by canoe in December 1607, Captain John Smith was ambushed by 200 Powhatan Indians and chased into the swamp. Wounded by arrows and mired in the cold mud, Smith surrendered and was led to their chieftain, Opechancanough. Smith played for time. He pulled out his pocket sundial and proceeded to deliver a lecture on astronomy. The Indians marveled at the dancing needle of the magnetic compass, which they could plainly see but not touch because of the glass cover. They apparently thought less of his discourse in a foreign language on the sun, moon, and planets, as within the hour, Smith's captors had him tied to a tree and were ready to shoot him. But then, Opechancanough held the sundial aloft and spared Smith's life. For the next month, Smith was paraded around various Indian villages before being condemned to have his head bashed in. Pocahontas, however, threw herself across Smith's body in order to save his life. This legendary episode reveals more than Smith's ingenuity. His compass sundial, shaped and marked like a celestial globe, was a microcosm of his universe. It embodied the belief that the smallest things mirrored the large, that number was the key to God's creation, and that by means of mathematical instruments, men could dominate that world (or at least extricate themselves from tight spots!). This paper will examine the astronomical ideas and instruments on which these beliefs were based, and show how ultimately, Smith's sundial also represented the clash of two cosmologies-that of the Indians and European settlers.

Aerospace Engineer Lizalyn Smith

NASA Image and Video Library

2017-01-09

Portrait of Orion Service Module Spacecraft Adapter Jettisonable (SAJ) Hardware Lead Engineer Lizalyn Smith. Ms. Smith participated in various 'Hidden Figures to Modern Figures' events sponsored by NASA Glenn Research Center to encourage students to pursue STEM-based careers.

Sunrayce 97 Continues Day 6 - Manhattan to Smith Center

Science.gov Websites

6 - Manhattan to Smith Center For more information contact: Patrick Booher, Sunrayce Program Manager (202) 586-0713 Smith Center, Kan.- --Racing across the heartland of Kansas at 46.11 mph

Comprehensive Thematic T-Matrix Reference Database: A 2015-2017 Update

NASA Technical Reports Server (NTRS)

Mishchenko, Michael I.; Zakharova, Nadezhda; Khlebtsov, Nikolai G.; Videen, Gorden; Wriedt, Thomas

2017-01-01

The T-matrix method pioneered by Peter C. Waterman is one of the most versatile and efficient numerically exact computer solvers of the time-harmonic macroscopic Maxwell equations. It is widely used for the computation of electromagnetic scattering by single and composite particles, discrete random media, periodic structures (including metamaterials), and particles in the vicinity of plane or rough interfaces separating media with different refractive indices. This paper is the eighth update to the comprehensive thematic database of peer-reviewed T-matrix publications initiated in 2004 and lists relevant publications that have appeared since 2015. It also references a small number of earlier publications overlooked previously.

27. RW Meyer Sugar Mill: 18761889. Centrifugals, 1879, 1881. Manufacturer, ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

27. RW Meyer Sugar Mill: 1876-1889. Centrifugals, 1879, 1881. Manufacturer, Unknown. Supplied by Honolulu Ironworks, Honolulu Hawaii, 1879, 1881. View: Historical view, 1934, from T.T. Waterman collection, Hawaiian Sugar Planters' Association. With the inner basket of the centrifugal revolving at 1200 rpm molasses flew outward from the granulated sugar, through the holes in the brass lining, and into the stationary outer basket. The molasses drained through the spout at the right and into molasses storage pits below the floor. The centrifugals were underdriven with a belt connected to the pulley beneath the basket. - R. W. Meyer Sugar Mill, State Route 47, Kualapuu, Maui County, HI

Empowerment in the service industry: an empirical study in Taiwan.

PubMed

Lin, Carol Yeh-Yun

2002-09-01

Employee empowerment is an essential managerial means that can be used to obtain competitive advantages from human resources in the new millennium. A comprehensive understanding of the essence of empowerment is crucial to facilitate its effective implementation. In this article, the author proposes a 4-dimensional empowerment model in an organizational setting and a matrix that incorporates the 4 dimensions and the 7S (R. H. Waterman, T. J. Peters, & J. R. Phillips, 1980) organizational factors. In addition, this study represents an empirical examination of the effects of personal and company characteristics on empowerment. The implications of the research results are discussed.

Comprehensive thematic T-matrix reference database: A 2015-2017 update

NASA Astrophysics Data System (ADS)

Mishchenko, Michael I.; Zakharova, Nadezhda T.; Khlebtsov, Nikolai G.; Videen, Gorden; Wriedt, Thomas

2017-11-01

The T-matrix method pioneered by Peter C. Waterman is one of the most versatile and efficient numerically exact computer solvers of the time-harmonic macroscopic Maxwell equations. It is widely used for the computation of electromagnetic scattering by single and composite particles, discrete random media, periodic structures (including metamaterials), and particles in the vicinity of plane or rough interfaces separating media with different refractive indices. This paper is the eighth update to the comprehensive thematic database of peer-reviewed T-matrix publications initiated in 2004 and lists relevant publications that have appeared since 2015. It also references a small number of earlier publications overlooked previously.

Genetics Home Reference: 16p12.2 microdeletion

MedlinePlus

... Bean LJH, Bird TD, Ledbetter N, Mefford HC, Smith RJH, Stephens K, editors. GeneReviews® [Internet]. Seattle (WA): ... Mark PR, Dickerson J, Garg BP, Ellingwood SA, Smith R, Banks VC, Smith W, McDonald MT, Hoo ...

Accurate multiple sequence-structure alignment of RNA sequences using combinatorial optimization.

PubMed

Bauer, Markus; Klau, Gunnar W; Reinert, Knut

2007-07-27

The discovery of functional non-coding RNA sequences has led to an increasing interest in algorithms related to RNA analysis. Traditional sequence alignment algorithms, however, fail at computing reliable alignments of low-homology RNA sequences. The spatial conformation of RNA sequences largely determines their function, and therefore RNA alignment algorithms have to take structural information into account. We present a graph-based representation for sequence-structure alignments, which we model as an integer linear program (ILP). We sketch how we compute an optimal or near-optimal solution to the ILP using methods from combinatorial optimization, and present results on a recently published benchmark set for RNA alignments. The implementation of our algorithm yields better alignments in terms of two published scores than the other programs that we tested: This is especially the case with an increasing number of input sequences. Our program LARA is freely available for academic purposes from http://www.planet-lisa.net.

The Meteoritical Society

Science.gov Websites

changed. The 2018 J. Lawrence Smith ... 02/06 18:50 The 2018 J. Lawrence Smith Medal awarded to Kevin McKeegan The 2018 J. Lawrence Smith Medal of the National Academy ... 722563 visitors Copyright © 2002

Return to Baseline: Some Comments on Smith's Reinterpretation of Seclusionary Timeout.

ERIC Educational Resources Information Center

Polsgrove, Lewis

1982-01-01

The author replies to an earlier contention of D. Smith (EC 133 830) that seclusionary timeout for behavior disordered children actually constitutes extinction rather than aversive control. The author cites methodological flaws in Smith's studies. (CL)

Waldo E. Smith receives first award of his namesake medal

NASA Astrophysics Data System (ADS)

Smith, Waldo E.

This evening marks the first presentation of the American Geophysical Union's Waldo E. Smith Award. While all other AGU awards and honors are given for excellence in scientific research in one or another of the geophysical disciplines, this award is different. The Waldo E. Smith Award is given for dedicated and extraordinary service to geophysics and AGU. It is the principal purpose of this citation to show why it is particularly appropriate that an award for service to American geophysics should be called the Waldo E. Smith Award. A secondary objective, aimed at those present tonight, is to introduce the first recipient of this award, Waldo E. Smith, Executive Director Emeritus of AGU.

Landing flying qualities evaluation criteria for augmented aircraft

NASA Technical Reports Server (NTRS)

Radford, R. C.; Smith, R.; Bailey, R.

1980-01-01

The criteria evaluated were: Calspan Neal-Smith; Onstott (Northrop Time Domain); McDonnell-Douglas Equivalent System Approach; R. H. Smith Criterion. Each criterion was applied to the same set of longitudinal approach and landing flying qualities data. A revised version of the Neal-Smith criterion which is applicable to the landing task was developed and tested against other landing flying qualities data. Results indicated that both the revised Neal-Smith criterion and the Equivalent System Approach are good discriminators of pitch landing flying qualities; Neal-Smith has particular merit as a design guide, while the Equivalent System Approach is well suited for development of appropriate military specification requirements applicable to highly augmented aircraft.

Patterns of Care and Disparities in the Treatment of Early Breast Cancer

DTIC Science & Technology

2008-09-30

renal impairment in heart failure : mortality in blacks versus whites. Circulation. 2005 Mar 15;111(10):1270-7. 19. Smith BD, Smith GL, Haffty BG...Lichtman JH, Krumholz HM. Functional status and quality of life in heart failure patients with renal impairment. Circulation 106(16):e76, 2002...Theses 1. Ph.D.: Smith GL. Renal Impairment in Heart Failure : Prevalence, Prognosis, and Detection. 2007. 41 2. M.D.: Smith GL. Patterns of

31 CFR 306.56 - Assignment of securities registered in the names of or assigned to two or more persons.

Code of Federal Regulations, 2010 CFR

2010-07-01

... assigned to two or more persons in the alternative, for example, “John B. Smith or Mrs. Mary J. Smith” or “John B. Smith or Mrs. Mary J. Smith or the survivor,” may be assigned by one of them at maturity or... the names of or assigned to two or more persons jointly, for example, “John B. Smith and Mrs. Mary J...

76 FR 18548 - Clean Water Act Section 303(d): Final Agency Action on Three Total Maximum Daily Loads (TMDLs) in...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-04-04

... Smith at the address below. Please contact Ms. Smith to schedule an inspection. FOR FURTHER INFORMATION CONTACT: Diane Smith, Environmental Protection Specialist, Water Quality Protection Division, U.S. EPA...

SMITH FARM FROM EBEY ROAD, LOOKING NORTH. (At the right, ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

SMITH FARM FROM EBEY ROAD, LOOKING NORTH. (At the right, this image shows the addition added to the granary in 1998 in order to adapt it to a family home.) - Smith Farm, 399 Ebey Road, Coupeville, Island County, WA

Search-based optimization

NASA Technical Reports Server (NTRS)

Wheeler, Ward C.

2003-01-01

The problem of determining the minimum cost hypothetical ancestral sequences for a given cladogram is known to be NP-complete (Wang and Jiang, 1994). Traditionally, point estimations of hypothetical ancestral sequences have been used to gain heuristic, upper bounds on cladogram cost. These include procedures with such diverse approaches as non-additive optimization of multiple sequence alignment, direct optimization (Wheeler, 1996), and fixed-state character optimization (Wheeler, 1999). A method is proposed here which, by extending fixed-state character optimization, replaces the estimation process with a search. This form of optimization examines a diversity of potential state solutions for cost-efficient hypothetical ancestral sequences and can result in greatly more parsimonious cladograms. Additionally, such an approach can be applied to other NP-complete phylogenetic optimization problems such as genomic break-point analysis. c2003 The Willi Hennig Society. Published by Elsevier Science (USA). All rights reserved.

Novel 1,2-dihydroquinazolin-2-ones: Design, synthesis, and biological evaluation against Trypanosoma brucei.

PubMed

Pham, ThanhTruc; Walden, Madeline; Butler, Christopher; Diaz-Gonzalez, Rosario; Pérez-Moreno, Guiomar; Ceballos-Pérez, Gloria; Gomez-Pérez, Veronica; García-Hernández, Raquel; Zecca, Henry; Krakoff, Emma; Kopec, Brian; Ichire, Ogar; Mackenzie, Caden; Pitot, Marika; Ruiz, Luis Miguel; Gamarro, Francisco; González-Pacanowska, Dolores; Navarro, Miguel; Dounay, Amy B

2017-08-15

In 2014, a published report of the high-throughput screen of>42,000 kinase inhibitors from GlaxoSmithKline against T. brucei identified 797 potent and selective hits. From this rich data set, we selected NEU-0001101 (1) for hit-to-lead optimization. Through our preliminary compound synthesis and SAR studies, we have confirmed the previously reported activity of 1 in a T. brucei cell proliferation assay and have identified alternative groups to replace the pyridyl ring in 1. Pyrazole 24 achieves improvements in both potency and lipophilicity relative to 1, while also showing good in vitro metabolic stability. The SAR developed on 24 provides new directions for further optimization of this novel scaffold for anti-trypanosomal drug discovery. Copyright © 2017 Elsevier Ltd. All rights reserved.

Henry Hollingsworth Smith and His Bibliographical Index and Historical Record: The Beginning of American Surgical Historiography.

PubMed

Rutkow, Ira

2016-04-01

To explore the details of Henry Hollingsworth Smith's (1815-1890) achievement as the first physician to organize in a systematic and chronologic manner the details of the history of surgery in America and prepare a register of men who performed surgical operations. The life of Smith, the earliest of the nation's surgeons to elucidate the history of American surgery, is little known. His boosting the image of the scalpel wielder helped shape the future of the craft, in particular, surgery's rise as a specialty and profession. An analysis of the published medical literature and unpublished documents relating to Smith and his work to document the history of American surgery. During the 1850 s, a time when surgery was not considered a separate branch of medicine but a mere technical mode of treatment, Smith's efforts in surgical history provided much needed encouragement to surgeons in their pursuit of professional recognition. Although Smith's accomplishment as the nation's first compiler of the history of American surgery has long been forgotten, his effort afforded the men who performed surgical operations their earliest measure of self-respect. As such, Smith belongs in America's pantheon of surgical heroes.

31 CFR 315.40 - Special provisions for payment.

Code of Federal Regulations, 2010 CFR

2010-07-01

... names and the manner in which the change was made; for example, “Mary T. Jones Smith (Mary T. J. Smith or Mary T. Smith) changed by marriage from Mary T. Jones,” or “John R. Young, changed by order of...

Genetics Home Reference: CATSPER1-related nonsyndromic male infertility

MedlinePlus

... Avenarius MR, Hildebrand MS, Zhang Y, Meyer NC, Smith LL, Kahrizi K, Najmabadi H, Smith RJ. Human male infertility caused by mutations in ... article on PubMed Central Hildebrand MS, Avenarius MR, Smith RJH. CATSPER-Related Male Infertility. 2009 Dec 3 [ ...

Optimal control design of turbo spin‐echo sequences with applications to parallel‐transmit systems

PubMed Central

Hoogduin, Hans; Hajnal, Joseph V.; van den Berg, Cornelis A. T.; Luijten, Peter R.; Malik, Shaihan J.

2016-01-01

Purpose The design of turbo spin‐echo sequences is modeled as a dynamic optimization problem which includes the case of inhomogeneous transmit radiofrequency fields. This problem is efficiently solved by optimal control techniques making it possible to design patient‐specific sequences online. Theory and Methods The extended phase graph formalism is employed to model the signal evolution. The design problem is cast as an optimal control problem and an efficient numerical procedure for its solution is given. The numerical and experimental tests address standard multiecho sequences and pTx configurations. Results Standard, analytically derived flip angle trains are recovered by the numerical optimal control approach. New sequences are designed where constraints on radiofrequency total and peak power are included. In the case of parallel transmit application, the method is able to calculate the optimal echo train for two‐dimensional and three‐dimensional turbo spin echo sequences in the order of 10 s with a single central processing unit (CPU) implementation. The image contrast is maintained through the whole field of view despite inhomogeneities of the radiofrequency fields. Conclusion The optimal control design sheds new light on the sequence design process and makes it possible to design sequences in an online, patient‐specific fashion. Magn Reson Med 77:361–373, 2017. © 2016 The Authors Magnetic Resonance in Medicine published by Wiley Periodicals, Inc. on behalf of International Society for Magnetic Resonance in Medicine PMID:26800383

76 FR 21830 - Proposed Amendment of Class E Airspace; Harrisonville, MO

Federal Register 2010, 2011, 2012, 2013, 2014

2011-04-19

... necessary to accommodate new Standard Instrument Approach Procedures (SIAP) at Lawrence Smith Memorial... accommodate new standard instrument approach procedures at Lawrence Smith Memorial Airport, Harrisonville, MO... authority as it would amend controlled airspace at Lawrence Smith Memorial Airport, Harrisonville, MO. List...

LISTA, LISTA-HOP and LISTA-HON: a comprehensive compilation of protein encoding sequences and its associated homology databases from the yeast Saccharomyces.

PubMed Central

Dölz, R; Mossé, M O; Slonimski, P P; Bairoch, A; Linder, P

1996-01-01

We continued our effort to make a comprehensive database (LISTA) for the yeast Saccharomyces cerevisiae. As in previous editions the genetic names are consistently associated to each sequence with a known and confirmed ORF. If necessary, synonyms are given in the case of allelic duplicated sequences. Although the first publication of a sequence gives-according to our rules-the genetic name of a gene, in some instances more commonly used names are given to avoid nomenclature problems and the use of ancient designations which are no longer used. In these cases the old designation is given as synonym. Thus sequences can be found either by the name or by synonyms given in LISTA. Each entry contains the genetic name, the mnemonic from the EMBL data bank, the codon bias, reference of the publication of the sequence, Chromosomal location as far as known, SWISSPROT and EMBL accession numbers. New entries will also contain the name from the systematic sequencing efforts. Since the release of LISTA4.1 we update the database continuously. To obtain more information on the included sequences, each entry has been screened against non-redundant nucleotide and protein data bank collections resulting in LISTA-HON and LISTA-HOP. This release includes reports from full Smith and Watermann peptide-level searches against a non-redundant protein sequence database. The LISTA data base can be linked to the associated data sets or to nucleotide and protein banks by the Sequence Retrieval System (SRS). The database is available by FTP and on World Wide Web. PMID:8594599

Development of Scoring Functions for Antibody Sequence Assessment and Optimization

PubMed Central

Seeliger, Daniel

2013-01-01

Antibody development is still associated with substantial risks and difficulties as single mutations can radically change molecule properties like thermodynamic stability, solubility or viscosity. Since antibody generation methodologies cannot select and optimize for molecule properties which are important for biotechnological applications, careful sequence analysis and optimization is necessary to develop antibodies that fulfil the ambitious requirements of future drugs. While efforts to grab the physical principles of undesired molecule properties from the very bottom are becoming increasingly powerful, the wealth of publically available antibody sequences provides an alternative way to develop early assessment strategies for antibodies using a statistical approach which is the objective of this paper. Here, publically available sequences were used to develop heuristic potentials for the framework regions of heavy and light chains of antibodies of human and murine origin. The potentials take into account position dependent probabilities of individual amino acids but also conditional probabilities which are inevitable for sequence assessment and optimization. It is shown that the potentials derived from human sequences clearly distinguish between human sequences and sequences from mice and, hence, can be used as a measure of humaness which compares a given sequence with the phenotypic pool of human sequences instead of comparing sequence identities to germline genes. Following this line, it is demonstrated that, using the developed potentials, humanization of an antibody can be described as a simple mathematical optimization problem and that the in-silico generated framework variants closely resemble native sequences in terms of predicted immunogenicity. PMID:24204701

Two Rival Conceptions of Vocational Education: Adam Smith and Friedrich List.

ERIC Educational Resources Information Center

Winch, Christopher

1998-01-01

Examines and discusses two views of political economy: (1) the classical model of Adam Smith; and (2) the social capitalist model associated with Friedrich List. Explores two varieties of vocational education and training that emerge from a comparison of Smith's and List's ideas. (CMK)

26 CFR 11.404(a)(6)-1 - Time when contributions to “H.R. 10” plans considered made.

Code of Federal Regulations, 2010 CFR

2010-04-01

.... Smith, a sole proprietor whose taxable year is the calendar year, made a contribution to the Smith... within a plan year which began after December 31, 1974, the contribution may be deducted on Mr. Smith's...

Scientific and Organizational Awards | NREL

Science.gov Websites

Rehman, Fan Zhang, Michael Evzelman, Regan Zane, Kandler Smith, and Dragan Maksimovic 2015 Best Paper organizations. American Association of Blacks in Energy (AABE) 2005 Chairman's Cup Syl Morgan-Smith American Metropolitan Denver 2006 Outstanding Community Service Award Syl Morgan-Smith World Renewable Energy Congress

Optimal digital dynamical decoupling for general decoherence via Walsh modulation

NASA Astrophysics Data System (ADS)

Qi, Haoyu; Dowling, Jonathan P.; Viola, Lorenza

2017-11-01

We provide a general framework for constructing digital dynamical decoupling sequences based on Walsh modulation—applicable to arbitrary qubit decoherence scenarios. By establishing equivalence between decoupling design based on Walsh functions and on concatenated projections, we identify a family of optimal Walsh sequences, which can be exponentially more efficient, in terms of the required total pulse number, for fixed cancellation order, than known digital sequences based on concatenated design. Optimal sequences for a given cancellation order are highly non-unique—their performance depending sensitively on the control path. We provide an analytic upper bound to the achievable decoupling error and show how sequences within the optimal Walsh family can substantially outperform concatenated decoupling in principle, while respecting realistic timing constraints.

Secondary structure and phylogeny of Staphylococcus and Micrococcus 5S rRNAs.

PubMed Central

Dekio, S; Yamasaki, R; Jidoi, J; Hori, H; Osawa, S

1984-01-01

Nucleotide sequences of 5S rRNAs from four bacteria, Staphylococcus aureus Smith (diffuse), Staphylococcus epidermidis ATCC 14990, Micrococcus luteus ATCC 9341 and Micrococcus luteus ATCC 4698, were determined. The secondary structural models of S. aureus and S. epidermidis sequences showed characteristics of the gram-positive bacterial 5S rRNA (116-N type [H. Hori and S. Osawa, Proc. Natl. Acad. Sci. U.S.A. 76:381-385, 1979]). Those of M. luteus ATCC 9341 and M. luteus ATCC 4698 together with that of Streptomyces griseus (A. Simoncsits, Nucleic Acids Res. 8:4111-4124, 1980) showed intermediary characteristics between the gram-positive and gram-negative (120-N type [H. Hori and S. Osawa, 1979]) 5S rRNAs. This and previous studies revealed that there exist at least three major groups of eubacteria having distinct 5S rRNA and belonging to different stems in the 5S rRNA phylogenic tree. PMID:6735981

The solution space of sorting by DCJ.

PubMed

Braga, Marília D V; Stoye, Jens

2010-09-01

In genome rearrangements, the double cut and join (DCJ) operation, introduced by Yancopoulos et al. in 2005, allows one to represent most rearrangement events that could happen in multichromosomal genomes, such as inversions, translocations, fusions, and fissions. No restriction on the genome structure considering linear and circular chromosomes is imposed. An advantage of this general model is that it leads to considerable algorithmic simplifications compared to other genome rearrangement models. Recently, several works concerning the DCJ operation have been published, and in particular, an algorithm was proposed to find an optimal DCJ sequence for sorting one genome into another one. Here we study the solution space of this problem and give an easy-to-compute formula that corresponds to the exact number of optimal DCJ sorting sequences for a particular subset of instances of the problem. We also give an algorithm to count the number of optimal sorting sequences for any instance of the problem. Another interesting result is the demonstration of the possibility of obtaining one optimal sorting sequence by properly replacing any pair of consecutive operations in another optimal sequence. As a consequence, any optimal sorting sequence can be obtained from one other by applying such replacements successively, but the problem of finding the shortest number of replacements between two sorting sequences is still open.

Adam Smith and the Rhetoric of Style.

ERIC Educational Resources Information Center

Moran, Michael G.

Historians of rhetoric have generally accepted the view that Adam Smith rejected the principles of classical rhetoric. However, while there can be no doubt that Smith greatly truncated the five classical arts of rhetoric (invention, arrangement, style, memory, and delivery) by reducing his concerns largely to style and arrangement, he did not…

Guide to the Logan Pearsall Smith Collection.

ERIC Educational Resources Information Center

Pettit, Katherine Denshaw

A guide to the Logan Pearsall Smith Collection at Trinity University Elizabeth Coates Maddux Library in San Antonio, Texas provides a descriptive overview of the collected works of this renowned epigrammatist, critic, essayist, biographer, and authority on the English language. The guide includes a brief biography of Smith (1865-1946), detailed…

76 FR 73683 - Whirlpool Corporation, Including On-Site Leased Workers From Career Solutions TEC Staffing...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-11-29

..., Inc., Fort Smith, AR; Amended Certification Regarding Eligibility To Apply for Worker Adjustment... Career Solutions TEC Staffing, Fort Smith, Arkansas. The workers are engaged in the production of...., Prodriver, and Arkansas Warehouse, Inc. were employed on-site at the Fort Smith, Arkansas location of...

75 FR 9441 - Lucas-Smith Automotive, Inc.: Potosi, MO; Notice of Negative Determination Regarding Application...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-03-02

... DEPARTMENT OF LABOR Employment and Training Administration [TA-W-71,388] Lucas-Smith Automotive, Inc.: Potosi, MO; Notice of Negative Determination Regarding Application for Reconsideration By...), applicable to workers and former workers of Lucas- Smith Automotive, Inc., Potosi, Missouri (subject firm...

33 CFR 117.841 - Smith Creek.

Code of Federal Regulations, 2010 CFR

2010-07-01

... 33 Navigation and Navigable Waters 1 2010-07-01 2010-07-01 false Smith Creek. 117.841 Section 117.841 Navigation and Navigable Waters COAST GUARD, DEPARTMENT OF HOMELAND SECURITY BRIDGES DRAWBRIDGE OPERATION REGULATIONS Specific Requirements North Carolina § 117.841 Smith Creek. The draw of the S117-S133...

27 CFR 9.112 - Arkansas Mountain.

Code of Federal Regulations, 2010 CFR

2010-04-01

.... (2) Fort Smith, Arkansas-Oklahoma, 1:250,000 series, 1978. (c) Boundary—(1) General. The Arkansas... converges with the Arkansas River, near Yoestown, Arkansas (or the Fort Smith map), the boundary proceeds... county line to Jones Fork (on the Fort Smith map). (xvi) Then southward along Jones Fork until it joins...

36 CFR 292.61 - Definitions.

Code of Federal Regulations, 2010 CFR

2010-07-01

... RECREATION AREAS Smith River National Recreation Area § 292.61 Definitions. The special terms used in this subpart have the following meaning: Act means the Smith River National Recreation Area Act of 1990 (16 U.S.... SRNRA is the abbreviation for the Smith River National Recreation Area, located within the Six Rivers...

78 FR 42804 - Whirlpool Corporation, Including On-Site Leased Workers From Aerotek/Tek Systems (Subcontractor...

Federal Register 2010, 2011, 2012, 2013, 2014

2013-07-17

... LaSalle for Smith, Arkansas; Amended Certification Regarding Eligibility To Apply for Worker Adjustment... Systems (subcontractor of IBM Corporation), Fort Smith, Arkansas. The Department's notice of determination... employed on-site at the Fort Smith, Arkansas location of Whirlpool Corporation. The Department has...

76 FR 72978 - Whirlpool Corporation Including On-Site Leased Workers From Career Solutions TEC Staffing...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-11-28

..., TEK Systems, Penske Logistics, Eurest, and Canteen, Fort Smith, AR; Amended Certification Regarding... Corporation, including on-site leased workers from Career Solutions TEC Staffing, Fort Smith, Arkansas. The... Corporation, TEK Systems, Penske Logistics, Eurest, and Canteen were employed on-site at the Fort Smith...

Are You a Leader? How We Learned to Stop Asking

ERIC Educational Resources Information Center

Bacal, Jessica; Ly, Minh; Walters, Jennifer L.; Einbinder, Allyson

2015-01-01

Smith College initiated an ePortfolio pilot project to guide students in documenting key learning experiences and in linking those experiences to Smith's institutional mission of "developing leaders for society's challenges" (Smith College, 2011). Twenty-one college students volunteered to participate in the pilot, based on the…

STS-82 Mission Specialist Steven L. Smith Suit Up

NASA Technical Reports Server (NTRS)

1997-01-01

STS-82 Mission Specialist Steven L. Smith gives a ''';thumbs up'''; while donning his launch and entry suit in the Operations and Checkout Building. A suit technician stands ready to assist with final adjustments. This is Smith''';s second space flight. He and the six other crew members will depart shortly for Launch Pad 39A, where the Space Shuttle Discovery awaits liftoff on a 10-day mission to service the orbiting Hubble Space Telescope (HST). This will be the second HST servicing mission. Four back-to-back spacewalks are planned.

Ion and Electron Interactions at Thermal and Suprathermal Energies

DTIC Science & Technology

1988-09-30

Smith, D., in "Rate Coefficients in Astrochemistry" Ed. T.J. Millar and D.A. Williams (Reidel:Dordrecht, 1988) in press. 14)Smith, D., Dean , A.G. and...Adams, N.G., Z.Physik 253, 191 (1972). 15)Adams, N.G., Dean , A.G. and Smith, D., Int. J. Mass Spectrom. Ion Phys. 10, 63 (1972/73). 59 16)Ferguson...D. and Plumb I.C., J. Phys. D 5, 1226 (1972). 22)Smith, D., Adams, N.G., Dean , A.G. and Church, M.J., J.Phys. D. 8, 141 (1975). 23)Alge, E., Adams

New developments in Smith-Magenis syndrome (del 17p11.2).

PubMed

Gropman, Andrea L; Elsea, Sarah; Duncan, Wallace C; Smith, Ann C M

2007-04-01

Recent clinical, neuroimaging, sleep, and molecular cytogenetic studies have provided new insights into the mechanisms leading to the Smith-Magenis phenotype and are summarized in this review. Cross sectional studies of patients with Smith-Magenis syndrome have found evidence for central and peripheral nervous system abnormalities, neurobehavioral disturbances, and an inverted pattern of melatonin secretion leading to circadian rhythm disturbance. A common chromosome 17p11.2 deletion interval spanning approximately 3.5 Mb is identified in about 70% of individuals with chromosome deletion. Recently heterozygous point mutations in the RAI1 gene within the Smith-Magenis syndrome critical region have been reported in Smith-Magenis syndrome patients without detectable deletion by fluorescent in-situ hybridization. Patients with intragenic mutations in RAI1 as well as those with deletions share most but not all aspects of the phenotype. Findings from molecular cytogenetic analysis suggest that other genes or genetic background may play a role in altering the functional availability of RAI1 for downstream effects. Further research into additional genes in the Smith-Magenis syndrome critical region will help define the role they play in modifying features or severity of the Smith-Magenis syndrome phenotype. More research is needed to translate advances in clinical research into new treatment options to address the sleep and neurobehavioral problems in this disorder.

Lungfish and Life.

ERIC Educational Resources Information Center

Flannery, Maura C.

1997-01-01

Discusses the writings of Homer W. Smith, a physiologist who wrote novels, histories of religion, textbooks, and a book on the kidney for the general reader. Smith's writing skills remind students that biologists are as multidimensional as the rest of the population. Smith shows that all parts of life are interrelated as they enrich and shed light…

Rhetorical Studies: A Reassessment of Adam Smith's Lectures on Rhetoric and Belles Lettres.

ERIC Educational Resources Information Center

Purcell, William M.

1986-01-01

Offers a dissenting interpretation of Adam Smith's Lectures on Rhetoric and Belles Lettres and a more conservative perspective on Smith's significance to the history of rhetorical theory. Views the lectures as an historical commentary on literature and rhetoric from the perspective of an eighteenth-century lecturer. (JD)

The Treatment of Smith's Invisible Hand

ERIC Educational Resources Information Center

Wight, Jonathan B.

2007-01-01

Adam Smith used the metaphor of an invisible hand to represent the instincts of human nature that direct behavior. Moderated by self-control and guided by proper institutional incentives, actions grounded in instincts can be shown to generate a beneficial social order even if not intended. Smith's concept, however, has been diluted and distorted…

Taxonomic notes and description of the male of Xenochlora nigrofemorata (Smith, 1879) (Hymenoptera: Apidae: Halictinae).

PubMed

Santos, Leandro M; Melo, Gabriel A R

2013-01-01

The present work describes for the first time the male of the bee genus Xenochlora Engel, Brooks & Yanega, 1997. The male of X. nigrofemorata (Smith, 1879) is described and illustrated. Additionally, Megalopta opacicollis Friese, 1926 is placed as a junior synonym of X. nigrofemorata (Smith, 1879).

A Disciplinary Immigrant. Alexander Smith at the University of Chicago, 1894-1911

ERIC Educational Resources Information Center

Cotter, Donald

2008-01-01

The publication in 1906 of Alexander Smith's "Introduction to general inorganic chemistry" inaugurated a decisive change in chemical pedagogy in the US, the effects of which are still evident. The nature and extent of Smith's innovations are described through a comparison of his text to its source material and contemporaries. His…

The Behavioural Phenotype of Smith-Magenis Syndrome: Evidence for a Gene-Environment Interaction

ERIC Educational Resources Information Center

Taylor, L.; Oliver, C.

2008-01-01

Background: Behaviour problems and a preference for adult contact are reported to be prominent in the phenotype of Smith-Magenis syndrome. In this study we examined the relationship between social interactions and self-injurious and aggressive/disruptive behaviour in Smith-Magenis syndrome to explore potential operant reinforcement of problem…

75 FR 34670 - Approval and Promulgation of Air Quality Implementation Plans; Maryland; Revision to Emission...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-06-18

... Promulgation of Air Quality Implementation Plans; Maryland; Revision to Emission Limitations for R. Paul Smith... revision pertains to revised emission limitations for the R. Paul Smith Power Station located in Washington... R. Paul Smith Power Station in Washington County. This facility had annual nitrogen oxides (NOx...

36 CFR 292.60 - Purpose and scope.

Code of Federal Regulations, 2010 CFR

2010-07-01

... RECREATION AREAS Smith River National Recreation Area § 292.60 Purpose and scope. (a) Purpose. The... operations on National Forest System lands within the Smith River National Recreation Area as established by Congress in the Smith River National Recreation Area Act of 1990 (16 U.S.C. 460bbb et seq.). (b) Scope. The...

77 FR 19719 - Whirlpool Corporation Including On-Site Leased Workers From Career Solutions TEC Staffing, IBM...

Federal Register 2010, 2011, 2012, 2013, 2014

2012-04-02

... Including Workers Whose Unemployment Insurance (UI) Wages Are Reported Through U.S. Security Fort Smith, AR... Staffing, Fort Smith, Arkansas. The workers are engaged in the production of refrigerators and trash... information shows that workers leased from Andrews International employed on-site at the Fort Smith, Arkansas...

20 CFR 416.315 - Who may sign an application.

Code of Federal Regulations, 2010 CFR

2010-04-01

.... Example: Mr. Smith comes to a Social Security office to file an application for SSI disability benefits... asked Mr. Smith, whose only relationship is that of a neighbor and friend, to file the application for him. We will accept an application signed by Mr. Smith since it would not be possible to have Mr...

40 CFR 147.701 - State-administered program-Class II wells.

Code of Federal Regulations, 2010 CFR

2010-07-01

..., etc., Illinois Revised Statutes ch. 961/2, sections 5401 to 5457 (Smith-Hurd 1979 and Supp. 1983), as...) Illinois Environmental Protection Act, Illinois Revised Statutes ch. 1111/2, sections 1001-1051 (Smith-Hurd... 2910 to 2916 (West); (3) Illinois Revised Statutes ch. 1001/2, section 26 (Smith-Hurd Supp. 1983); (4...

78 FR 59317 - Approval and Promulgation of Air Quality Implementation Plans; Maryland; Revision to Emission...

Federal Register 2010, 2011, 2012, 2013, 2014

2013-09-26

... for R. Paul Smith Power Station; Withdrawal of Proposed Rule AGENCY: Environmental Protection Agency... revision pertains to revised emission limitations for the R. Paul Smith Power Station located in Washington... action to approve the revised emission limitations for the R. Paul Smith Power Station contained in the...

75 FR 48921 - Administrative Guidance for Multistate Extension Activities and Integrated Research and Extension...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-08-12

.... Section 105 of AREERA amended the Smith-Lever Act to require that a specified amount of agricultural... Hatch Act and Smith-Lever Act to require that a specified amount of agricultural research and extension... Smith- Lever Act funds on multistate extension activities and 25 percent on integrated research and...

Response to "Exploring the Religious-Spiritual Needs of the Dying."

ERIC Educational Resources Information Center

Holden, Janice Miner

1993-01-01

Responds to previous article by Douglas C. Smith on exploring the religious-spiritual needs of the dying in which Smith presents psychosocial tools than can be used to assess, examine, and amplify client's religious-spiritual strengths. Compares Smith's work to classic values clarification, addresses issues of counselor judgment and informed…

From Test Takers to Test Makers

ERIC Educational Resources Information Center

Smith, Kari

2009-01-01

As a classroom teacher, Kari Smith realized that traditional objective tests don't always assess what students actually know. But tests are so deeply embedded in the education system that it would be difficult to do away with them entirely. Smith decided to make tests into learning tools. In this article, Smith describes three strategies for…

Oscar F. Smith Middle School: One Extra Degree

ERIC Educational Resources Information Center

Principal Leadership, 2012

2012-01-01

This article features Oscar F. Smith Middle School, a challenging school in Chesapeake, Virginia. When Principal Linda Scott exclaims, "Oscar F. Smith Middle School is "hot"!" to visitors, she is not referring to the inside temperature of the bustling school of grades 6-8 located in the historic South Norfolk borough of…

76 FR 59050 - Changes To Implement the Prioritized Examination Track (Track I) of the Enhanced Examination...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-09-23

... Enhanced Examination Timing Control Procedures Under the Leahy- Smith America Invents Act AGENCY: United...-Smith America Invents Act includes provisions for prioritized examination that emulate the requirements... provisions of section 11(h) of the Leahy-Smith America Invents Act. DATES: Effective Date: The changes in...

Bringing Sally Smith's Vision to Manayunk

ERIC Educational Resources Information Center

Ford, Jackie

2010-01-01

In this article, the author narrates her application of what she learned from her internship at Sally Smith's Lab School of Washington to her new school and shares the favorable impact it had brought on her teaching career. The author shares her first exposure to the powerful effects of Smith's "Live It, Learn It" methodology as she…

Alternative Fuels Data Center: Lee's Summit R-7 School District Delivers

Science.gov Websites

was the next step. In 2010, the district purchased four all-electric Smith Newton delivery trucks with -based Smith Electric Vehicles educated local fleet operators about the capabilities of its all-electric conventional trucks do, maintenance expenses were drastically reduced. With close proximity to Smith Electric

Demography of Honors: The Census of U.S. Honors Programs and Colleges

ERIC Educational Resources Information Center

Scott, Richard I.; Smith, Patricia J.; Cognard-Black, Andrew J.

2017-01-01

Beginning in 2013 and spanning four research articles, we have implemented an empirical analysis protocol for honors education that is rooted in demography (Scott; Scott and Smith; Smith and Scott "Growth"; Smith and Scott, "Demography"). The goal of this protocol is to describe the structure and distribution of the honors…

Publications - PIR 2002-2 | Alaska Division of Geological & Geophysical

Science.gov Websites

for more information. Quadrangle(s): Philip Smith Mountains Bibliographic Reference Harris, E.E., Mull , scale 1:63,360 (14.0 M) Digital Geospatial Data Digital Geospatial Data Philip Smith Mountains: Geologic Smith Mountains: Topo Data Download psm-topo Shapefile 11.5 M Metadata - Read me Keywords Alaska, State

Smith Tackles Oakland Unified

ERIC Educational Resources Information Center

Mellon, Ericka

2011-01-01

As a 20-something, Anthony "Tony" Smith had fulfilled one dream: playing professional football for the Green Bay Packers and the San Francisco 49ers. Next up, he thought, was law school, but a former mentor reminded him that he is a teacher. Smith never became a classroom teacher, but his background in sports--where he learned the power…

78 FR 2295 - Charlissa C. Smith; Establishment of Atomic Safety and Licensing Board

Federal Register 2010, 2011, 2012, 2013, 2014

2013-01-10

... NUCLEAR REGULATORY COMMISSION [Docket No. 55-23694-SP; ASLBP No. 13-925-01-SP-BD01] Charlissa C... (Board) is being established to preside over the following proceeding: Charlissa C. Smith, (Denial of Senior Reactor Operator License). This proceeding concerns a hearing request from Charlissa C. Smith...

Adam Smith and dependency.

PubMed

Ozler, Sule

2012-06-01

The focus of this paper is the works and life of Adam Smith, who is widely recognized as the father and founder of contemporary economics. Latent content analysis is applied to his seminal text in economics, An Inquiry into the Nature and Causes of the Wealth of Nations (1776). The results reveal that Smith considers dependence on others a problem and sees the solution to this problem in impersonalized interdependence. In addition, his views on social dependency and personal dependency, reflected in his Lectures on Jurisprudence (1963) and The Theory of Moral Sentiments (1759), are analyzed. This analysis suggests a central tension between dependence and independence in Smith's writings. The personal dependency patterns he exhibited in his life, which also suggest a tension between dependence and independence, are identified through a reading of his biographies. Based on insights from psychoanalytic literature, this paper proposes that developing the ideas in the Wealth of Nations was part of Smith's creative solution to this tension. In particular, his solution to one individual's dependence on another was through a system of impersonalized interdependence. In other words, Smith defended against his personal dependence through his economic theorizing.

Searching for Dark Matter Annihilation in the Smith High-Velocity Cloud

NASA Technical Reports Server (NTRS)

Drlica-Wagner, Alex; Gomez-Vargas, German A.; Hewitt, John W.; Linden, Tim; Tibaldo, Luigi

2014-01-01

Recent observations suggest that some high-velocity clouds may be confined by massive dark matter halos. In particular, the proximity and proposed dark matter content of the Smith Cloud make it a tempting target for the indirect detection of dark matter annihilation. We argue that the Smith Cloud may be a better target than some Milky Way dwarf spheroidal satellite galaxies and use gamma-ray observations from the Fermi Large Area Telescope to search for a dark matter annihilation signal. No significant gamma-ray excess is found coincident with the Smith Cloud, and we set strong limits on the dark matter annihilation cross section assuming a spatially extended dark matter profile consistent with dynamical modeling of the Smith Cloud. Notably, these limits exclude the canonical thermal relic cross section (approximately 3 x 10 (sup -26) cubic centimeters per second) for dark matter masses less than or approximately 30 gigaelectronvolts annihilating via the B/B- bar oscillation or tau/antitau channels for certain assumptions of the dark matter density profile; however, uncertainties in the dark matter content of the Smith Cloud may significantly weaken these constraints.

Searching For Dark Matter Annihilation In The Smith High-Velocity Cloud

DOE PAGES

Drlica-Wagner, Alex; Gómez-Vargas, Germán A.; Hewitt, John W.; ...

2014-06-27

Recent observations suggest that some high-velocity clouds may be confined by massive dark matter halos. In particular, the proximity and proposed dark matter content of the Smith Cloud make it a tempting target for the indirect detection of dark matter annihilation. We argue that the Smith Cloud may be a better target than some Milky Way dwarf spheroidal satellite galaxies and use γ-ray observations from the Fermi Large Area Telescope to search for a dark matter annihilation signal. No significant γ-ray excess is found coincident with the Smith Cloud, and we set strong limits on the dark matter annihilation crossmore » section assuming a spatially extended dark matter profile consistent with dynamical modeling of the Smith Cloud. Notably, these limits exclude the canonical thermal relic cross section (~3 × 10 -26 cm3 s -1) for dark matter masses . 30 GeV annihilating via the b¯b or τ⁺τ⁻ channels for certain assumptions of the dark matter density profile; however, uncertainties in the dark matter content of the Smith Cloud may significantly weaken these constraints.« less

British medicine in the Peruvian Andes: the travels of Archibald Smith M.D. (1820-1870).

PubMed

Lossio, Jorge

2006-01-01

This article traces the travels of the Scottish physician Archibald Smith through the Peruvian Andes between the 1820s and 1860s. Despite his prominent role in the nineteenth-century Peruvian medical scene, almost nothing has been written on Archibald Smith. By exploring Smith's medical activities, publications, and debates, this article intends to uncover unexplored areas of Peruvian medical history, such as the animosity between local and foreign physicians during the post-Independence war era and the important role played by medical geography as a scientific discipline for redefining ethnical and regional issues.

Minutes of the Explosives Safety Seminar (22nd) Held in Anaheim, California on 26-28 August 1986. Volume 1

DTIC Science & Technology

1986-08-01

105 Paul D. Smith and Theodore R. Crawford BL.AST VENTING FROM A (UIBICLE 119 Y. Kivity and S. Fellur PRESSURE/TEMPERATURE DECAY IN I11 EXPLOSION...EFFECTIVENESS OF TH 5-1300 CUBICLES ADDED TO EXISTING 201 BUILDINGS Paul M. LaHoudc DESKTOP COWffRS AND EXPLOSIVE SAFU 239 John M.Ftrritto OPTIMAL DESIGN OF...EXPLOSIVES saFwlY ON READINESS - THE 799 PRICE OF SAFETY " BG Paul L. Greenberg N) NAVAL ARMAMENT DEW FUR THE ROYAL MUMALIAN NAVY 805 Comm -W k-wroughs

Puget Sound Tanker Size Optimization.

DTIC Science & Technology

1981-06-01

6.0 ENTIRE FLEET 190 175 1,428,657 12,779.0 609.0 .- 01w OIW 77’ a LJ Iz-I, 61- 0 0 d - J c- 6-8 CLJ 6-8 E- L9 - a LA~ 1VIOI 40 IN331f3d 78 As mentioned...Transportation, U.S. Coast Guard. Report no. CG- D -21-77. 25. Wardley-Smith, J ., ed. 1979. The prevention of oil pollution. 26. Goldberg, N.N., Keith, V.F...Coast Guard. 80. Kahn, D .; Talbot, T.; and Woodward, J . Jan. 1974. Vessel safety model: vol. III Programmers’ manual. Final report. For the U.S

Optimizing Naval Hospital Camp Pendleton’s Primary Care Access by Managing Demand of the Emergency Department through a Health Services Center: A Marcus Welby Care Initiative

DTIC Science & Technology

2006-06-01

10 strep throat . I want to order a throat culture and start you on some antibiotics." As quickly as the doctor appeared, he was gone, moving on to the...TRICARE Prime. She wakes up one morning with an awful sore throat and difficulty swallowing. She tries to contact her Primary Care Manager (PCM) by...next of what seemed a never ending stream of patients. After the throat culture and an additional hour wait at the pharmacy, Mrs. Smith is on her way

Cell symbiosis theory - Status and implications for the fossil record

NASA Technical Reports Server (NTRS)

Margulis, L.; Stolz, J. F.

1984-01-01

Smith (1981) has presented three alternative models of the origin of eukaryotes. In the present investigation, alternative theories are discussed along with the status of serial endosymbiotic theory. It is pointed out that the usefulness of the serial endosymbiotic theory is attested by the great flourishing of productive scientific studies it has generated. Attention is given to the origin of mitochondria and plastids from free-living bacteria, the polyphyly of mitochondria, the origin of the nuclear membrane, the origin of undulipodia (cilia and other 9 + 2 organelles), the sequence of acquisition of organelles, large ribosomes, genome organization, animals and plants, and systematics and axonomy of the microorganisms.

Optimized protocols for cardiac magnetic resonance imaging in patients with thoracic metallic implants.

PubMed

Olivieri, Laura J; Cross, Russell R; O'Brien, Kendall E; Ratnayaka, Kanishka; Hansen, Michael S

2015-09-01

Cardiac magnetic resonance (MR) imaging is a valuable tool in congenital heart disease; however patients frequently have metal devices in the chest from the treatment of their disease that complicate imaging. Methods are needed to improve imaging around metal implants near the heart. Basic sequence parameter manipulations have the potential to minimize artifact while limiting effects on image resolution and quality. Our objective was to design cine and static cardiac imaging sequences to minimize metal artifact while maintaining image quality. Using systematic variation of standard imaging parameters on a fluid-filled phantom containing commonly used metal cardiac devices, we developed optimized sequences for steady-state free precession (SSFP), gradient recalled echo (GRE) cine imaging, and turbo spin-echo (TSE) black-blood imaging. We imaged 17 consecutive patients undergoing routine cardiac MR with 25 metal implants of various origins using both standard and optimized imaging protocols for a given slice position. We rated images for quality and metal artifact size by measuring metal artifact in two orthogonal planes within the image. All metal artifacts were reduced with optimized imaging. The average metal artifact reduction for the optimized SSFP cine was 1.5+/-1.8 mm, and for the optimized GRE cine the reduction was 4.6+/-4.5 mm (P < 0.05). Quality ratings favored the optimized GRE cine. Similarly, the average metal artifact reduction for the optimized TSE images was 1.6+/-1.7 mm (P < 0.05), and quality ratings favored the optimized TSE imaging. Imaging sequences tailored to minimize metal artifact are easily created by modifying basic sequence parameters, and images are superior to standard imaging sequences in both quality and artifact size. Specifically, for optimized cine imaging a GRE sequence should be used with settings that favor short echo time, i.e. flow compensation off, weak asymmetrical echo and a relatively high receiver bandwidth. For static black-blood imaging, a TSE sequence should be used with fat saturation turned off and high receiver bandwidth.

How To Survive in Postindustrial Environments: Adam Smith's Advice for Today's Colleges and Universities.

ERIC Educational Resources Information Center

Ortmann, Andreas

1997-01-01

Adam Smith's discussion of the payment modes of teachers and resulting consequences for the quality of teaching and process of curricular innovation are reviewed through the conceptual lens of modern agency theory. Smith's analysis of higher education in his day (eighteenth century) sheds light on faculty incentive and assessment problems that…

The Early Childhood Song Books of Eleanor Smith: Their Affinity with the Philosophy of Friedrich Froebel.

ERIC Educational Resources Information Center

Alper, Clifford D.

1980-01-01

Eleanor Smith (1858-1942), an outstanding composer of children's songs, was perhaps the most significant musician to embrace the philosophy of Friedrich Froebel (1782-1852), who founded the kindergarten in 1837 and consistently acknowledged and dignified children's natural capabilities and interests. Smith's songs still appear in published song…

76 FR 72675 - Voluntary Termination of Foreign-Trade Subzone 90A Smith Corona Corporation, Cortland County, New...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-11-25

... DEPARTMENT OF COMMERCE Foreign-Trade Zones Board [Order No. 1799] Voluntary Termination of Foreign-Trade Subzone 90A Smith Corona Corporation, Cortland County, New York Pursuant to the authority granted... Smith Corona Corporation plant in Cortland County, New York (Board Order 300, 50 FR 15469, 04/18/85...

76 FR 19030 - Lyon & Mineral County Resource Advisory Committee

Federal Register 2010, 2011, 2012, 2013, 2014

2011-04-06

... Committee will meet in Smith Valley, Nevada. The committee is meeting as authorized under the Secure Rural...: The meeting will be held April 25, 2011 at 9 a.m. ADDRESSES: The meeting will be held at the Smith Valley Library at 32 Day Lane, Smith Valley, NV 89444. Written comments should be sent to Mike Crawley...

26 CFR 1.1248-4 - Limitation on tax applicable to individuals.

Code of Federal Regulations, 2010 CFR

2010-04-01

... example: Example: On December 31, 1966, Smith, a United States person, sells a share of stock of X... in his gross income as a dividend under section 1248(a). Both X and Smith use the calendar year as the taxable year. The increase in Smith's income tax liability for 1966 which is attributable (under...

75 FR 77665 - Whirlpool Corporation, Including On-Site Leased Workers From Career Solutions TEC Staffing and...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-12-13

..., Including On-Site Leased Workers From Career Solutions TEC Staffing and Andrews International, Fort Smith... Staffing, Fort Smith, Arkansas. The notice was published in the Federal Register on October 25, 2010 (75 FR... reports that workers leased from Andrews International were employed on-site at the Fort Smith, Arkansas...

77 FR 53913 - River Bend Industries, LLC, Including On-Site Leased Workers From FirstStaff, Trac Staffing, and...

Federal Register 2010, 2011, 2012, 2013, 2014

2012-09-04

..., LLC, Including On-Site Leased Workers From FirstStaff, Trac Staffing, and Worksource, Inc., Fort Smith... Staffing, Worksource, Inc., Fort Smith, Arkansas. The Department's notice of determination was published in... Worksource, Inc. were employed on-site at the Fort Smith, Arkansas location of River Bend Industries, LLC...

26 CFR 1.1563-3 - Rules for determining stock ownership.

Code of Federal Regulations, 2010 CFR

2010-04-01

... acquire such stock. For example, assume Smith owns an option to purchase 100 shares of the outstanding stock of M Corporation. Under this subparagraph, Smith is considered to own such 100 shares. The result would be the same if Smith owned an option to acquire the option (or one of a series of options) to...

A new species and key for Acanthocaudus Smith (Braconidae: Aphidiinae), with new host and distribution records for aphidiines associated with Silphium perfoliatum L. (Asterales: Asteraceae)

USDA-ARS?s Scientific Manuscript database

A new species, Acanthocaudus bicolor Kula (Braconidae: Aphidiinae), from the Nearctic Region is described and differ- entiated from all other species of Acanthocaudus Smith. Acanthocaudus schlingeri Muesebeck, 1958 is synonymized with Acanthocaudus tissoti (Smith, 1944). A key to the species of Acan...

77 FR 28331 - CPI Adjustment of Patent Fees for Fiscal Year 2013

Federal Register 2010, 2011, 2012, 2013, 2014

2012-05-14

.... 2809 (2004)) and the Leahy-Smith America Invents Act (Pub. L. 112-29). The fee increase helps the USPTO.... 2642 (2006); and Public Law 109-289, 120 Stat. 1257 (2006). The Leahy-Smith America Invents Act... Consolidated Appropriations Act. Section 11 of the Leahy-Smith America Invents Act provides for a surcharge of...

77 FR 54360 - CPI Adjustment of Patent Fees for Fiscal Year 2013

Federal Register 2010, 2011, 2012, 2013, 2014

2012-09-05

.... 2809 (2004)) and the Leahy-Smith America Invents Act (Pub. L. 112-29). The fee increase helps the USPTO.... 2642 (2006); and Public Law 109-289, 120 Stat. 1257 (2006). The Leahy-Smith America Invents Act... Consolidated Appropriations Act. Section 11 of the Leahy-Smith America Invents Act provides for a surcharge of...

Epidemiological Studies of Health Outcomes among Troops Deployed to Burn Pit Sites

DTIC Science & Technology

2010-05-01

system. Teratology . 2001;64 Suppl 1:S26-29. 29. Ryan MA, Smith TC, Sevick CJ, et al. Birth defects among infants born to women who received anthrax...initiation and risk of congenital malformations. Teratology . Dec 2002;66(6):326-330. 33. Chretien JP, Chu LK, Smith TC, Smith B, Ryan MA, for the

An Alternative View of the Instructional Design Process: A Response to Smith and Boling

ERIC Educational Resources Information Center

Gibbons, Andrew S.; Yanchar, Stephen C.

2010-01-01

A recent literature review by Smith and Boling (2009) critically examines the received view of instructional design in educational technology. Smith and Boling conclude that the foundational literature characterizes design in a way that leads to a constrained understanding of design, especially by novices. They suggest that as a field we move…

A Helping Hand in the Frederick Community—Ross Smith | Poster

Cancer.gov

By day, Ross Smith is the compliance and security officer for Data Management Services, Inc., assigned to the National Cancer Institute (NCI) at Frederick. His role is to ensure the secure operation of in-house computer systems, servers, and network connections. But in his spare time, Smith is also a volunteer firefighter and emergency medical technician (EMT).

Optimal choice of word length when comparing two Markov sequences using a χ 2-statistic.

PubMed

Bai, Xin; Tang, Kujin; Ren, Jie; Waterman, Michael; Sun, Fengzhu

2017-10-03

Alignment-free sequence comparison using counts of word patterns (grams, k-tuples) has become an active research topic due to the large amount of sequence data from the new sequencing technologies. Genome sequences are frequently modelled by Markov chains and the likelihood ratio test or the corresponding approximate χ 2 -statistic has been suggested to compare two sequences. However, it is not known how to best choose the word length k in such studies. We develop an optimal strategy to choose k by maximizing the statistical power of detecting differences between two sequences. Let the orders of the Markov chains for the two sequences be r 1 and r 2 , respectively. We show through both simulations and theoretical studies that the optimal k= max(r 1 ,r 2 )+1 for both long sequences and next generation sequencing (NGS) read data. The orders of the Markov chains may be unknown and several methods have been developed to estimate the orders of Markov chains based on both long sequences and NGS reads. We study the power loss of the statistics when the estimated orders are used. It is shown that the power loss is minimal for some of the estimators of the orders of Markov chains. Our studies provide guidelines on choosing the optimal word length for the comparison of Markov sequences.

Continuous intensity map optimization (CIMO): A novel approach to leaf sequencing in step and shoot IMRT

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cao Daliang; Earl, Matthew A.; Luan, Shuang

2006-04-15

A new leaf-sequencing approach has been developed that is designed to reduce the number of required beam segments for step-and-shoot intensity modulated radiation therapy (IMRT). This approach to leaf sequencing is called continuous-intensity-map-optimization (CIMO). Using a simulated annealing algorithm, CIMO seeks to minimize differences between the optimized and sequenced intensity maps. Two distinguishing features of the CIMO algorithm are (1) CIMO does not require that each optimized intensity map be clustered into discrete levels and (2) CIMO is not rule-based but rather simultaneously optimizes both the aperture shapes and weights. To test the CIMO algorithm, ten IMRT patient cases weremore » selected (four head-and-neck, two pancreas, two prostate, one brain, and one pelvis). For each case, the optimized intensity maps were extracted from the Pinnacle{sup 3} treatment planning system. The CIMO algorithm was applied, and the optimized aperture shapes and weights were loaded back into Pinnacle. A final dose calculation was performed using Pinnacle's convolution/superposition based dose calculation. On average, the CIMO algorithm provided a 54% reduction in the number of beam segments as compared with Pinnacle's leaf sequencer. The plans sequenced using the CIMO algorithm also provided improved target dose uniformity and a reduced discrepancy between the optimized and sequenced intensity maps. For ten clinical intensity maps, comparisons were performed between the CIMO algorithm and the power-of-two reduction algorithm of Xia and Verhey [Med. Phys. 25(8), 1424-1434 (1998)]. When the constraints of a Varian Millennium multileaf collimator were applied, the CIMO algorithm resulted in a 26% reduction in the number of segments. For an Elekta multileaf collimator, the CIMO algorithm resulted in a 67% reduction in the number of segments. An average leaf sequencing time of less than one minute per beam was observed.« less

Denial and Defensiveness in the Place of Fact and Reason: Rejoinder to Smith and Lovass.

ERIC Educational Resources Information Center

Gresham, Frank M.; MacMillan, Donald L.

1997-01-01

Responds to "The UCLA Young Autism Project: A Reply to Gresham and MacMillan" (Smith and Lovaas), which criticized a review questioning the effectiveness of an intervention for children with autism. The Smith and Lovass article is described as defensive, factually inaccurate, and as not adequately addressing the question of external validity.…

Last Interview with W. Eugene Smith on the Photo Essay.

ERIC Educational Resources Information Center

Kobre, Ken

An interview with W. Eugene Smith, well-known photographer and photographic essayist, is presented in this paper. The introductory section of the paper contains a biographical sketch of Smith and a discussion of his photographic essays on a number of topics, including World War II scenes, life in a Spanish village, the work of a black midwife in…

Federal Cooperation in Agricultural Extension Work, Vocational Education, and Vocational Rehabilitation. Bulletin, 1933, No. 15

ERIC Educational Resources Information Center

Blauch, Lloyd E.

1933-01-01

During the past quarter of a century there have been rather continuous and persistent efforts for Federal aid to education. Twenty-one years ago the Congress of the United States enacted the Smith-Lever Agricultural Extension Act, and 3 years later it passed the Smith-Hughes Vocational Education Act. Under the Smith-Lever Act and subsequent…

42 CFR 411.161 - Prohibition against taking into account Medicare eligibility or entitlement or differentiating...

Code of Federal Regulations, 2010 CFR

2010-10-01

... provides. (2) Example— Mr. Smith works for employer A, and he and his wife are covered through employer A's GHP (Plan A). Neither is eligible for Medicare nor has ESRD. Mrs. Smith works for employer B, and is... items and services which Plan B does not cover, such as prescription drugs. If Mrs. Smith obtains a...

20 CFR 404.612 - Who may sign an application.

Code of Federal Regulations, 2010 CFR

2010-04-01

.... Example: Mr. Smith comes to a social security office a few days before the end of a month to file an... a heart attack and is in the hospital. He asked Mr. Smith to file the application for him. We will accept an application signed by Mr. Smith since it would not be possible to have Mr. Jones sign and file...

20 CFR 10.916 - How is the amount of the death gratuity calculated?

Code of Federal Regulations, 2010 CFR

2010-04-01

... John Smith who is still living. So, 50% of the death gratuity will be paid to his spouse and the remaining 50% of the death gratuity paid under this subpart would be paid to John Smith. This means the surviving spouse will receive $10,000 and John Smith will receive $10,000. (2) Example Two. Employee dies in...

Smiths Medical Medfusion 3010a syringe pump may overinfuse if software is outdated.

PubMed

2010-04-01

Smiths Medical Medfusion 3010a syringe pumps that aren't equipped with the latest software version (2.0.6) could overinfuse if the "recall last settings" function is used following an infusion in volume/time mode. If your facility has pumps equipped with software versions older than 2.0.6, contact Smiths Medical to obtain an upgrade.

77 FR 61735 - Changes and Examination Guidelines To Implement the First-Inventor-to-File Provisions of the...

Federal Register 2010, 2011, 2012, 2013, 2014

2012-10-11

...- Inventor-to-File Provisions of the Leahy-Smith America Invents Act; Reopening of the Period for Comments...-inventor-to-file (FITF) provisions the Leahy-Smith America Invents Act (AIA). The USPTO also conducted a... of the AIA. See Changes to Implement the First Inventor to File Provisions of the Leahy-Smith America...

The Importance of What You Leave Behind: A Conversation with Carl Smith

ERIC Educational Resources Information Center

Teagarden, Jim; Zabel, Robert; Kaff, Marilyn

2017-01-01

Dr. Carl Smith shares his reflections on a varied career that included many different roles and responsibilities but shared a focus on children with behavior disorders. Dr. Smith also provides insight into where he believes the field is heading and offers his advice to those just entering the field. Perhaps the lasting advice to all is to focus on…

Unconscious Odour Conditioning 25 Years Later: Revisiting and Extending "Kirk-Smith, Van Toller and Dodd"

ERIC Educational Resources Information Center

Zucco, Gesualdo M.; Paolini, Michela; Schaal, Benoist

2009-01-01

The pioneering work by Kirk-Smith, Van Toller, and Dodd [Kirk-Smith, M. D., Van Toller, C., & Dodd, G. H. (1983). "Unconscious odour conditioning in human subjects." "Biological Psychology," 17, 221-231], established that an unnoticed odorant paired with an emotionally meaningful task can influence mood and attitudes when the odorant alone is…

Father Knows Best: Using Adam Smith to Teach Transactions Costs

ERIC Educational Resources Information Center

Dupont, Brandon

2014-01-01

Adam Smith's moral philosophy can be used to introduce economics students to the important idea of transactions costs. The author provides a brief background in this article to Smith's moral philosophy and connects it to the costs of transacting in a way that fits easily into the standard principles of microeconomics classroom. By doing…

37 CFR 1.130 - Affidavit or declaration of attribution or prior public disclosure under the Leahy-Smith America...

Code of Federal Regulations, 2013 CFR

2013-07-01

... 37 Patents, Trademarks, and Copyrights 1 2013-07-01 2013-07-01 false Affidavit or declaration of attribution or prior public disclosure under the Leahy-Smith America Invents Act. 1.130 Section 1.130 Patents... or declaration of attribution or prior public disclosure under the Leahy-Smith America Invents Act...

37 CFR 1.109 - Effective filing date of a claimed invention under the Leahy-Smith America Invents Act.

Code of Federal Regulations, 2014 CFR

2014-07-01

... 37 Patents, Trademarks, and Copyrights 1 2014-07-01 2014-07-01 false Effective filing date of a claimed invention under the Leahy-Smith America Invents Act. 1.109 Section 1.109 Patents, Trademarks, and... a claimed invention under the Leahy-Smith America Invents Act. (a) The effective filing date for a...

37 CFR 1.109 - Effective filing date of a claimed invention under the Leahy-Smith America Invents Act.

Code of Federal Regulations, 2013 CFR

2013-07-01

... 37 Patents, Trademarks, and Copyrights 1 2013-07-01 2013-07-01 false Effective filing date of a claimed invention under the Leahy-Smith America Invents Act. 1.109 Section 1.109 Patents, Trademarks, and... a claimed invention under the Leahy-Smith America Invents Act. (a) The effective filing date for a...

37 CFR 1.130 - Affidavit or declaration of attribution or prior public disclosure under the Leahy-Smith America...

Code of Federal Regulations, 2014 CFR

2014-07-01

... 37 Patents, Trademarks, and Copyrights 1 2014-07-01 2014-07-01 false Affidavit or declaration of attribution or prior public disclosure under the Leahy-Smith America Invents Act. 1.130 Section 1.130 Patents... or declaration of attribution or prior public disclosure under the Leahy-Smith America Invents Act...

Author! Author! The Gallant Children's Author: Dick King-Smith

ERIC Educational Resources Information Center

Brodie, Carolyn S.

2005-01-01

This column presents a brief biography of Dick King-Smith. Born on March 27, 1922 and raised in Gloucestershire, England, he grew up with animals of all kinds. King-Smith was a farmer for twenty years and then became a school teacher. He was also a soldier during wartime, a traveling salesman, shoe factory worker, and television presenter. He…

Exome analysis of Smith-Magenis-like syndrome cohort identifies de novo likely pathogenic variants.

PubMed

Berger, Seth I; Ciccone, Carla; Simon, Karen L; Malicdan, May Christine; Vilboux, Thierry; Billington, Charles; Fischer, Roxanne; Introne, Wendy J; Gropman, Andrea; Blancato, Jan K; Mullikin, James C; Gahl, William A; Huizing, Marjan; Smith, Ann C M

2017-04-01

Smith-Magenis syndrome (SMS), a neurodevelopmental disorder characterized by dysmorphic features, intellectual disability (ID), and sleep disturbances, results from a 17p11.2 microdeletion or a mutation in the RAI1 gene. We performed exome sequencing on 6 patients with SMS-like phenotypes but without chromosomal abnormalities or RAI1 variants. We identified pathogenic de novo variants in two cases, a nonsense variant in IQSEC2 and a missense variant in the SAND domain of DEAF1, and candidate de novo missense variants in an additional two cases. One candidate variant was located in an alpha helix of Necdin (NDN), phased to the paternally inherited allele. NDN is maternally imprinted within the 15q11.2 Prader-Willi Syndrome (PWS) region. This can help clarify NDN's role in the PWS phenotype. No definitive pathogenic gene variants were detected in the remaining SMS-like cases, but we report our findings for future comparison. This study provides information about the inheritance pattern and recurrence risk for patients with identified variants and demonstrates clinical and genetic overlap of neurodevelopmental disorders. Identification and characterization of ID-related genes that assist in development of common developmental pathways and/or gene-networks, may inform disease mechanism and treatment strategies.

Three rare diseases in one Sib pair: RAI1, PCK1, GRIN2B mutations associated with Smith-Magenis Syndrome, cytosolic PEPCK deficiency and NMDA receptor glutamate insensitivity.

PubMed

Adams, David R; Yuan, Hongjie; Holyoak, Todd; Arajs, Katrina H; Hakimi, Parvin; Markello, Thomas C; Wolfe, Lynne A; Vilboux, Thierry; Burton, Barbara K; Fajardo, Karin Fuentes; Grahame, George; Holloman, Conisha; Sincan, Murat; Smith, Ann C M; Wells, Gordon A; Huang, Yan; Vega, Hugo; Snyder, James P; Golas, Gretchen A; Tifft, Cynthia J; Boerkoel, Cornelius F; Hanson, Richard W; Traynelis, Stephen F; Kerr, Douglas S; Gahl, William A

2014-11-01

The National Institutes of Health Undiagnosed Diseases Program evaluates patients for whom no diagnosis has been discovered despite a comprehensive diagnostic workup. Failure to diagnose a condition may arise from the mutation of genes previously unassociated with disease. However, we hypothesized that this could also co-occur with multiple genetic disorders. Demonstrating a complex syndrome caused by multiple disorders, we report two siblings manifesting both similar and disparate signs and symptoms. They shared a history of episodes of hypoglycemia and lactic acidosis, but had differing exam findings and developmental courses. Clinical acumen and exome sequencing combined with biochemical and functional studies identified three genetic conditions. One sibling had Smith-Magenis Syndrome and a nonsense mutation in the RAI1 gene. The second sibling had a de novo mutation in GRIN2B, which resulted in markedly reduced glutamate potency of the encoded receptor. Both siblings had a protein-destabilizing homozygous mutation in PCK1, which encodes the cytosolic isoform of phosphoenolpyruvate carboxykinase (PEPCK-C). In summary, we present the first clinically-characterized mutation of PCK1 and demonstrate that complex medical disorders can represent the co-occurrence of multiple diseases. Copyright © 2014 Elsevier Inc. All rights reserved.

Durham Smith Vest-Over-Pant Technique: Simple Procedure for a Complex Problem (Post-Hypospadias Repair Fistula).

PubMed

Gite, Venkat A; Patil, Saurabh R; Bote, Sachin M; Siddiqui, Mohd Ayub Karam Nabi; Nikose, Jayant V; Kandi, Anitha J

2017-01-01

Urethrocutaneous fistula, which occurs after hypospadias surgery, is often a baffling problem and its treatment is challenging. The study aimed to evaluate the results of the simple procedure (Durham Smith vest-over-pant technique) for this complex problem (post-hypospadias repair fistula). During the period from 2011 to 2015, 20 patients with post-hypospadias repair fistulas underwent Durham Smith repair. Common age group was between 5 and 12 years. Site wise distribution of fistula was coronal 2 (10%), distal penile 7 (35%), mid-penile 7 (35%), and proximal-penile 4 (20%). Out of 20 patients, 15 had fistula of size <5 mm (75%) and 5 patients had fistula of size >5 mm (25%). All cases were repaired with Durham Smith vest-over-pant technique by a single surgeon. In case of multiple fistulas adjacent to each other, all fistulas were joined to form single fistula and repaired. We have successfully repaired all post-hypospadias surgery urethrocutaneous fistulas using the technique described by Durham Smith with 100% success rate. Durham Smith vest-over-pant technique is a simple solution for a complex problem (post hypospadias surgery penile fistulas) in properly selected patients. © 2017 S. Karger AG, Basel.

Multiple sequence alignment using multi-objective based bacterial foraging optimization algorithm.

PubMed

Rani, R Ranjani; Ramyachitra, D

2016-12-01

Multiple sequence alignment (MSA) is a widespread approach in computational biology and bioinformatics. MSA deals with how the sequences of nucleotides and amino acids are sequenced with possible alignment and minimum number of gaps between them, which directs to the functional, evolutionary and structural relationships among the sequences. Still the computation of MSA is a challenging task to provide an efficient accuracy and statistically significant results of alignments. In this work, the Bacterial Foraging Optimization Algorithm was employed to align the biological sequences which resulted in a non-dominated optimal solution. It employs Multi-objective, such as: Maximization of Similarity, Non-gap percentage, Conserved blocks and Minimization of gap penalty. BAliBASE 3.0 benchmark database was utilized to examine the proposed algorithm against other methods In this paper, two algorithms have been proposed: Hybrid Genetic Algorithm with Artificial Bee Colony (GA-ABC) and Bacterial Foraging Optimization Algorithm. It was found that Hybrid Genetic Algorithm with Artificial Bee Colony performed better than the existing optimization algorithms. But still the conserved blocks were not obtained using GA-ABC. Then BFO was used for the alignment and the conserved blocks were obtained. The proposed Multi-Objective Bacterial Foraging Optimization Algorithm (MO-BFO) was compared with widely used MSA methods Clustal Omega, Kalign, MUSCLE, MAFFT, Genetic Algorithm (GA), Ant Colony Optimization (ACO), Artificial Bee Colony (ABC), Particle Swarm Optimization (PSO) and Hybrid Genetic Algorithm with Artificial Bee Colony (GA-ABC). The final results show that the proposed MO-BFO algorithm yields better alignment than most widely used methods. Copyright © 2016 Elsevier Ireland Ltd. All rights reserved.

Genome-wide characterization and selection of expressed sequence tag simple sequence repeat primers for optimized marker distribution and reliability in peach

USDA-ARS?s Scientific Manuscript database

Expressed sequence tag (EST) simple sequence repeats (SSRs) in Prunus were mined, and flanking primers designed and used for genome-wide characterization and selection of primers to optimize marker distribution and reliability. A total of 12,618 contigs were assembled from 84,727 ESTs, along with 34...

Choosing non-redundant representative subsets of protein sequence data sets using submodular optimization.

PubMed

Libbrecht, Maxwell W; Bilmes, Jeffrey A; Noble, William Stafford

2018-04-01

Selecting a non-redundant representative subset of sequences is a common step in many bioinformatics workflows, such as the creation of non-redundant training sets for sequence and structural models or selection of "operational taxonomic units" from metagenomics data. Previous methods for this task, such as CD-HIT, PISCES, and UCLUST, apply a heuristic threshold-based algorithm that has no theoretical guarantees. We propose a new approach based on submodular optimization. Submodular optimization, a discrete analogue to continuous convex optimization, has been used with great success for other representative set selection problems. We demonstrate that the submodular optimization approach results in representative protein sequence subsets with greater structural diversity than sets chosen by existing methods, using as a gold standard the SCOPe library of protein domain structures. In this setting, submodular optimization consistently yields protein sequence subsets that include more SCOPe domain families than sets of the same size selected by competing approaches. We also show how the optimization framework allows us to design a mixture objective function that performs well for both large and small representative sets. The framework we describe is the best possible in polynomial time (under some assumptions), and it is flexible and intuitive because it applies a suite of generic methods to optimize one of a variety of objective functions. © 2018 Wiley Periodicals, Inc.

Computational Tools and Algorithms for Designing Customized Synthetic Genes

PubMed Central

Gould, Nathan; Hendy, Oliver; Papamichail, Dimitris

2014-01-01

Advances in DNA synthesis have enabled the construction of artificial genes, gene circuits, and genomes of bacterial scale. Freedom in de novo design of synthetic constructs provides significant power in studying the impact of mutations in sequence features, and verifying hypotheses on the functional information that is encoded in nucleic and amino acids. To aid this goal, a large number of software tools of variable sophistication have been implemented, enabling the design of synthetic genes for sequence optimization based on rationally defined properties. The first generation of tools dealt predominantly with singular objectives such as codon usage optimization and unique restriction site incorporation. Recent years have seen the emergence of sequence design tools that aim to evolve sequences toward combinations of objectives. The design of optimal protein-coding sequences adhering to multiple objectives is computationally hard, and most tools rely on heuristics to sample the vast sequence design space. In this review, we study some of the algorithmic issues behind gene optimization and the approaches that different tools have adopted to redesign genes and optimize desired coding features. We utilize test cases to demonstrate the efficiency of each approach, as well as identify their strengths and limitations. PMID:25340050

Representation of DNA sequences in genetic codon context with applications in exon and intron prediction.

PubMed

Yin, Changchuan

2015-04-01

To apply digital signal processing (DSP) methods to analyze DNA sequences, the sequences first must be specially mapped into numerical sequences. Thus, effective numerical mappings of DNA sequences play key roles in the effectiveness of DSP-based methods such as exon prediction. Despite numerous mappings of symbolic DNA sequences to numerical series, the existing mapping methods do not include the genetic coding features of DNA sequences. We present a novel numerical representation of DNA sequences using genetic codon context (GCC) in which the numerical values are optimized by simulation annealing to maximize the 3-periodicity signal to noise ratio (SNR). The optimized GCC representation is then applied in exon and intron prediction by Short-Time Fourier Transform (STFT) approach. The results show the GCC method enhances the SNR values of exon sequences and thus increases the accuracy of predicting protein coding regions in genomes compared with the commonly used 4D binary representation. In addition, this study offers a novel way to reveal specific features of DNA sequences by optimizing numerical mappings of symbolic DNA sequences.

Publishing large DNA sequence data in reduced spaces and lasting formats, in paper or PDF.

PubMed

Aguiar, Alexandre Pires

2013-02-04

Scientific publications carry a practical moral duty: they must last. Along that line of thinking, some methods are proposed to allow economically and structurally viable publication of DNA sequence data of any size in printed matter and PDFs. The proposal is primarily aimed at contributing for preserving information for the future, while allowing authors to avoid information splitting and complement storage ex situ, that is, in server machines, outside the publication proper. The technique may also help to solve the impasse between the ICZN Code requirement that a new nomen be associated to diagnostic characters for the taxon vs. the phylogenetic definition of taxa, based on cladograms only: sequence data are characters, and can now be easily and comfortably included in taxonomic publications, with direct textual mention to their diagnostic sections. The compression level achieved allows the inclusion of all wanted DNA or RNA sequences in the same printed matter or PDF publications where the sequences are cited and discussed. Reduced font sizes, invisible fonts, and original 2D black & white and color barcodes are illustrated and briefly discussed. The level of data compression achieved can allow each full page of sequence data, or about 5000 characters, to be precisely coded into a color barcode as small as a square of 1.5 mm. A practical example is provided with Taeniogonalos woodorum Smith (Hymenoptera, Trigonalidae). Free software to generate publishable barcodes from txt or FASTA files is provided at www.systaxon.ufes.br/dna.

Dyadic Power Theory, Touch, and Counseling Psychology: A Response to Smith, Vogel, Madon, and Edwards (2011)

ERIC Educational Resources Information Center

Dunbar, Norah E.; Abra, Gordon

2012-01-01

Smith, Vogel, Madon, and Edwards' (2011) recent article tested dyadic power theory (DPT) by examining the use of touch as a compliance-gaining tactic in the conflicts of married couples. In this response, we raise a methodological issue about the touch behaviors examined by Smith et al. and also pose a theoretical critique that their test of DPT…

Vascular Plant Species of the Forest Ecology Research and Demonstration Area, Paul Smith's, New York

Treesearch

Gary L. Wade; Jonathan A. Myers; Cecilia R. Martin; Kathie Detmar; William, III Mator; Mark J. Twery; Mike Rechlin

2003-01-01

Five forest harvest methods (single-tree selection, group selection, two-age cut, shelterwood cut, and clearcut) are being demonstrated on 5-acre tracts near the Adirondack Park Agency?s Visitor Interpretation Center (VIC) at Paul Smith?s, New York. The tracts are part of the agency?s Forest Ecology Research and Demonstration Area. A primary goal is to show visitors...

26 CFR 301.6332-1 - Surrender of property subject to levy.

Code of Federal Regulations, 2010 CFR

2010-04-01

... for an unpaid tax liability due from “John H. Smith, Sr.” in the amount of $5,000. M Bank fails to read the notice of levy carefully. When searching its records, M Bank finds the name of “John H. Smith, Jr.” and looks no further. M Bank surrenders $5,000 from John H. Smith, Jr.'s checking account to the...

STS-82 Mission Specialist Steven L. Smith during TCDT

NASA Technical Reports Server (NTRS)

1997-01-01

STS-82 Mission Specialist Steven L. Smith adjusts the glove of his launch and entry space suit during a practice countdown at KSC. Smith and the other six STS-82 crew members are at KSC to participate in the Terminal Countdown Demonstration Test (TCDT), a dress rehearsal for launch. STS-82 will be the second Hubble Space Telescope servicing mission. Liftoff is targeted for February 11.

77 FR 43742 - Changes To Implement the First Inventor To File Provisions of the Leahy-Smith America Invents Act

Federal Register 2010, 2011, 2012, 2013, 2014

2012-07-26

... 0651-AC77 Changes To Implement the First Inventor To File Provisions of the Leahy-Smith America Invents.... SUMMARY: The Leahy-Smith America Invents Act (AIA) amends the patent laws pertaining to the conditions of patentability to convert the United States patent system from a ``first to invent'' system to a ``first inventor...

Revisiting "No Easy Answers": Application of Sally Smith's Methods in the Lab School of Washington High School Program

ERIC Educational Resources Information Center

Reynolds, Meredith

2010-01-01

The first edition of "No Easy Answers" (Smith, 1995) was published in 1979, thirty years ago. That seminal work is as relevant today as it was when the book first appeared. This article provides a description of how Sally Smith's Academic Club Method is implemented in the High School program of The Lab School of Washington.

Speech/Language Pathologists Reflect on Sally Smith and the Lab School of Washington

ERIC Educational Resources Information Center

Learning Disabilities: A Multidisciplinary Journal, 2010

2010-01-01

Sally L. Smith had a clear vision of how she thought speech and language services should be integrated into her school, The Lab School of Washington. It was Smith's idea that language therapists should work individually with students to help them make gains in their particular areas of need, as well as to work collaboratively with the teachers,…

Use of plan quality degradation to evaluate tradeoffs in delivery efficiency and clinical plan metrics arising from IMRT optimizer and sequencer compromises

PubMed Central

Wilkie, Joel R.; Matuszak, Martha M.; Feng, Mary; Moran, Jean M.; Fraass, Benedick A.

2013-01-01

Purpose: Plan degradation resulting from compromises made to enhance delivery efficiency is an important consideration for intensity modulated radiation therapy (IMRT) treatment plans. IMRT optimization and/or multileaf collimator (MLC) sequencing schemes can be modified to generate more efficient treatment delivery, but the effect those modifications have on plan quality is often difficult to quantify. In this work, the authors present a method for quantitative assessment of overall plan quality degradation due to tradeoffs between delivery efficiency and treatment plan quality, illustrated using comparisons between plans developed allowing different numbers of intensity levels in IMRT optimization and/or MLC sequencing for static segmental MLC IMRT plans. Methods: A plan quality degradation method to evaluate delivery efficiency and plan quality tradeoffs was developed and used to assess planning for 14 prostate and 12 head and neck patients treated with static IMRT. Plan quality was evaluated using a physician's predetermined “quality degradation” factors for relevant clinical plan metrics associated with the plan optimization strategy. Delivery efficiency and plan quality were assessed for a range of optimization and sequencing limitations. The “optimal” (baseline) plan for each case was derived using a clinical cost function with an unlimited number of intensity levels. These plans were sequenced with a clinical MLC leaf sequencer which uses >100 segments, assuring delivered intensities to be within 1% of the optimized intensity pattern. Each patient's optimal plan was also sequenced limiting the number of intensity levels (20, 10, and 5), and then separately optimized with these same numbers of intensity levels. Delivery time was measured for all plans, and direct evaluation of the tradeoffs between delivery time and plan degradation was performed. Results: When considering tradeoffs, the optimal number of intensity levels depends on the treatment site and on the stage in the process at which the levels are limited. The cost of improved delivery efficiency, in terms of plan quality degradation, increased as the number of intensity levels in the sequencer or optimizer decreased. The degradation was more substantial for the head and neck cases relative to the prostate cases, particularly when fewer than 20 intensity levels were used. Plan quality degradation was less severe when the number of intensity levels was limited in the optimizer rather than the sequencer. Conclusions: Analysis of plan quality degradation allows for a quantitative assessment of the compromises in clinical plan quality as delivery efficiency is improved, in order to determine the optimal delivery settings. The technique is based on physician-determined quality degradation factors and can be extended to other clinical situations where investigation of various tradeoffs is warranted. PMID:23822412

12. RW Meyer Sugar Mill: 18761889. Threeroll sugar mill: oneton ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

12. RW Meyer Sugar Mill: 1876-1889. Three-roll sugar mill: one-ton daily processing capacity. Manufactured by Edwin Maw, Liverpool, England, ca. 1855-1870. View: Historical view, 1934, T.T. Waterman Collection, Hawaiian Sugar Planters' Association, Oahu, Hawaii. Masonry-lined passageway leading to the mill at the center of its circular masonry enclosure. The passageway permitted cane to be carried to the mill and cane trash (bagasse) to be carried away after milling. Bridges over the passageways, not in place, permitted the mill animals to circle and power the mill from above. View shows area prior to substantial overgrowth existing in 1978 views of the area. - R. W. Meyer Sugar Mill, State Route 47, Kualapuu, Maui County, HI

Drs. Smith Brothers: dental surgeons of Calcutta.

PubMed

Sanjeev, Kumar

2014-01-01

During the British raj, India attracted dental practitioners from all over the world who set up practices in the Presidency towns of Calcutta, Bombay, Madras and Bangalore. Lured by the abundant opportunity to make good money, these mercenary but courageous dentists counted Viceroys, Indian royalty and political leaders amongst their clients. Some, like the famous American Smith Brothers of Calcutta, were sought after even by the rulers of neighboring countries. Dr. Mark Smith's hazardous visit to the Amir of Afghanistan made worldwide headlines more than 100 years ago for the fabulous fee he was paid for the dental treatment. This paper briefly describes the exploits and experiences of the Smith brothers while in India.

Iterative pass optimization of sequence data

NASA Technical Reports Server (NTRS)

Wheeler, Ward C.

2003-01-01

The problem of determining the minimum-cost hypothetical ancestral sequences for a given cladogram is known to be NP-complete. This "tree alignment" problem has motivated the considerable effort placed in multiple sequence alignment procedures. Wheeler in 1996 proposed a heuristic method, direct optimization, to calculate cladogram costs without the intervention of multiple sequence alignment. This method, though more efficient in time and more effective in cladogram length than many alignment-based procedures, greedily optimizes nodes based on descendent information only. In their proposal of an exact multiple alignment solution, Sankoff et al. in 1976 described a heuristic procedure--the iterative improvement method--to create alignments at internal nodes by solving a series of median problems. The combination of a three-sequence direct optimization with iterative improvement and a branch-length-based cladogram cost procedure, provides an algorithm that frequently results in superior (i.e., lower) cladogram costs. This iterative pass optimization is both computation and memory intensive, but economies can be made to reduce this burden. An example in arthropod systematics is discussed. c2003 The Willi Hennig Society. Published by Elsevier Science (USA). All rights reserved.

Cytotoxicity of the rhizome of medicinal plants

PubMed Central

Hossain, Shakhawoat; Kader, Golam; Nikkon, Farjana; Yeasmin, Tanzima

2012-01-01

Objective To investigate the cytotoxicity of the crude ethanol extract of the rhizome of Zingiber zerumbet (Z. zerumbet) (L) Smith. and Curcuma zedoaria (C. zedoaria) Rosc. against Artemia salina Leach. Methods Fresh rhizomes of Z. zerumbet (L) Smith. and C. zedoaria Rosc. were extracted separately in cold with ethanol (2.5 L) and after concentration a brownish syrupy suspension of ethanol extracts of Z. zerumbet (L) Smith. and C. zedoaria Rosc. was obtained. The cytotoxic effect of the crude ethanol extracts of both plants was determined by brine shrimp lethality bioassay. Results Crude ethanol extracts of the rhizome of Z. zerumbet (L) Smith. showed the highest cytotoxicity (LC50 was 1.24 µg/mL) against brine shrimp nauplii as compared with C. zedoaria Rosc. (LC50 was 33.593 µg/mL) after 24 h of exposure. Conclusions It can be concluded that the rhizome of Z. zerumbet (L) Smith. and C. zedoaria Rosc. can be used as a source of cytotoxic agent. PMID:23569881

A Mathematical Optimization Problem in Bioinformatics

ERIC Educational Resources Information Center

Heyer, Laurie J.

2008-01-01

This article describes the sequence alignment problem in bioinformatics. Through examples, we formulate sequence alignment as an optimization problem and show how to compute the optimal alignment with dynamic programming. The examples and sample exercises have been used by the author in a specialized course in bioinformatics, but could be adapted…

The Effect of Advanced Education on the Retention and Promotion of Army Officers

DTIC Science & Technology

2007-03-01

2 Ronal G.Ehrenberg, Robert S.Smith, Modern Labor Economics , Theory and Public Policy, (New York: Pearson Education, Inc, 2006...Ehrenberg and Robert S. Smith, Modern Labor Economics , 9th ed. (New York: Pearson Education, Inc, 2006). 30 G S Becker, Human Capital: A Theoretical...their jobs. As a 32 Ronald G. Ehrenberg and Robert S. Smith, Modern Labor Economics , 9th ed. (New

STS-82 training in WETF facility with Steve Smith and Mark Lee

NASA Image and Video Library

1996-06-10

S96-11807 (10 June 1996) --- Astronaut Steven L. Smith (right), STS-82 mission specialist assigned to extravehicular activity (EVA) involved with the servicing of the Hubble Space Telescope (HST), gets help with the final touches of suit donning from crewmate Joseph R. Tanner. Minutes later, Smith was underwater in a nearby tank and neutrally buoyant, rehearsing some of the HST servicing chores with a crewmate.

Publications - Plafker, George and Berg, H.C., 1994 | Alaska Division of

Science.gov Websites

, M.S., Smith, T.E., Berg, H.C., Andersen, G.L., Chipp, E.R., Gaard, D.R., Burton, P.J., Dunbler, John ., Newberry, R.J., Rogers, R.K., Rubin, C.M., Swainbank, R.C., Smith, P.R., and Stephens, Jackie, 1994 , H.C., Brew, D.A., Grybeck, Donald, Robinson, M.S., Smith, T.E., and Yeend, Warren, 1994, Metallogenic

Truman Smith's Reports on Nazi Militarism: Domestic Political Priorities and U.S. Foreign Policy-Making in Franklin Roosevelt's First and Second Terms

ERIC Educational Resources Information Center

Shearer, Sam

2015-01-01

After an accomplished military career leading up to and during World War II, Truman Smith (1893-1970) was seemingly forgotten. His name was seldom mentioned after the war until his memoirs were published posthumously in 1984. History shows Smith to be an astoundingly successful figure in military intelligence. This article provides a biography on…

Changes in abundance of vascular plants under varying silvicultural systems at the Forest Ecosystem Research and Demonstration Area, Paul Smiths, New York

Treesearch

Mark J. Twery; Elizabeth Olson; Gary L. Wade; Michael. Rechlin

2013-01-01

The Forest Ecosystem Research and Demonstration Area (FERDA) was established in 1998 adjacent to the Visitor Interpretive Center (VIC) for the Adirondack Park in Paul Smiths, NY, to provide visitors with first-hand exposure to forest management activities and to provide research opportunities for scientists and students at Paul Smith's College. This research note...

The Basis of James W. Fowler's Understanding of Faith in the Research of Wilfred Cantwell Smith: An Examination from an Evangelical Perspective

ERIC Educational Resources Information Center

Jones, Timothy Paul

2004-01-01

This article focuses on the influence of Wilfred Cantwell Smith's presentation of the nature of faith on James W. Fowler's faith-development paradigm. Smith contended that, in the pre-modern era, terms translated by the English words "faith" and "believe" denoted a personal allegiance that did not require assent to any objective assertions. Two…

Breeding habitat associations and predicted distribution of an obligate tundra-breeding bird, Smith's Longspur

USGS Publications Warehouse

Wild, Teri C.; Kendall, Steven J.; Guldager, Nikki; Powell, Abby N.

2015-01-01

Smith's Longspur (Calcarius pictus) is a species of conservation concern which breeds in Arctic habitats that are expected to be especially vulnerable to climate change. We used bird presence and habitat data from point-transect surveys conducted at 12 sites across the Brooks Range, Alaska, 2003–2009, to identify breeding areas, describe local habitat associations, and identify suitable habitat using a predictive model of Smith's Longspur distribution. Smith's Longspurs were observed at seven sites, where they were associated with a variety of sedge–shrub habitats composed primarily of mosses, sedges, tussocks, and dwarf shrubs; erect shrubs were common but sparse. Nonmetric multidimensional scaling ordination of ground cover revealed positive associations of Smith's Longspur presence with sedges and mosses and a negative association with high cover of shrubs. To model predicted distribution, we used boosted regression trees to relate landscape variables to occurrence. Our model predicted that Smith's Longspurs may occur in valleys and foothills of the northeastern and southeastern mountains and in upland plateaus of the western mountains, and farther west than currently documented, over a predicted area no larger than 15% of the Brooks Range. With climate change, shrubs are expected to grow larger and denser, while soil moisture and moss cover are predicted to decrease. These changes may reduce Smith's Longspur habitat quality and limit distribution in the Brooks Range to poorly drained lowlands and alpine plateaus where sedge–shrub tundra is likely to persist. Conversely, northward advance of shrubs into sedge tundra may create suitable habitat, thus supporting a northward longspur distribution shift.

Homer W. Smith's contribution to renal physiology.

PubMed

Giebisch, Gerhard

2004-01-01

Homer Smith was, for three decades, from the 1930s until his death in 1962, one of the leaders in the field of renal physiology. His contributions were many: he played a major role in introducing and popularizing renal clearance methods, introduced non-invasive methods for the measurement of glomerular filtration rate, of renal blood flow and tubular transport capacity, and provided novel insights into the mechanisms of excretion of water and electrolytes. Homer Smith's contributions went far beyond his personal investigations. He was a superb writer of several inspiring textbooks of renal physiology that exerted great and lasting influence on the development of renal physiology. Smith's intellectual insights and ability for critical analysis of data allowed him to create broad concepts that defined the functional properties of glomeruli, tubules and the renal circulation. A distinguishing feature of Homer Smith's career was his close contact and collaboration, over many years, with several clinicians of his alma mater, New York University. For initiating these pathophysiological investigations, he is justly credited to have advanced, in a major way, our understanding of altered renal function in disease. Smith's lasting scientific impact is also reflected by a whole school of investigators that trained with him and who applied his methods, analyses and concepts to the study of renal function all over the world. So great was his influence and preeminence that Robert Pitts, in his excellent tribute to Homer Smith in the Memoirs of the National Academy of Science states that his death brought an end to what might be aptly called the Smithian Era of renal physiology.

The effect of different control point sampling sequences on convergence of VMAT inverse planning

NASA Astrophysics Data System (ADS)

Pardo Montero, Juan; Fenwick, John D.

2011-04-01

A key component of some volumetric-modulated arc therapy (VMAT) optimization algorithms is the progressive addition of control points to the optimization. This idea was introduced in Otto's seminal VMAT paper, in which a coarse sampling of control points was used at the beginning of the optimization and new control points were progressively added one at a time. A different form of the methodology is also present in the RapidArc optimizer, which adds new control points in groups called 'multiresolution levels', each doubling the number of control points in the optimization. This progressive sampling accelerates convergence, improving the results obtained, and has similarities with the ordered subset algorithm used to accelerate iterative image reconstruction. In this work we have used a VMAT optimizer developed in-house to study the performance of optimization algorithms which use different control point sampling sequences, most of which fall into three different classes: doubling sequences, which add new control points in groups such that the number of control points in the optimization is (roughly) doubled; Otto-like progressive sampling which adds one control point at a time, and equi-length sequences which contain several multiresolution levels each with the same number of control points. Results are presented in this study for two clinical geometries, prostate and head-and-neck treatments. A dependence of the quality of the final solution on the number of starting control points has been observed, in agreement with previous works. We have found that some sequences, especially E20 and E30 (equi-length sequences with 20 and 30 multiresolution levels, respectively), generate better results than a 5 multiresolution level RapidArc-like sequence. The final value of the cost function is reduced up to 20%, such reductions leading to small improvements in dosimetric parameters characterizing the treatments—slightly more homogeneous target doses and better sparing of the organs at risk.

Neurologic and developmental features of the Smith-Magenis syndrome (del 17p11.2).

PubMed

Gropman, Andrea L; Duncan, Wallace C; Smith, Ann C M

2006-05-01

The Smith-Magenis syndrome is a rare, complex multisystemic disorder featuring, mental retardation and multiple congenital anomalies caused by a heterozygous interstitial deletion of chromosome 17p11.2. The phenotype of Smith-Magenis syndrome is characterized by a distinct pattern of features including infantile hypotonia, generalized complacency and lethargy in infancy, minor skeletal (brachycephaly, brachydactyly) and craniofacial features, ocular abnormalities, middle ear and laryngeal abnormalities including hoarse voice, as well as marked early expressive speech and language delays, psychomotor and growth retardation, and a 24-hour sleep disturbance. A striking neurobehavioral pattern of stereotypies, hyperactivity, polyembolokoilamania, onychotillomania, maladaptive and self-injurious and aggressive behavior is observed with increasing age. The diagnosis of Smith-Magenis syndrome is based upon the clinical recognition of a constellation of physical, developmental, and behavioral features in combination with a sleep disorder characterized by inverted circadian rhythm of melatonin secretion. Many of the features of Smith-Magenis syndrome are subtle in infancy and early childhood, and become more recognizable with advancing age. Infants are described as looking "cherubic" with a Down syndrome-like appearance, whereas with age the facial appearance is that of relative prognathism. Early diagnosis requires awareness of the often subtle clinical and neurobehavioral phenotype of the infant period. Speech delay with or without hearing loss is common. Most children are diagnosed in mid-childhood when the features of the disorder are most recognizable and striking. While improvements in cytogenetic analysis help to bring cases to clinical recognition at an earlier age, this review seeks to increase clinical awareness about Smith-Magenis syndrome by presenting the salient features observed at different ages including descriptions of the neurologic and behavioral features. Detailed review of the circadian rhythm disturbance unique to Smith-Magenis syndrome is presented. Suggestions for management of the behavioral and sleep difficulties are discussed in the context of the authors' personal experience in the setting of an ongoing Smith-Magenis syndrome natural history study.

Development of a codon optimization strategy using the efor RED reporter gene as a test case

NASA Astrophysics Data System (ADS)

Yip, Chee-Hoo; Yarkoni, Orr; Ajioka, James; Wan, Kiew-Lian; Nathan, Sheila

2018-04-01

Synthetic biology is a platform that enables high-level synthesis of useful products such as pharmaceutically related drugs, bioplastics and green fuels from synthetic DNA constructs. Large-scale expression of these products can be achieved in an industrial compliant host such as Escherichia coli. To maximise the production of recombinant proteins in a heterologous host, the genes of interest are usually codon optimized based on the codon usage of the host. However, the bioinformatics freeware available for standard codon optimization might not be ideal in determining the best sequence for the synthesis of synthetic DNA. Synthesis of incorrect sequences can prove to be a costly error and to avoid this, a codon optimization strategy was developed based on the E. coli codon usage using the efor RED reporter gene as a test case. This strategy replaces codons encoding for serine, leucine, proline and threonine with the most frequently used codons in E. coli. Furthermore, codons encoding for valine and glycine are substituted with the second highly used codons in E. coli. Both the optimized and original efor RED genes were ligated to the pJS209 plasmid backbone using Gibson Assembly and the recombinant DNAs were transformed into E. coli E. cloni 10G strain. The fluorescence intensity per cell density of the optimized sequence was improved by 20% compared to the original sequence. Hence, the developed codon optimization strategy is proposed when designing an optimal sequence for heterologous protein production in E. coli.

An Automated Pipeline for Engineering Many-Enzyme Pathways: Computational Sequence Design, Pathway Expression-Flux Mapping, and Scalable Pathway Optimization.

PubMed

Halper, Sean M; Cetnar, Daniel P; Salis, Howard M

2018-01-01

Engineering many-enzyme metabolic pathways suffers from the design curse of dimensionality. There are an astronomical number of synonymous DNA sequence choices, though relatively few will express an evolutionary robust, maximally productive pathway without metabolic bottlenecks. To solve this challenge, we have developed an integrated, automated computational-experimental pipeline that identifies a pathway's optimal DNA sequence without high-throughput screening or many cycles of design-build-test. The first step applies our Operon Calculator algorithm to design a host-specific evolutionary robust bacterial operon sequence with maximally tunable enzyme expression levels. The second step applies our RBS Library Calculator algorithm to systematically vary enzyme expression levels with the smallest-sized library. After characterizing a small number of constructed pathway variants, measurements are supplied to our Pathway Map Calculator algorithm, which then parameterizes a kinetic metabolic model that ultimately predicts the pathway's optimal enzyme expression levels and DNA sequences. Altogether, our algorithms provide the ability to efficiently map the pathway's sequence-expression-activity space and predict DNA sequences with desired metabolic fluxes. Here, we provide a step-by-step guide to applying the Pathway Optimization Pipeline on a desired multi-enzyme pathway in a bacterial host.

A two-stage stochastic rule-based model to determine pre-assembly buffer content

NASA Astrophysics Data System (ADS)

Gunay, Elif Elcin; Kula, Ufuk

2018-01-01

This study considers instant decision-making needs of the automobile manufactures for resequencing vehicles before final assembly (FA). We propose a rule-based two-stage stochastic model to determine the number of spare vehicles that should be kept in the pre-assembly buffer to restore the altered sequence due to paint defects and upstream department constraints. First stage of the model decides the spare vehicle quantities, where the second stage model recovers the scrambled sequence respect to pre-defined rules. The problem is solved by sample average approximation (SAA) algorithm. We conduct a numerical study to compare the solutions of heuristic model with optimal ones and provide following insights: (i) as the mismatch between paint entrance and scheduled sequence decreases, the rule-based heuristic model recovers the scrambled sequence as good as the optimal resequencing model, (ii) the rule-based model is more sensitive to the mismatch between the paint entrance and scheduled sequences for recovering the scrambled sequence, (iii) as the defect rate increases, the difference in recovery effectiveness between rule-based heuristic and optimal solutions increases, (iv) as buffer capacity increases, the recovery effectiveness of the optimization model outperforms heuristic model, (v) as expected the rule-based model holds more inventory than the optimization model.

Software for optimization of SNP and PCR-RFLP genotyping to discriminate many genomes with the fewest assays

PubMed Central

Gardner, Shea N; Wagner, Mark C

2005-01-01

Background Microbial forensics is important in tracking the source of a pathogen, whether the disease is a naturally occurring outbreak or part of a criminal investigation. Results A method and SPR Opt (SNP and PCR-RFLP Optimization) software to perform a comprehensive, whole-genome analysis to forensically discriminate multiple sequences is presented. Tools for the optimization of forensic typing using Single Nucleotide Polymorphism (SNP) and PCR-Restriction Fragment Length Polymorphism (PCR-RFLP) analyses across multiple isolate sequences of a species are described. The PCR-RFLP analysis includes prediction and selection of optimal primers and restriction enzymes to enable maximum isolate discrimination based on sequence information. SPR Opt calculates all SNP or PCR-RFLP variations present in the sequences, groups them into haplotypes according to their co-segregation across those sequences, and performs combinatoric analyses to determine which sets of haplotypes provide maximal discrimination among all the input sequences. Those set combinations requiring that membership in the fewest haplotypes be queried (i.e. the fewest assays be performed) are found. These analyses highlight variable regions based on existing sequence data. These markers may be heterogeneous among unsequenced isolates as well, and thus may be useful for characterizing the relationships among unsequenced as well as sequenced isolates. The predictions are multi-locus. Analyses of mumps and SARS viruses are summarized. Phylogenetic trees created based on SNPs, PCR-RFLPs, and full genomes are compared for SARS virus, illustrating that purported phylogenies based only on SNP or PCR-RFLP variations do not match those based on multiple sequence alignment of the full genomes. Conclusion This is the first software to optimize the selection of forensic markers to maximize information gained from the fewest assays, accepting whole or partial genome sequence data as input. As more sequence data becomes available for multiple strains and isolates of a species, automated, computational approaches such as those described here will be essential to make sense of large amounts of information, and to guide and optimize efforts in the laboratory. The software and source code for SPR Opt is publicly available and free for non-profit use at . PMID:15904493

Measuring short electron bunch lengths using coherent smith-purcell radiation

DOEpatents

Nguyen, Dinh C.

1999-01-01

A method is provided for directly determining the length of sub-picosecond electron bunches. A metallic grating is formed with a groove spacing greater than a length expected for the electron bunches. The electron bunches are passed over the metallic grating to generate coherent and incoherent Smith-Purcell radiation. The angular distribution of the coherent Smith-Purcell radiation is then mapped to directly deduce the length of the electron bunches.

Measuring short electron bunch lengths using coherent Smith-Purcell radiation

DOEpatents

Nguyen, D.C.

1999-03-30

A method is provided for directly determining the length of sub-picosecond electron bunches. A metallic grating is formed with a groove spacing greater than a length expected for the electron bunches. The electron bunches are passed over the metallic grating to generate coherent and incoherent Smith-Purcell radiation. The angular distribution of the coherent Smith-Purcell radiation is then mapped to directly deduce the length of the electron bunches. 8 figs.

Immersive Environments in ADL

DTIC Science & Technology

2009-08-20

Tracking and Storing In Browser 3-D 13 Questions or Comments? Peter Smith Team Lead, Immersive Learning Technologies peter.smith.ctr@adlnet.gov +1.407.384.5572 ...Immersive Environments in ADL Mr. Peter Smith, Lead, ADL Immersive Learning Team 08/20/2009 Report Documentation Page Form ApprovedOMB No. 0704-0188...5d. PROJECT NUMBER 5e. TASK NUMBER 5f. WORK UNIT NUMBER 7. PERFORMING ORGANIZATION NAME(S) AND ADDRESS(ES) Advanced Decision Learning (ADL),1901 N

STS-110 Crew Interviews: Steve Smith

NASA Technical Reports Server (NTRS)

2002-01-01

STS-110 Mission Specialist Steve Smith is seen during this preflight interview, where he gives a quick overview of the mission before answering questions about his inspiration to become an astronaut and his career path. Smith outlines his role in the mission in general, and specifically during the docking and extravehicular activities (EVAs). He describes the payload (S0 Truss and Mobile Transporter) and the dry run installation of the S0 truss that will take place the day before the EVA for the actual installation. Smith discusses the planned EVAs in detail and outlines what supplies will be left for the resident crew of the International Space Station (ISS). He ends with his thoughts on the most valuable aspect of the ISS.

Polysaccharides from heterocyst and spore envelopes of a blue-green alga. [Anabaena cylindrica

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cardemil, L.; Wolk, C.P.

The polysaccharides from the envelopes of heterocysts and spores of Anabaena cylindrica consist of repeating units containing 1 mannosyl and 3 glucosyl residues, all linked by ..beta..(1 ..-->.. 3) glucosidic bonds, with glucose, xylose, galactose, and mannose present in side branches. Degradation of the polysaccharides with specific glycosidases has permitted identification of the linkages to almost all of the branches. When the polysaccharides, from which all but two types of side branches had been cleaved, were digested with a ..beta..(1 ..-->.. 3) endoglucanase, glucose, a tri-, and a pentasaccharide were produced. The oligosaccharide products were identified. The backbones of themore » polysaccharides were sequenced from the reducing terminus by a modified Smith degradation. Analysis with NaB/sup 3/H/sub 4/ at each stage of the degradation showed that the backbones terminate in the sequence Man-Glc-Glc-Glc and are therefore presumed to have the structure (Man-Glc-Glc-Glc)/sub n/, and that they contain an average of from 128 to 150 sugar residues. From the information obtained, the repeating sequences of the original polysaccharides from the two types of differentiated cells of A. cylindrica could be largely deduced and appeared to be identical.« less

Dynamics and control of DNA sequence amplification

DOE Office of Scientific and Technical Information (OSTI.GOV)

Marimuthu, Karthikeyan; Chakrabarti, Raj, E-mail: raj@pmc-group.com, E-mail: rajc@andrew.cmu.edu; Division of Fundamental Research, PMC Advanced Technology, Mount Laurel, New Jersey 08054

2014-10-28

DNA amplification is the process of replication of a specified DNA sequence in vitro through time-dependent manipulation of its external environment. A theoretical framework for determination of the optimal dynamic operating conditions of DNA amplification reactions, for any specified amplification objective, is presented based on first-principles biophysical modeling and control theory. Amplification of DNA is formulated as a problem in control theory with optimal solutions that can differ considerably from strategies typically used in practice. Using the Polymerase Chain Reaction as an example, sequence-dependent biophysical models for DNA amplification are cast as control systems, wherein the dynamics of the reactionmore » are controlled by a manipulated input variable. Using these control systems, we demonstrate that there exists an optimal temperature cycling strategy for geometric amplification of any DNA sequence and formulate optimal control problems that can be used to derive the optimal temperature profile. Strategies for the optimal synthesis of the DNA amplification control trajectory are proposed. Analogous methods can be used to formulate control problems for more advanced amplification objectives corresponding to the design of new types of DNA amplification reactions.« less

Subcutaneous (SQ) injections

MedlinePlus

... education/pepubs/subq.pdf . Accessed January 2, 2018. Smith SF, Duell DJ, Martin BC, Gonzalez L, Aebersold M. Medication administration. In: Smith SF, Duell DJ, Martin BC, Gonzalez L, Aebersold ...

Optimizing Illumina next-generation sequencing library preparation for extremely AT-biased genomes.

PubMed

Oyola, Samuel O; Otto, Thomas D; Gu, Yong; Maslen, Gareth; Manske, Magnus; Campino, Susana; Turner, Daniel J; Macinnis, Bronwyn; Kwiatkowski, Dominic P; Swerdlow, Harold P; Quail, Michael A

2012-01-03

Massively parallel sequencing technology is revolutionizing approaches to genomic and genetic research. Since its advent, the scale and efficiency of Next-Generation Sequencing (NGS) has rapidly improved. In spite of this success, sequencing genomes or genomic regions with extremely biased base composition is still a great challenge to the currently available NGS platforms. The genomes of some important pathogenic organisms like Plasmodium falciparum (high AT content) and Mycobacterium tuberculosis (high GC content) display extremes of base composition. The standard library preparation procedures that employ PCR amplification have been shown to cause uneven read coverage particularly across AT and GC rich regions, leading to problems in genome assembly and variation analyses. Alternative library-preparation approaches that omit PCR amplification require large quantities of starting material and hence are not suitable for small amounts of DNA/RNA such as those from clinical isolates. We have developed and optimized library-preparation procedures suitable for low quantity starting material and tolerant to extremely high AT content sequences. We have used our optimized conditions in parallel with standard methods to prepare Illumina sequencing libraries from a non-clinical and a clinical isolate (containing ~53% host contamination). By analyzing and comparing the quality of sequence data generated, we show that our optimized conditions that involve a PCR additive (TMAC), produces amplified libraries with improved coverage of extremely AT-rich regions and reduced bias toward GC neutral templates. We have developed a robust and optimized Next-Generation Sequencing library amplification method suitable for extremely AT-rich genomes. The new amplification conditions significantly reduce bias and retain the complexity of either extremes of base composition. This development will greatly benefit sequencing clinical samples that often require amplification due to low mass of DNA starting material.

Improvement of energy efficiency via spectrum optimization of excitation sequence for multichannel simultaneously triggered airborne sonar system

NASA Astrophysics Data System (ADS)

Meng, Qing-Hao; Yao, Zhen-Jing; Peng, Han-Yang

2009-12-01

Both the energy efficiency and correlation characteristics are important in airborne sonar systems to realize multichannel ultrasonic transducers working together. High energy efficiency can increase echo energy and measurement range, and sharp autocorrelation and flat cross correlation can help eliminate cross-talk among multichannel transducers. This paper addresses energy efficiency optimization under the premise that cross-talk between different sonar transducers can be avoided. The nondominated sorting genetic algorithm-II is applied to optimize both the spectrum and correlation characteristics of the excitation sequence. The central idea of the spectrum optimization is to distribute most of the energy of the excitation sequence within the frequency band of the sonar transducer; thus, less energy is filtered out by the transducers. Real experiments show that a sonar system consisting of eight-channel Polaroid 600 series electrostatic transducers excited with 2 ms optimized pulse-position-modulation sequences can work together without cross-talk and can measure distances up to 650 cm with maximal 1% relative error.

Pulmonary vein stenosis in patients with Smith-Lemli-Opitz syndrome.

PubMed

Prosnitz, Aaron R; Leopold, Jane; Irons, Mira; Jenkins, Kathy; Roberts, Amy E

2017-07-01

To describe a group of children with co-incident pulmonary vein stenosis and Smith-Lemli-Opitz syndrome and to generate hypotheses as to the shared pathogenesis of these disorders. Retrospective case series. Five subjects in a pulmonary vein stenosis cohort of 170 subjects were diagnosed with Smith-Lemli-Opitz syndrome soon after birth. All five cases were diagnosed with Smith-Lemli-Opitz syndrome within 6 weeks of life, with no family history of either disorder. All cases had pathologically elevated 7-dehydrocholesterol levels and two of the five cases had previously reported pathogenic 7-dehydrocholesterol reductase mutations. Smith-Lemli-Opitz syndrome severity scores ranged from mild to classical (2-7). Gestational age at birth ranged from 35 to 39 weeks. Four of the cases were male by karyotype. Pulmonary vein stenosis was diagnosed in all cases within 2 months of life, earlier than most published cohorts. All cases progressed to bilateral disease and three cases developed atresia of at least one vein. Despite catheter and surgical interventions, all subjects' pulmonary vein stenosis rapidly recurred and progressed. Three of the subjects died, at 2 months, 3 months, and 11 months. Survival at 16 months after diagnosis was 43%. Patients with pulmonary vein stenosis who have a suggestive syndromic presentation should be screened for Smith-Lemli-Opitz syndrome with easily obtainable serum sterol tests. Echocardiograms should be obtained in all newly diagnosed patients with Smith-Lemli-Opitz syndrome, with a low threshold for repeating the study if new respiratory symptoms of uncertain etiology arise. Further studies into the pathophysiology of pulmonary vein stenosis should consider the role of cholesterol-based signaling pathways in the promotion of intimal proliferation. © 2017 Wiley Periodicals, Inc.

Assessment of loaded squat jump height with a free-weight barbell and Smith machine: comparison of the take-off velocity and flight time procedures.

PubMed

Pérez-Castilla, Alejandro; McMahon, John J; Comfort, Paul; García-Ramos, Amador

2017-07-31

The aims of this study were to compare the reliability and magnitude of jump height between the two standard procedures of analysing force platform data to estimate jump height (take-off velocity [TOV] and flight time [FT]) in the loaded squat jump (SJ) exercise performed with a free-weight barbell and in a Smith machine. Twenty-three collegiate men (age 23.1 ± 3.2 years, body mass 74.7 ± 7.3 kg, height 177.1 ± 7.0 cm) were tested twice for each SJ type (free-weight barbell and Smith machine) with 17, 30, 45, 60, and 75 kg loads. No substantial differences in reliability were observed between the TOV (Coefficient of variation [CV]: 9.88%; Intraclass correlation coefficient [ICC]: 0.82) and FT (CV: 8.68%; ICC: 0.88) procedures (CV ratio: 1.14), while the Smith SJ (CV: 7.74%; ICC: 0.87) revealed a higher reliability than the free-weight SJ (CV: 9.88%; ICC: 0.81) (CV ratio: 1.28). The TOV procedure provided higher magnitudes of jump height than the FT procedure for the loaded Smith machine SJ (systematic bias: 2.64 cm; P<0.05), while no significant differences between the TOV and FT procedures were observed in the free-weight SJ exercise (systematic bias: 0.26 cm; P>0.05). Heteroscedasticity of the errors was observed for the Smith machine SJ (r: 0.177) with increasing differences in favour of the TOV procedure for the trials with lower jump height (i.e. higher external loads). Based on these results the use of a Smith machine in conjunction with the FT more accurately determine jump height during the loaded SJ.

Ground Reaction Force and Mechanical Differences Between the Interim Resistive Exercise Device (iRED) and Smith Machine While Performing a Squat

NASA Technical Reports Server (NTRS)

Amonette, William E.; Bentley, Jason R.; Lee, Stuart M. C.; Loehr, James A.; Schneider, Suzanne

2004-01-01

Musculoskeletal unloading in microgravity has been shown to induce losses in bone mineral density, muscle cross-sectional area, and muscle strength. Currently, an Interim Resistive Exercise Device (iRED) is being flown on board the ISS to help counteract these losses. Free weight training has shown successful positive musculoskeletal adaptations. In biomechanical research, ground reaction forces (GRF) trajectories are used to define differences between exercise devices. The purpose of this evaluation is to quantify the differences in GRF between the iRED and free weight exercise performed on a Smith machine during a squat. Due to the differences in resistance properties, inertial loading and load application to the body between the two devices, we hypothesize that subjects using iRED will produce GRF that are significantly different from the Smith machine. There will be differences in bar/harness range of motion and the time when peak GRF occurred in the ROMbar. Three male subjects performed three sets of ten squats on the iRED and on the Smith Machine on two separate days at a 2-second cadence. Statistically significant differences were found between the two devices in all measured GRF variables. Average Fz and Fx during the Smith machine squat were significantly higher than iRED. Average Fy (16.82 plus or minus.23; p less than .043) was significantly lower during the Smith machine squat. The mean descent/ascent ratio of the magnitude of the resultant force vector of all three axes for the Smith machine and iRED was 0.95 and 0.72, respectively. Also, the point at which maximum Fz occurred in the range of motion (Dzpeak) was at different locations with the two devices.

Groundwater and surface-water interaction within the upper Smith River Watershed, Montana 2006-2010

USGS Publications Warehouse

Caldwell, Rodney R.; Eddy-Miller, Cheryl A.

2013-01-01

The 125-mile long Smith River, a tributary of the Missouri River, is highly valued as an agricultural resource and for its many recreational uses. During a drought starting in about 1999, streamflow was insufficient to meet all of the irrigation demands, much less maintain streamflow needed for boating and viable fish habitat. In 2006, the U.S. Geological Survey, in cooperation with the Meagher County Conservation District, initiated a multi-year hydrologic investigation of the Smith River watershed. This investigation was designed to increase understanding of the water resources of the upper Smith River watershed and develop a detailed description of groundwater and surface-water interactions. A combination of methods, including miscellaneous and continuous groundwater-level, stream-stage, water-temperature, and streamflow monitoring was used to assess the hydrologic system and the spatial and temporal variability of groundwater and surface-water interactions. Collectively, data are in agreement and show: (1) the hydraulic connectedness of groundwater and surface water, (2) the presence of both losing and gaining stream reaches, (3) dynamic changes in direction and magnitude of water flow between the stream and groundwater with time, (4) the effects of local flood irrigation on groundwater levels and gradients in the watershed, and (5) evidence and timing of irrigation return flows to area streams. Groundwater flow within the alluvium and older (Tertiary) basin-fill sediments generally followed land-surface topography from the uplands to the axis of alluvial valleys of the Smith River and its tributaries. Groundwater levels were typically highest in the monitoring wells located within and adjacent to streams in late spring or early summer, likely affected by recharge from snowmelt and local precipitation, leakage from losing streams and canals, and recharge from local flood irrigation. The effects of flood irrigation resulted in increased hydraulic gradients (increased groundwater levels relative to stream stage) or even reversed gradient direction at several monitoring sites coincident with the onset of nearby flood irrigation. Groundwater-level declines in mid-summer were due to groundwater withdrawals and reduced recharge from decreased precipitation, increased evapotranspiration, and reduced leakage in some area streams during periods of low flow. Groundwater levels typically rebounded in late summer, a result of decreased evapotranspiration, decreased groundwater use for irrigation, increased flow in losing streams, and the onset of late-season flood irrigation at some sites. The effect of groundwater and surface-water interactions is most apparent along the North and South Forks of the Smith River where the magnitude of streamflow losses and gains can be greater than the magnitude of flow within the stream. Net gains consistently occurred over the lower 15 miles of the South Fork Smith River. A monitoring site near the mouth of the South Fork Smith River gained (flow from the groundwater to the stream) during all seasons, with head gradients towards the stream. Two upstream sites on the South Fork Smith River exhibited variable conditions that ranged from gaining during the spring, losing (flowing from the stream to the groundwater) during most of the summer as groundwater levels declined, and then approached or returned to gaining conditions in late summer. Parts of the South Fork Smith River became dry during periods of losing conditions, thus classifying this tributary as intermittent. The North Fork Smith River is highly managed at times through reservoir releases. The North Fork Smith River was perennial throughout the study period although irrigation diversions removed a large percentage of streamflow at times and losing conditions persisted along a lower reach. The lowermost reach of the North Fork Smith River near its mouth transitioned from a losing reach to a gaining reach throughout the study period. Groundwater and surface-water interactions occur downstream from the confluence of the North and South Fork Smith Rivers, but are less discernible compared to the overall magnitude of the main-stem streamflow. The Smith River was perennial throughout the study. Monitoring sites along the Smith River generally displayed small head gradients between the stream and the groundwater, while one site consistently showed strongly gaining conditions. Synoptic streamflow measurements during periods of limited irrigation diversion in 2007 and 2008 consistently showed gains over the upper 41.4 river miles of the main stem Smith River where net gains ranged from 13.0 to 28.9 cubic feet per second. Continuous streamflow data indicated net groundwater discharge and small-scale tributary inflow contributions of around 25 cubic feet per second along the upper 10-mile reach of the Smith River for most of the 2010 record. A period of intense irrigation withdrawal during the last two weeks in May was followed by a period (early June 2010 to mid-July 2010) with the largest net increase (an average of 71.1 cubic feet per second) in streamflow along this reach of the Smith River. This observation is likely due to increased groundwater discharge to the Smith River resulting from irrigation return flow. By late July, the apparent effects of return flows receded, and the net increase in streamflow returned to about 25 cubic feet per second. Two-dimensional heat and solute transport VS2DH models representing selected stream cross sections were used to constrain the hydraulic properties of the Quaternary alluvium and estimate temporal water-flux values through model boundaries. Hydraulic conductivity of the Quaternary alluvium of the modeled sections ranged from 3x10-6 to 4x10-5 feet per second. The models showed reasonable approximations of the streambed and shallow aquifer environment, and the dynamic changes in water flux between the stream and the groundwater through different model boundaries.

Origin of Second-Harmonic Generation Enhancement in Optical Split-Ring Resonators

DTIC Science & Technology

2012-05-15

Scalora , David R. Smith Duke University 2200 West Main Street Suite 710 Durham, NC 27705 -4010 REPORT DOCUMENTATION PAGE b. ABSTRACT UU c. THIS PAGE...harmonic generation enhancement in optical split-ring resonators Cristian Ciracı̀,1,* Ekaterina Poutrina,1 Michael Scalora ,2 and David R. Smith1 1Center for...11098-0121/2012/85(20)/201403(5) ©2012 American Physical Society RAPID COMMUNICATIONS CIRACÌ, POUTRINA, SCALORA , AND SMITH PHYSICAL REVIEW B 85

Development and Translation of a Tissue-Engineered Disc in a Preclinical Rodent Model

DTIC Science & Technology

2013-10-01

authors Dong Hwa Kim, John T. Martin, Dawn M. Elliott, Lachlan J. Smith , and Robert L. Mauck...Replacement in a Small Animal Model with authors John T. Martin, Andrew H. Milby, Joseph A. Chiaro, Dong Hwa Kim, Nader M. Hebela, Lachlan J. Smith , Dawn... Smith , Dawn M. Elliott, and Robert L. Mauck is now in review. To carry out this study, radiopaque scaffolds were generated from a 14.3% w/v slurry

Ohio River Environmental Assessment: Cultural Resources Reconnaissance, Pennsylvania,

DTIC Science & Technology

1977-10-01

Dragoo 1959; Michaels and Smith 1967; and Adovasio et al. 1974 and 1977). In addition to Laurentian artifact types, amo-ka points are present at the...examined where possible to determine if any of them merit further attention. The recent Status R on the Pennsylvania Archaeological Site Survey ( Smith and...Settlement Patterns in the Northeast. New York State Museum and Science Service Memoir 20. Smith , Ira F. and James Herbstritt 1977 A Status Report on the

Physical Fitness of Soldiers Entering and Leaving Basic Combat Training

DTIC Science & Technology

2000-03-01

under sometimes miserably hot conditions (over 100° during post-BCT) to collect the data (alphabetical order): SGT Rebecca Gregg, SPC Greg Loomis, Mr...Clay Pandorf, SPC Ty Smith, SSG Roberta Worsham, and SGT Tanya Zigmont. SPC Smith, SPC Loomis and SGT Gregg graciously agreed to drive the...equipment back and forth to Ft. Jackson. SGT Gregg, SGT Zigmont and SPC Smith were instrumental in rapidly loading the data into a useable format. MAJ Joseph

User experience network. Erroneous downstream occlusion alarms may disable Smiths Medical CADD-Solis infusion pumps.

PubMed

2010-10-01

Due to an issue in manufacturing, downstream occlusion (DSO) sensors in some Smiths Medical CADD-Solis infusion pumps may drift out of calibration, potentially resulting in erroneous alarms that disable the units. Hospitals experiencing the problem should return affected units to Smiths Medical for recalibration (free of charge) and should consider testing all their CADD-Solis pumps during routine maintenance to ensure that they alarm appropriately for downstream occlusions.

C-smithing of Voyager 2 non-imaging instrument pointing information at Uranus

NASA Technical Reports Server (NTRS)

Wang, Tseng-Chan; Acton, Charles H.; Underwood, Ian M.; Synnott, Stephen P.

1988-01-01

The development of a family of techniques, collectively called C-smithing, for improving spacecraft nonimaging instrument pointing knowledge is discussed. C-smithing studies using data from the Voyager 2 Uranus Encounter show that significant improvements in pointing knowledge for nonimaging instruments can be achieved with these techniques. This improved pointing information can be used to regenerate instrument viewing geometry parameters for the encounter, which can then be made available to science investigators.

A comparison of muscle activation between a Smith machine and free weight bench press.

PubMed

Schick, Evan E; Coburn, Jared W; Brown, Lee E; Judelson, Daniel A; Khamoui, Andy V; Tran, Tai T; Uribe, Brandon P

2010-03-01

The bench press exercise exists in multiple forms including the machine and free weight bench press. It is not clear though how each mode differs in its effect on muscle activation. The purpose of this study was to compare muscle activation of the anterior deltoid, medial deltoid, and pectoralis major during a Smith machine and free weight bench press at lower (70% 1 repetition maximum [1RM]) and higher (90% 1RM) intensities. Normalized electromyography amplitude values were used during the concentric phase of the bench press to compare muscle activity between a free weight and Smith machine bench press. Participants were classified as either experienced or inexperienced bench pressers. Two testing sessions were used, each of which entailed either all free weight or all Smith machine testing. In each testing session, each participant's 1RM was established followed by 2 repetitions at 70% of 1RM and 2 repetitions at 90% of 1RM. Results indicated greater activation of the medial deltoid on the free weight bench press than on the Smith machine bench press. Also, there was greater muscle activation at the 90% 1RM load than at the 70% 1RM load. The results of this study suggest that strength coaches should consider choosing the free weight bench press over the Smith machine bench press because of its potential for greater upper-body muscular development.

Gout

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Osteonecrosis

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Vasculitis

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

RBT-GA: a novel metaheuristic for solving the Multiple Sequence Alignment problem.

PubMed

Taheri, Javid; Zomaya, Albert Y

2009-07-07

Multiple Sequence Alignment (MSA) has always been an active area of research in Bioinformatics. MSA is mainly focused on discovering biologically meaningful relationships among different sequences or proteins in order to investigate the underlying main characteristics/functions. This information is also used to generate phylogenetic trees. This paper presents a novel approach, namely RBT-GA, to solve the MSA problem using a hybrid solution methodology combining the Rubber Band Technique (RBT) and the Genetic Algorithm (GA) metaheuristic. RBT is inspired by the behavior of an elastic Rubber Band (RB) on a plate with several poles, which is analogues to locations in the input sequences that could potentially be biologically related. A GA attempts to mimic the evolutionary processes of life in order to locate optimal solutions in an often very complex landscape. RBT-GA is a population based optimization algorithm designed to find the optimal alignment for a set of input protein sequences. In this novel technique, each alignment answer is modeled as a chromosome consisting of several poles in the RBT framework. These poles resemble locations in the input sequences that are most likely to be correlated and/or biologically related. A GA-based optimization process improves these chromosomes gradually yielding a set of mostly optimal answers for the MSA problem. RBT-GA is tested with one of the well-known benchmarks suites (BALiBASE 2.0) in this area. The obtained results show that the superiority of the proposed technique even in the case of formidable sequences.

Structural optimization with approximate sensitivities

NASA Technical Reports Server (NTRS)

Patnaik, S. N.; Hopkins, D. A.; Coroneos, R.

1994-01-01

Computational efficiency in structural optimization can be enhanced if the intensive computations associated with the calculation of the sensitivities, that is, gradients of the behavior constraints, are reduced. Approximation to gradients of the behavior constraints that can be generated with small amount of numerical calculations is proposed. Structural optimization with these approximate sensitivities produced correct optimum solution. Approximate gradients performed well for different nonlinear programming methods, such as the sequence of unconstrained minimization technique, method of feasible directions, sequence of quadratic programming, and sequence of linear programming. Structural optimization with approximate gradients can reduce by one third the CPU time that would otherwise be required to solve the problem with explicit closed-form gradients. The proposed gradient approximation shows potential to reduce intensive computation that has been associated with traditional structural optimization.

Optimizing the sequence of diameter distributions and selection harvests for uneven-aged stand management

Treesearch

Robert G. Haight; J. Douglas Brodie; Darius M. Adams

1985-01-01

The determination of an optimal sequence of diameter distributions and selection harvests for uneven-aged stand management is formulated as a discrete-time optimal-control problem with bounded control variables and free-terminal point. An efficient programming technique utilizing gradients provides solutions that are stable and interpretable on the basis of economic...

Polymyalgia Rheumatica

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Neck Pain

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Psoriatic Arthritis

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Juvenile Arthritis

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Dermatomyositis (Juvenile)

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Metabolic Myopathies

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Spinal Stenosis

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

A study of microkinetic adjustments required to match shock wave experiments and Monte Carlo Direct Simulation for a wide Mach number range

NASA Technical Reports Server (NTRS)

Pham-Van-diep, Gerald C.; Muntz, E. Phillip; Erwin, Daniel A.

1990-01-01

Shock wave thickness predictions from Monte Carlo Direct Simulations, using differential scattering and the Maitland-Smith-Aziz interatomic potential, underpredict experiments as shock Mach numbers increase above about 4. Examination of several sources of data has indicated that at relatively high energies the repulsive portion of accepted potentials such as the Maitland-Smith-Aziz may be too steep. An Exponential-6 potential due to Ross, based on high energy molecular beam scattering data and shock velocity measurements in liquid argon, has been combined with the lower energy portion of the Maitland-Smith-Aziz potential. When this hybrid potential is used in Monte Carlo Direct Simulations, agreement with experiments is improved over the previous predictions using the pure Maitland-Smith-Aziz form.

Turning patients over in bed

MedlinePlus

... 25732278 www.ncbi.nlm.nih.gov/pubmed/25732278 . Smith SF, Duell DJ, Martin BC, Gonzalez L, Aebersold M. Body mechanics and positioning. In: Smith SF, Duell DJ, Martin BC, Gonzalez L, Aebersold ...

GW-501516 GlaxoSmithKline/Ligand.

PubMed

Pelton, Patricia

2006-04-01

GlaxoSmithKline and Ligand are developing GW-501516, a peroxisome proliferator-activator receptor-delta agonist for the potential treatment of dyslipidemia. Phase II clinical trials of this compound are ongoing.

Peripherally inserted central catheter - insertion

MedlinePlus

... ed. Philadelphia, PA: Elsevier Saunders; 2014:chap 26. Smith SF, Duell DJ, Martin BC, Gonzalez L, Aebersold M. Central vascular access devices. In: Smith SF, Duell DJ, Martin BC, Gonzalez L, Aebersold ...

Find a Rheumatologist

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Antinuclear Antibodies (ANA)

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Sex and Arthritis

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Joint Injection/Aspiration

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Giant Cell Arteritis

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Carpal Tunnel Syndrome

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Tendinitis and Bursitis

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Supernumerary nipples

MedlinePlus

... Miscellaneous conditions. In: Patterson JW. Weedon's Skin Pathology . 4th ed. Philadelphia, PA: Elsevier; 2016:chap 19. Smith ... nipples. In: Smith RP. Netter's Obstetrics and Gynecology . 4th ed. Philadelphia, PA: Elsevier; 2008:chap 144.

A Method to Achieve High Fidelity in Internet-Distributed Hardware-in-the-Loop Simulation

DTIC Science & Technology

2012-08-01

2008. [17] M. Compere , J. Goodell, M. Simon, W. Smith, and M. Brudnak, "Robust control techniques enabling duty cycle experiments utilizing a 6-DOF...01-3077, 2006. [18] J. Goodell, M. Compere , M. Simon, W. Smith, R. Wright, and M. Brudnak, "Robust control techniques for state tracking in the...presence of variable time delays," SAE Technical Paper, 2006-01-1163, 2006. [19] M. Brudnak, M. Pozolo, V. Paul, S. Mohammad, W. Smith, M. Compere , J

An Iterative Learning Control Approach to Improving Fidelity in Internet-Distributed Hardware-in-the-Loop Simulation

DTIC Science & Technology

2012-06-15

pp. 535-543. [17] Compere , M., Goodell, J., Simon, M., Smith, W., and Brudnak, M., 2006, "Robust Control Techniques Enabling Duty Cycle...Technical Paper, 2006-01-3077. [18] Goodell, J., Compere , M., Simon, M., Smith, W., Wright, R., and Brudnak, M., 2006, "Robust Control Techniques for...Smith, W., Compere , M., Goodell, J., Holtz, D., Mortsfield, T., and Shvartsman, A., 2007, "Soldier/Harware-in-the-Loop Simulation- Based Combat Vehicle

The Effects of Exposure to Documented Open-Air Burn Pits on Respiratory Health Among Deployers of the Millennium Cohort Study

DTIC Science & Technology

2012-06-01

reproduction of this article is prohibited. C© 2012 American College of Occupational and Environmental Medicine 709 Smith et al JOEM Volume 54, Number 6...C© 2012 American College of Occupational and Environmental Medicine 711 Smith et al JOEM Volume 54, Number 6, June 2012 TABLE 2. Adjusted Odds of...Environmental Medicine 713 Smith et al JOEM Volume 54, Number 6, June 2012 for disposal elsewhere. Findings revealed that those who deployed within 3 miles

AltitudeOmics: The Basic Biology of Human Acclimatization to High Altitude

DTIC Science & Technology

2013-09-01

News Physiol Sci 17: 17–21, 2002. 62. Willie CK, Macleod DB, Shaw AD, Smith KJ, Tzeng YC, Eves ND, Ikeda K, Graham J, Lewis NC, Day TA, Ainslie PN...transcranial magnetic stimulation. J Physiol 551, 661-671. Willie, C. K., Macleod, D. B., Shaw , A. D., Smith, K. J., Tzeng, Y. C., Eves, N. D., Ikeda...blood flow. Davis, Philadelphia. Willie CK, Macleod DB, Shaw AD, Smith KJ, Tzeng YC, Eves ND, Ikeda K, Graham J, Lewis NC, Day TA & Ainslie PN

Isolation of a Toxin from Venom of Wagler’s Pit Viper Trimeresurus wagleri

DTIC Science & Technology

1990-01-31

AUTHOR(S) Scott A. Weinstein, Alan W. Bernheimer and Leonard A. Smith 13a. TYPE OF REPORT 13b. TIME COVERED 14. DATE OF REPORT (Year, Month, Day) 15. PAGE...WAGLERI SCOTT A. WEINSTEIN, 1 ALAN W. BERNHEIMER , 2 AND LEONARD A. SMITH1 * 1 Department of Toxinology, Pathology Division, United States Army Medical...Weinstein, A. W. Bernheimer , and L. A. Smith. Isolation of a toxin from venom of Waglers pit viper Trimeresurus wagleri. Toxicon .,- ,19--. A lethal

NACA Conference on Helicopters

DTIC Science & Technology

1954-05-01

Louis S., Jr.: Summary of Airfoil Data. NACA Rep. 824, 1945. (Supersedes NACA WR L-560.) 2. Loftin, Laurence K., Jr., and Smith , Hamilton, A...F., and Smith , Hamilton A.: Aerodynamic Character- istics of the NACA 8-H-12 Airfoil Section at Six Reynold Numbers From 1.8 x 1u6 to 11.0 X 106...NACA TN 1998, 1949. 4. Smith , Hamilton A., and Schaefer, Raymond F.: Aerodynamic Character- 0 istics at Reynolds Numbers of 3.0 X 106 and 6.0 x 106 of

Big Dam Era: A Legislative and Institutional History of the Pick-Sloan Missouri Basin Program

DTIC Science & Technology

1993-01-01

other problems in the upper tributary basins." Bureau of the Budget Director Harold D. Smith preferred an alterna- tive approach. (Note: By...executive order in 1970, the Bureau of the Budget became the Office of Management and Budget.) In February 1944, Smith responded to a letter from Secretary...President Roosevelt. Smith said he had informed Roosevelt of the Corps proposal and it was not what the President wanted, "at least at the present." The

EVA 1 - Grunsfeld and Smith during RSU changeout

NASA Image and Video Library

1999-12-22

STS-103 mission specialist John M. Grunsfeld (attached to a workstation on the RMS arm) and payload commander Steven L. Smith (free-floating) perform a changeout of the Rate Sensor Units (RSU) in one of the bays of -V3 plane of the Hubble Space Telescope (HST). This repair was performed during the first of three extravehicular activities (EVAs) of the mission. Grunsfeld is distinguished by having no marks on his EMU and Smith is distinguished by the red strip on the pants of his EMU.

An Analysis of the Effect the Enlisted Grade Structure Review Has Upon First Term Alignment Plan Retention Requirements

DTIC Science & Technology

2003-03-01

9 Labor force participation rate equates to the labor force divided by the population. 10 Ehrenberg and Smith, “Modern Labor Economics .” 27...Econometrica 66 (1998): 249. 12 Ehrenbrg, Ronald G. and Robert S. Smith. “Modern Labor Economics : Theory and Public Policy.” Addison Wesley...whs.osd.mil/mid/military/miltop.htm> Ehrenbrg, Ronald G. and Robert S. Smith. “Modern Labor Economics : Theory and Public Policy.” Addison Wesley

Guaranteed Discrete Energy Optimization on Large Protein Design Problems.

PubMed

Simoncini, David; Allouche, David; de Givry, Simon; Delmas, Céline; Barbe, Sophie; Schiex, Thomas

2015-12-08

In Computational Protein Design (CPD), assuming a rigid backbone and amino-acid rotamer library, the problem of finding a sequence with an optimal conformation is NP-hard. In this paper, using Dunbrack's rotamer library and Talaris2014 decomposable energy function, we use an exact deterministic method combining branch and bound, arc consistency, and tree-decomposition to provenly identify the global minimum energy sequence-conformation on full-redesign problems, defining search spaces of size up to 10(234). This is achieved on a single core of a standard computing server, requiring a maximum of 66GB RAM. A variant of the algorithm is able to exhaustively enumerate all sequence-conformations within an energy threshold of the optimum. These proven optimal solutions are then used to evaluate the frequencies and amplitudes, in energy and sequence, at which an existing CPD-dedicated simulated annealing implementation may miss the optimum on these full redesign problems. The probability of finding an optimum drops close to 0 very quickly. In the worst case, despite 1,000 repeats, the annealing algorithm remained more than 1 Rosetta unit away from the optimum, leading to design sequences that could differ from the optimal sequence by more than 30% of their amino acids.

Lonchocarpus rugosus Benth.

Treesearch

Nadia Navarrete-Tindall; Hugo Aragon

2002-01-01

Lonchocarpus rugosus is native to southern Mexico and Central America. Other Lonchocarpus species reported in El Salvador are L. atropurpureus Benth., L. minimiflorus Donn. Smith, L. peninsularis (Donn. Smith) Pittier, L. phaseolifolius Benth., and L....

18. Photocopy of print (Original in Smith's History of Delaware ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

18. Photocopy of print (Original in Smith's History of Delaware County, Pennsylvania) MAIN AND EAST ELEVATIONS - Caleb Pusey House, 15 Race Street (Landingford Plantation), Upland, Delaware County, PA

40 CFR 52.934 - VOC rule deficiency correction.

Code of Federal Regulations, 2010 CFR

2010-07-01

... letter from Winston A. Smith, Air, Pesticides & Toxics Management Division Director, to William C. Eddins..., and clarified in a letter from Winston A. Smith, Air, Pesticides & Toxics Management Division Director...

HIV and Rheumatic Disease

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

What Is a Rheumatologist?

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Genetics and Rheumatic Disease

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Pregnancy and Rheumatic Disease

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

HCV and Rheumatic Disease

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

American College of Rheumatology

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Sjögren's Syndrome

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Granulomatosis with Polyangiitis (Wegener's)

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Calcium Pyrophosphate Deposition (CPPD)

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Defense.gov Special Report: Travels with Panetta

Science.gov Websites

in Australia Defense Secretary Leon E. Panetta and Australian Defense Minister Stephen Smith have , Secretary Clinton, Minister Carr and Minister Smith at AUSMIN Ministerial, Perth, Australia Media

Persistent Seismicity and Energetics of the 2010 Earthquake Sequence of the Gros Ventre-Teton Area, Wyoming

NASA Astrophysics Data System (ADS)

Farrell, J.

2010-12-01

Farrell, Jamie M. Smith, Robert Massin, Fred White, Bonnie Department of Geology and Geophysics University of Utah Salt Lake City, Utah 84112 Seismicity has persisted along a zone south of the Yellowstone volcanic field in the Gros Ventre Range, Wyoming, and on the eastern edge of the asesimic Quat. high slip-rate Teton fault. Concentrated seismicity has in this area occurs in sporadic sequences documented since 1923 with notable earthquakes in the decade preceding the deadly 1925 Gros Ventre slide that eventually lead to the failure of a dam blocked by the slide in 1927. Notable seismicity of the Gros Ventre region, using data from the Teton, Yellowstone and USArray seismic networks, has continued in the last decade with sequences in 2002, 2004, culminating in an energetic sequence beginning in May, 2009 through a sequence of more than 180 well located earthquakes mainly from August 5 to August 17 of 0.5

Robust fuel- and time-optimal control of uncertain flexible space structures

NASA Technical Reports Server (NTRS)

Wie, Bong; Sinha, Ravi; Sunkel, John; Cox, Ken

1993-01-01

The problem of computing open-loop, fuel- and time-optimal control inputs for flexible space structures in the face of modeling uncertainty is investigated. Robustified, fuel- and time-optimal pulse sequences are obtained by solving a constrained optimization problem subject to robustness constraints. It is shown that 'bang-off-bang' pulse sequences with a finite number of switchings provide a practical tradeoff among the maneuvering time, fuel consumption, and performance robustness of uncertain flexible space structures.

CENTRAL PLATEAU REMEDIATION OPTIMIZATION STUDY

DOE Office of Scientific and Technical Information (OSTI.GOV)

BERGMAN, T. B.; STEFANSKI, L. D.; SEELEY, P. N.

2012-09-19

THE CENTRAL PLATEAU REMEDIATION OPTIMIZATION STUDY WAS CONDUCTED TO DEVELOP AN OPTIMAL SEQUENCE OF REMEDIATION ACTIVITIES IMPLEMENTING THE CERCLA DECISION ON THE CENTRAL PLATEAU. THE STUDY DEFINES A SEQUENCE OF ACTIVITIES THAT RESULT IN AN EFFECTIVE USE OF RESOURCES FROM A STRATEGIC PERSPECTIVE WHEN CONSIDERING EQUIPMENT PROCUREMENT AND STAGING, WORKFORCE MOBILIZATION/DEMOBILIZATION, WORKFORCE LEVELING, WORKFORCE SKILL-MIX, AND OTHER REMEDIATION/DISPOSITION PROJECT EXECUTION PARAMETERS.

Bathing a patient in bed

MedlinePlus

... ed. American National Red Cross; 2013:chap 13. Smith SF, Duell DJ, Martin BC, Gonzalez L, Aebersold M. Bathing, bedmaking, and maintaining skin integrity. In: Smith SF, Duell DJ, Martin BC, Gonzalez L, Aebersold ...

78 FR 27415 - Kansas; Major Disaster and Related Determinations

Federal Register 2010, 2011, 2012, 2013, 2014

2013-05-10

..., McPherson, Ness, Osage, Osborne, Pawnee, Phillips, Pratt, Rice, Rooks, Rush, Russell, Smith, and Stafford..., McPherson, Ness, Osage, Osborne, Pawnee, Phillips, Pratt, Rice, Rooks, Rush, Russell, Smith, and Stafford...

NSAIDs (Nonsteroidal Anti-inflammatory Drugs)

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Osteonecrosis of the Jaw (ONJ)

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Sexual Violence

MedlinePlus

... References 1. Black MC, Basile KC, Breiding MJ, Smith SG, Walters ML, Merrick MT, Chen J, Stevens ... cdc.gov/mmwr/preview/mmwrhtml/ss5806a1.htm 6. Smith SG. Breiding MJ. Chronic disease and health behaviours ...

Parenting Your Adopted Teenager

MedlinePlus

... and how they will look in the future (Smith, Howard, & Monroe, 2000), and adopted teens must consider ... best interest of your child. 3 Siegel, D., & Smith, S. (2012). Openness in adoption: From secrecy and stigma ...

Cancer Data and Statistics Tools

MedlinePlus

... Joseph Jacqueline W. Miller Mona Saraiya Judith Lee Smith Sherri L. Stewart Mary C. White Debra Younginer ... MD, MPH Simple Singh, MD, MPH Judith Lee Smith, PhD Sherri L. Stewart, PhD Eric Tai, MD, ...

Webbing of the fingers or toes

MedlinePlus

... Carpenter syndrome Cornelia de Lange syndrome Pfeiffer syndrome Smith-Lemli-Opitz syndrome Use of the medicine hydantoin ... Jones KL, Jones MC, Del Campo M, eds. Smith's Recognizable Patterns of Human Malformation . 7th ed. Philadelphia, ...

Genetics Home Reference: Smith-Magenis syndrome

MedlinePlus

... segment most often includes approximately 3.7 million DNA building blocks (base pairs), also written as 3. ... AM, Lupski JR, Potocki L. Cognitive and adaptive behavior profiles in Smith-Magenis syndrome. J Dev Behav ...

Cryopyrin-Associated Autoinflammatory Syndromes (CAPS) - Juvenile

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Genetics Home Reference: fibrodysplasia ossificans progressiva

MedlinePlus

... Glaser DL, LeMerrer M, Morhart R, Rogers JG, Smith R, Triffitt JT, Urtizberea JA, Zasloff M, Brown ... added]; Morhart, Rolf [added]; Rogers, John G [added]; Smith, Roger [added]; Triffitt, James T [added]; Urtizberea, J ...

Genetics Home Reference: Potocki-Lupski syndrome

MedlinePlus

... of this segment causes a related condition called Smith-Magenis syndrome .) In the remaining one-third of ... L. Neurodevelopmental Disorders Associated with Abnormal Gene Dosage: Smith-Magenis and Potocki-Lupski Syndromes. J Pediatr Genet. ...

Genetics Home Reference: Perrault syndrome

MedlinePlus

... Page Jenkinson EM, Rehman AU, Walsh T, Clayton-Smith J, Lee K, Morell RJ, Drummond MC, Khan ... NA, Mehta S, Cilliers D, Clayton PE, Kingston H, Smith MJ, Warner TT; University of Washington Center for ...

Controlling Cholesterol with Statins

MedlinePlus

... already in the blood. According to James P. Smith, M.D., M.S., deputy director of the Division ... the risk of heart disease and stroke,” says Smith. “But other factors that are out of our ...

Influenza Photos

MedlinePlus

... Forces Institute of Pathology, Washington, D.C., Image Smith 18 "Convalescing, 1918 influenza epidemic" www.vaccineinformation.org/ ... Forces Institute of Pathology, Washington, D.C., Image Smith 3 About • Contact • A-Z Index • Site Map • ...

Genetics Home Reference: branchiootorenal/branchiootic syndrome

MedlinePlus

... Darbro BW, Clarke J, Nishimura C, Cobb B, Smith RJ, Manak JR. Genome-wide copy number variation ... Meyer NC, Cucci RA, Vervoort VS, Schwartz CE, Smith RJ. Branchio-oto-renal syndrome: the mutation spectrum ...

Meet EPA Scientist Betsy Smith, Ph.D.

EPA Pesticide Factsheets

Dr. Betsy Smith is Associate National Program Director for Systems Analysis within the Sustainable and Healthy Communities Research Program. Her work has focused on new methods to analyze spatial data on multiple problems.

Systematic optimization model and algorithm for binding sequence selection in computational enzyme design

PubMed Central

Huang, Xiaoqiang; Han, Kehang; Zhu, Yushan

2013-01-01

A systematic optimization model for binding sequence selection in computational enzyme design was developed based on the transition state theory of enzyme catalysis and graph-theoretical modeling. The saddle point on the free energy surface of the reaction system was represented by catalytic geometrical constraints, and the binding energy between the active site and transition state was minimized to reduce the activation energy barrier. The resulting hyperscale combinatorial optimization problem was tackled using a novel heuristic global optimization algorithm, which was inspired and tested by the protein core sequence selection problem. The sequence recapitulation tests on native active sites for two enzyme catalyzed hydrolytic reactions were applied to evaluate the predictive power of the design methodology. The results of the calculation show that most of the native binding sites can be successfully identified if the catalytic geometrical constraints and the structural motifs of the substrate are taken into account. Reliably predicting active site sequences may have significant implications for the creation of novel enzymes that are capable of catalyzing targeted chemical reactions. PMID:23649589

Taxonomic notes on the species of the genus Anterhynchium de Saussure, 1863 (Hymenoptera: Vespidae: Eumeninae) from Vietnam, with description of a new species.

PubMed

Nguyen, Lien Thi Phuong

2015-02-02

A taxonomic study on the solitary wasps in the vespid genus Anterhynchium de Saussure, 1863, from Vietnam is presented. One species previously identified as A. (Anterhynchium) abdominale abdominale (Illiger, 1802) is described as new, namely A. punctatum Nguyen, sp. nov. Antechynchium (Dirhynchium) flavolineatum flavolineatum (Smith, 1857) and A. (Dirhynchium) flavomarginatum flavomarginatum (Smith, 1852) are newly recorded from Vietnam. New synonymy is proposed for A. flavolineatum flavolineatum (Smith, 1857) =A. flavolineatum malaisei van der Vecht, 1963, syn. nov. A. coracinum van der Vecht sensu Girish Kumar (2013) is a misidentification of A. f. flavomarginatum (Smith), and the record of this species from Pakistan and India belongs to A. f. flavolineatum. A key to species of the genus from Vietnam is provided. 

Smith predictor based-sliding mode controller for integrating processes with elevated deadtime.

PubMed

Camacho, Oscar; De la Cruz, Francisco

2004-04-01

An approach to control integrating processes with elevated deadtime using a Smith predictor sliding mode controller is presented. A PID sliding surface and an integrating first-order plus deadtime model have been used to synthesize the controller. Since the performance of existing controllers with a Smith predictor decrease in the presence of modeling errors, this paper presents a simple approach to combining the Smith predictor with the sliding mode concept, which is a proven, simple, and robust procedure. The proposed scheme has a set of tuning equations as a function of the characteristic parameters of the model. For implementation of our proposed approach, computer based industrial controllers that execute PID algorithms can be used. The performance and robustness of the proposed controller are compared with the Matausek-Micić scheme for linear systems using simulations.

Calculation of force and power during bench throws using a Smith machine: the importance of considering the effect of counterweights.

PubMed

Kobayashi, Y; Narazaki, K; Akagi, R; Nakagaki, K; Kawamori, N; Ohta, K

2013-09-01

For achieving accurate and safe measurements of the force and power exerted on a load during resistance exercise, the Smith machine has been used instead of free weights. However, because some Smith machines possess counterweights, the equation for the calculation of force and power in this system should be different from the one used for free weights. The purpose of this investigation was to calculate force and power using an equation derived from a dynamic equation for a Smith machine with counterweights and to determine the differences in force and power calculated using 2 different equations. One equation was established ignoring the effect of the counterweights (Method 1). The other equation was derived from a dynamic equation for a barbell and counterweight system (Method 2). 9 female collegiate judo athletes performed bench throws using a Smith machine with a counterweight at 6 different loading conditions. Barbell displacement was recorded using a linear position transducer. The force and power were subsequently calculated by Methods 1 and 2. The results showed that the mean and peak power and force in Method 1 were significantly lower relative to those of Method 2 under all loading conditions. These results indicate that the mean and peak power and force during bench throwing using a Smith machine with counterweights would be underestimated when the calculations used to determine these parameters do not account for the effect of counterweights. © Georg Thieme Verlag KG Stuttgart · New York.

MAGNETIZED GAS IN THE SMITH HIGH VELOCITY CLOUD

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hill, Alex S.; McClure-Griffiths, Naomi M.; Mao, S. A.

2013-11-01

We report the first detection of magnetic fields associated with the Smith High Velocity Cloud. We use a catalog of Faraday rotation measures toward extragalactic radio sources behind the Smith Cloud, new H I observations from the Robert C. Byrd Green Bank Telescope, and a spectroscopic map of Hα from the Wisconsin H-Alpha Mapper Northern Sky Survey. There are enhancements in rotation measure (RM) of ≈100 rad m{sup –2} which are generally well correlated with decelerated Hα emission. We estimate a lower limit on the line-of-sight component of the field of ≈8 μG along a decelerated filament; this is amore » lower limit due to our assumptions about the geometry. No RM excess is evident in sightlines dominated by H I or Hα at the velocity of the Smith Cloud. The smooth Hα morphology of the emission at the Smith Cloud velocity suggests photoionization by the Galactic ionizing radiation field as the dominant ionization mechanism, while the filamentary morphology and high (≈1 Rayleigh) Hα intensity of the lower-velocity magnetized ionized gas suggests an ionization process associated with shocks due to interaction with the Galactic interstellar medium. The presence of the magnetic field may contribute to the survival of high velocity clouds like the Smith Cloud as they move from the Galactic halo to the disk. We expect these data to provide a test for magnetohydrodynamic simulations of infalling gas.« less

Does the Watson-Jones or Modified Smith-Petersen Approach Provide Superior Exposure for Femoral Neck Fracture Fixation?

PubMed

Lichstein, Paul M; Kleimeyer, John P; Githens, Michael; Vorhies, John S; Gardner, Michael J; Bellino, Michael; Bishop, Julius

2018-07-01

A well-reduced femoral neck fracture is more likely to heal than a poorly reduced one, and increasing the quality of the surgical exposure makes it easier to achieve anatomic fracture reduction. Two open approaches are in common use for femoral neck fractures, the modified Smith-Petersen and Watson-Jones; however, to our knowledge, the quality of exposure of the femoral neck exposure provided by each approach has not been investigated. (1) What is the respective area of exposed femoral neck afforded by the Watson-Jones and modified Smith-Petersen approaches? (2) Is there a difference in the ability to visualize and/or palpate important anatomic landmarks provided by the Watson-Jones and modified Smith-Petersen approaches? Ten fresh-frozen human pelvi underwent both modified Smith-Petersen (utilizing the caudal extent of the standard Smith-Petersen interval distal to the anterosuperior iliac spine and parallel to the palpable interval between the tensor fascia lata and the sartorius) and Watson-Jones approaches. Dissections were performed by three fellowship-trained orthopaedic traumatologists with extensive experience in both approaches. Exposure (in cm) was quantified with calibrated digital photographs and specialized software. Modified Smith-Petersen approaches were analyzed before and after rectus femoris tenotomy. The ability to visualize and palpate seven clinically relevant anatomic structures (the labrum, femoral head, subcapital femoral neck, basicervical femoral neck, greater trochanter, lesser trochanter, and medial femoral neck) was also recorded. The quantified area of the exposed proximal femur was utilized to compare which approach afforded the largest field of view of the femoral neck and articular surface for assessment of femoral neck fracture and associated femoral head injury. The ability to visualize and palpate surrounding structures was assessed so that we could better understand which approach afforded the ability to assess structures that are relevant to femoral neck fracture reduction and fixation. After controlling for age, body mass index, height, and sex, we found the modified Smith-Petersen approach provided a mean of 2.36 cm (95% confidence interval [CI], 0.45-4.28 cm; p = 0.015) additional exposure without rectus femoris tenotomy (p = 0.015) and 3.33 cm (95% CI, 1.42-5.24 cm; p = 0.001) additional exposure with a tenotomy compared with the Watson-Jones approach. The labrum, femoral head, subcapital femoral neck, basicervical femoral neck, and greater trochanter were reliably visible and palpable in both approaches. The lesser trochanter was palpable in all of the modified Smith-Petersen and none of the Watson-Jones approaches (p < 0.001). All modified Smith-Petersen approaches (10 of 10) provided visualization and palpation of the medial femoral neck, whereas visualization of the medial femoral neck was only possible in one of 10 Watson-Jones approaches (p < 0.001) and palpation was possible in eight of 10 Watson-Jones versus all 10 modified Smith-Petersen approaches (p = 0.470). In the hands of surgeons experienced with both surgical approaches to the femoral neck, the modified Smith-Petersen approach, with or without rectus femoris tenotomy, provides superior exposure of the femoral neck and articular surface as well as visualization and palpation of clinically relevant proximal femoral anatomic landmarks compared with the Watson-Jones approach. Open reduction and internal fixation of a femoral neck fracture is typically performed in a young patient (< 60 years old) with the objective of obtaining anatomic reduction that would not be possible by closed manipulation, thus enhancing healing potential. In the hands of surgeons experienced in both approaches, the modified Smith-Petersen approach offers improved direct access for reduction and fixation. Higher quality reductions and fixation are expected to translate to improved healing potential and outcomes. Although our experimental results are promising, further clinical studies are needed to verify if this larger exposure area imparts increased quality of reduction, healing, and improved outcomes compared with other approaches. The learning curve for the exposure is unclear, but the approach has broad applications and is frequently used in other subspecialties such as for direct anterior THA and pediatric septic hip drainage. Surgeons treating femoral neck fractures with open reduction and fixation should familiarize themselves with the modified Smith-Petersen approach.

RBT-GA: a novel metaheuristic for solving the multiple sequence alignment problem

PubMed Central

Taheri, Javid; Zomaya, Albert Y

2009-01-01

Background Multiple Sequence Alignment (MSA) has always been an active area of research in Bioinformatics. MSA is mainly focused on discovering biologically meaningful relationships among different sequences or proteins in order to investigate the underlying main characteristics/functions. This information is also used to generate phylogenetic trees. Results This paper presents a novel approach, namely RBT-GA, to solve the MSA problem using a hybrid solution methodology combining the Rubber Band Technique (RBT) and the Genetic Algorithm (GA) metaheuristic. RBT is inspired by the behavior of an elastic Rubber Band (RB) on a plate with several poles, which is analogues to locations in the input sequences that could potentially be biologically related. A GA attempts to mimic the evolutionary processes of life in order to locate optimal solutions in an often very complex landscape. RBT-GA is a population based optimization algorithm designed to find the optimal alignment for a set of input protein sequences. In this novel technique, each alignment answer is modeled as a chromosome consisting of several poles in the RBT framework. These poles resemble locations in the input sequences that are most likely to be correlated and/or biologically related. A GA-based optimization process improves these chromosomes gradually yielding a set of mostly optimal answers for the MSA problem. Conclusion RBT-GA is tested with one of the well-known benchmarks suites (BALiBASE 2.0) in this area. The obtained results show that the superiority of the proposed technique even in the case of formidable sequences. PMID:19594869

Multi-modal and targeted imaging improves automated mid-brain segmentation

NASA Astrophysics Data System (ADS)

Plassard, Andrew J.; D'Haese, Pierre F.; Pallavaram, Srivatsan; Newton, Allen T.; Claassen, Daniel O.; Dawant, Benoit M.; Landman, Bennett A.

2017-02-01

The basal ganglia and limbic system, particularly the thalamus, putamen, internal and external globus pallidus, substantia nigra, and sub-thalamic nucleus, comprise a clinically relevant signal network for Parkinson's disease. In order to manually trace these structures, a combination of high-resolution and specialized sequences at 7T are used, but it is not feasible to scan clinical patients in those scanners. Targeted imaging sequences at 3T such as F-GATIR, and other optimized inversion recovery sequences, have been presented which enhance contrast in a select group of these structures. In this work, we show that a series of atlases generated at 7T can be used to accurately segment these structures at 3T using a combination of standard and optimized imaging sequences, though no one approach provided the best result across all structures. In the thalamus and putamen, a median Dice coefficient over 0.88 and a mean surface distance less than 1.0mm was achieved using a combination of T1 and an optimized inversion recovery imaging sequences. In the internal and external globus pallidus a Dice over 0.75 and a mean surface distance less than 1.2mm was achieved using a combination of T1 and FGATIR imaging sequences. In the substantia nigra and sub-thalamic nucleus a Dice coefficient of over 0.6 and a mean surface distance of less than 1.0mm was achieved using the optimized inversion recovery imaging sequence. On average, using T1 and optimized inversion recovery together produced significantly improved segmentation results than any individual modality (p<0.05 wilcox sign-rank test).

OPTIMIZATION OF MUD HAMMER DRILLING PERFORMANCE - A PROGRAM TO BENCHMARK THE VIABILITY OF ADVANCED MUD HAMMER DRILLING

DOE Office of Scientific and Technical Information (OSTI.GOV)

Arnis Judzis

2003-07-01

This document details the progress to date on the ''OPTIMIZATION OF MUD HAMMER DRILLING PERFORMANCE--A PROGRAM TO BENCHMARK THE VIABILITY OF ADVANCED MUD HAMMER DRILLING'' contract for the quarter starting April 2003 through June 2003. The DOE and TerraTek continue to wait for Novatek on the optimization portion of the testing program (they are completely rebuilding their fluid hammer). Accomplishments included the following: (1) Hughes Christensen has recently expressed interest in the possibility of a program to examine cutter impact testing, which would be useful in a better understanding of the physics of rock impact. Their interest however is notmore » necessarily fluid hammers, but to use the information for drilling bit development. (2) Novatek (cost sharing supplier of tools) has informed the DOE project manager that their tool may not be ready for ''optimization'' testing late summer 2003 (August-September timeframe) as originally anticipated. During 3Q Novatek plans to meet with TerraTek to discuss progress with their tool for 4Q 2003 testing. (3) A task for an addendum to the hammer project related to cutter impact studies was written during 2Q 2003. (4) Smith International internally is upgrading their hammer for the optimization testing phase. One currently known area of improvement is their development program to significantly increase the hammer blow energy.« less

Evaluating information content of SNPs for sample-tagging in re-sequencing projects.

PubMed

Hu, Hao; Liu, Xiang; Jin, Wenfei; Hilger Ropers, H; Wienker, Thomas F

2015-05-15

Sample-tagging is designed for identification of accidental sample mix-up, which is a major issue in re-sequencing studies. In this work, we develop a model to measure the information content of SNPs, so that we can optimize a panel of SNPs that approach the maximal information for discrimination. The analysis shows that as low as 60 optimized SNPs can differentiate the individuals in a population as large as the present world, and only 30 optimized SNPs are in practice sufficient in labeling up to 100 thousand individuals. In the simulated populations of 100 thousand individuals, the average Hamming distances, generated by the optimized set of 30 SNPs are larger than 18, and the duality frequency, is lower than 1 in 10 thousand. This strategy of sample discrimination is proved robust in large sample size and different datasets. The optimized sets of SNPs are designed for Whole Exome Sequencing, and a program is provided for SNP selection, allowing for customized SNP numbers and interested genes. The sample-tagging plan based on this framework will improve re-sequencing projects in terms of reliability and cost-effectiveness.

Can a single-shot black-blood T2-weighted spin-echo echo-planar imaging sequence with sensitivity encoding replace the respiratory-triggered turbo spin-echo sequence for the liver? An optimization and feasibility study.

PubMed

Hussain, Shahid M; De Becker, Jan; Hop, Wim C J; Dwarkasing, Soendersing; Wielopolski, Piotr A

2005-03-01

To optimize and assess the feasibility of a single-shot black-blood T2-weighted spin-echo echo-planar imaging (SSBB-EPI) sequence for MRI of the liver using sensitivity encoding (SENSE), and compare the results with those obtained with a T2-weighted turbo spin-echo (TSE) sequence. Six volunteers and 16 patients were scanned at 1.5T (Philips Intera). In the volunteer study, we optimized the SSBB-EPI sequence by interactively changing the parameters (i.e., the resolution, echo time (TE), diffusion weighting with low b-values, and polarity of the phase-encoding gradient) with regard to distortion, suppression of the blood signal, and sensitivity to motion. The influence of each change was assessed. The optimized SSBB-EPI sequence was applied in patients (N = 16). A number of items, including the overall image quality (on a scale of 1-5), were used for graded evaluation. In addition, the signal-to-noise ratio (SNR) of the liver was calculated. Statistical analysis was carried out with the use of Wilcoxon's signed rank test for comparison of the SSBB-EPI and TSE sequences, with P = 0.05 considered the limit for significance. The SSBB-EPI sequence was improved by the following steps: 1) less frequency points than phase-encoding steps, 2) a b-factor of 20, and 3) a reversed polarity of the phase-encoding gradient. In patients, the mean overall image quality score for the optimized SSBB-EPI (3.5 (range: 1-4)) and TSE (3.6 (range: 3-4)), and the SNR of the liver on SSBB-EPI (mean +/- SD = 7.6 +/- 4.0) and TSE (8.9 +/- 4.6) were not significantly different (P > .05). Optimized SSBB-EPI with SENSE proved to be feasible in patients, and the overall image quality and SNR of the liver were comparable to those achieved with the standard respiratory-triggered T2-weighted TSE sequence. (c) 2005 Wiley-Liss, Inc.

Dispositional optimism and perceived risk interact to predict intentions to learn genome sequencing results.

PubMed

Taber, Jennifer M; Klein, William M P; Ferrer, Rebecca A; Lewis, Katie L; Biesecker, Leslie G; Biesecker, Barbara B

2015-07-01

Dispositional optimism and risk perceptions are each associated with health-related behaviors and decisions and other outcomes, but little research has examined how these constructs interact, particularly in consequential health contexts. The predictive validity of risk perceptions for health-related information seeking and intentions may be improved by examining dispositional optimism as a moderator, and by testing alternate types of risk perceptions, such as comparative and experiential risk. Participants (n = 496) had their genomes sequenced as part of a National Institutes of Health pilot cohort study (ClinSeq®). Participants completed a cross-sectional baseline survey of various types of risk perceptions and intentions to learn genome sequencing results for differing disease risks (e.g., medically actionable, nonmedically actionable, carrier status) and to use this information to change their lifestyle/health behaviors. Risk perceptions (absolute, comparative, and experiential) were largely unassociated with intentions to learn sequencing results. Dispositional optimism and comparative risk perceptions interacted, however, such that individuals higher in optimism reported greater intentions to learn all 3 types of sequencing results when comparative risk was perceived to be higher than when it was perceived to be lower. This interaction was inconsistent for experiential risk and absent for absolute risk. Independent of perceived risk, participants high in dispositional optimism reported greater interest in learning risks for nonmedically actionable disease and carrier status, and greater intentions to use genome information to change their lifestyle/health behaviors. The relationship between risk perceptions and intentions may depend on how risk perceptions are assessed and on degree of optimism. (c) 2015 APA, all rights reserved.

Dispositional Optimism and Perceived Risk Interact to Predict Intentions to Learn Genome Sequencing Results

PubMed Central

Taber, Jennifer M.; Klein, William M. P.; Ferrer, Rebecca A.; Lewis, Katie L.; Biesecker, Leslie G.; Biesecker, Barbara B.

2015-01-01

Objective Dispositional optimism and risk perceptions are each associated with health-related behaviors and decisions and other outcomes, but little research has examined how these constructs interact, particularly in consequential health contexts. The predictive validity of risk perceptions for health-related information seeking and intentions may be improved by examining dispositional optimism as a moderator, and by testing alternate types of risk perceptions, such as comparative and experiential risk. Method Participants (n = 496) had their genomes sequenced as part of a National Institutes of Health pilot cohort study (ClinSeq®). Participants completed a cross-sectional baseline survey of various types of risk perceptions and intentions to learn genome sequencing results for differing disease risks (e.g., medically actionable, nonmedically actionable, carrier status) and to use this information to change their lifestyle/health behaviors. Results Risk perceptions (absolute, comparative, and experiential) were largely unassociated with intentions to learn sequencing results. Dispositional optimism and comparative risk perceptions interacted, however, such that individuals higher in optimism reported greater intentions to learn all 3 types of sequencing results when comparative risk was perceived to be higher than when it was perceived to be lower. This interaction was inconsistent for experiential risk and absent for absolute risk. Independent of perceived risk, participants high in dispositional optimism reported greater interest in learning risks for nonmedically actionable disease and carrier status, and greater intentions to use genome information to change their lifestyle/health behaviors. Conclusions The relationship between risk perceptions and intentions may depend on how risk perceptions are assessed and on degree of optimism. PMID:25313897

An analysis of the International Energy Agency: Comments by a sometime practitioner: (Final report)

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cooper, R.N.

1986-01-01

The papers of this volume contain two, by Smith and by Badger, that offer an overall evaluation of the IEA. They offer radically different assessments. Smith is unremittingly hostile, arguing that the IDA did no good under any heading, and strongly suggesting that it actually destabilized the oil market. Badger in contrast reasserts the traditional rationale for the IEA in terms of macroeconomic externalities, terms of trade effects, and the free rider problem, and gives a cautiously positive appraisal, but with much less supporting analysis than Smith offers. The author is closer to Badger in his appraisal, but Smith hasmore » provided a detailed analysis supporting his evaluation, and it deserves careful examination. The remaining four papers are less broad in scope, each focusing on a particular aspect of International Energy Policy. Horwich, Jenkins-Smith, and Weimer provide a quantitative appraisal of a stylized oil sharing scheme on the assumption of a given temporary shortfall in oil production and a given drawdown of oil stocks. They conclude that allowing the price to clear the market is superior to alternative methods of allocation, except when terms of trade gains may compensate for efficiency losses in other allocation schemes.« less

Genetics Home Reference: amyotrophic lateral sclerosis

MedlinePlus

... Bean LJH, Bird TD, Ledbetter N, Mefford HC, Smith RJH, Stephens K, editors. GeneReviews® [Internet]. Seattle (WA): ... Vos KJ, Nishimura AL, Sreedharan J, Hu X, Smith B, Ruddy D, Wright P, Ganesalingam J, Williams ...

Genetics Home Reference: autoimmune lymphoproliferative syndrome

MedlinePlus

... area? Other Names for This Condition ALPS Canale-Smith syndrome Related Information How are genetic conditions and ... Bean LJH, Bird TD, Ledbetter N, Mefford HC, Smith RJH, Stephens K, editors. GeneReviews® [Internet]. Seattle (WA): ...

5. Historic American Buildings Survey Frances Rand Smith Collection California ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

5. Historic American Buildings Survey Frances Rand Smith Collection California Historical Society Original: After 1860's Re-photo: January 1940 FIRST FRAME CHURCH (LEFT) - Mission San Rafael Archangel, San Rafael, Marin County, CA

Genetics Home Reference: tyrosine hydroxylase deficiency

MedlinePlus

... Bean LJH, Bird TD, Ledbetter N, Mefford HC, Smith RJH, Stephens K, editors. GeneReviews® [Internet]. Seattle (WA): ... MA, Hol FA, Smeitink J, Seeger J, Grattan-Smith P, Ryan MM, Hoffmann GF, Donati MA, Blau ...

Genetics Home Reference: hemophilia

MedlinePlus

... Bird TD, Ledbetter N, Mefford HC, Smith RJH, Stephens K, editors. GeneReviews® [Internet]. Seattle (WA): University of ... Bird TD, Ledbetter N, Mefford HC, Smith RJH, Stephens K, editors. GeneReviews® [Internet]. Seattle (WA): University of ...

Genetics Home Reference: pontocerebellar hypoplasia

MedlinePlus

... Bird TD, Ledbetter N, Mefford HC, Smith RJH, Stephens K, editors. GeneReviews® [Internet]. Seattle (WA): University of ... Bird TD, Ledbetter N, Mefford HC, Smith RJH, Stephens K, editors. GeneReviews® [Internet]. Seattle (WA): University of ...

78 FR 35607 - Privacy Act of 1974; System of Records

Federal Register 2010, 2011, 2012, 2013, 2014

2013-06-13

..., Camp H.M. Smith, HI 96861-4028.'' * * * * * Categories of records in the system: Delete entry and.... Box 64028, Camp H.M. Smith, HI 96861-4028.'' Notification procedure: Delete entry and replace with...

5. Historic American Buildings Survey, From J. Smith Futhey and ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

5. Historic American Buildings Survey, From J. Smith Futhey and Gilbert Cope, History of Chester County, Pennsylvania, 1881, page 234, EXTERIOR SKETCH, 1881. - Birmingham Friends Meetinghouse, Birmingham & Meetinghouse Roads, Birmingham, Chester County, PA

1. Historic American Buildings Survey E. W. Russell, Photographer, September ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

1. Historic American Buildings Survey E. W. Russell, Photographer, September 15, 1936 SIDNEY SMITH PLACE - 203 GOVERNMENT ST., FRONT ELEVATION - Sidney Smith House (Iron Gate & Balcony), 203 Government Street, Mobile, Mobile County, AL

Genetics Home Reference: pachyonychia congenita

MedlinePlus

... CD, Eliason MJ, Smith FJ. The phenotypic and molecular genetic features of pachyonychia congenita. J Invest Dermatol. 2011 ... ME, McLean WH, Sprecher E, Smith FJ. The molecular genetic analysis of the expanding pachyonychia congenita case collection. ...

32 CFR Appendix B to Part 216 - ROTC Sample Letter of Inquiry

Code of Federal Regulations, 2010 CFR

2010-07-01

... letter to situation presented) Dr. Jane Smith, President, ABC University, Anywhere, USA 12345-9876. Dear Dr. Smith: I understand that ABC University has [refused a request from a Military Department to...

Immune System and Its Link to Rheumatic Diseases

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Periodic Fever, Aphthous Stomatitis, Pharyngitis, Adenitis Syndrome (PFAPA)

MedlinePlus

... Keep me signed in Passwords are Case Sensitive. Ex. Enter smith as follows: Smith Forgot Username/Password? ... Erythematosus (Juvenile) Takayasu's Arteritis Tendinitis & Bursitis Tumor Necrosis Factor Receptor Associated Periodic Syndrome (Juvenile) Vasculitis Enfermedades y ...

Genetics Home Reference: Char syndrome

MedlinePlus

... Bean LJH, Bird TD, Ledbetter N, Mefford HC, Smith RJH, Stephens K, editors. GeneReviews® [Internet]. Seattle (WA): ... 42-6. Citation on PubMed Slavotinek A, Clayton-Smith J, Super M. Familial patent ductus arteriosus: a ...

Genetics Home Reference: primary hyperoxaluria

MedlinePlus

... Bean LJH, Bird TD, Ledbetter N, Mefford HC, Smith RJH, Stephens K, editors. GeneReviews® [Internet]. Seattle (WA): ... Bean LJH, Bird TD, Ledbetter N, Mefford HC, Smith RJH, Stephens K, editors. GeneReviews® [Internet]. Seattle (WA): ...

Genetics Home Reference: generalized pustular psoriasis

MedlinePlus

... C, Valeyrie-Allanore L, Vicente MA, Trembath RC, Smith CH, Barker JN, Capon F. IL36RN mutations define ... A, Simpson MA, Pink AE, Di Meglio P, Smith CH, Pullabhatla V, Knight J, Spain SL, Nestle ...

Genetics Home Reference: oculocutaneous albinism

MedlinePlus

... Bean LJH, Bird TD, Ledbetter N, Mefford HC, Smith RJH, Stephens K, editors. GeneReviews® [Internet]. Seattle (WA): ... Bean LJH, Bird TD, Ledbetter N, Mefford HC, Smith RJH, Stephens K, editors. GeneReviews® [Internet]. Seattle (WA): ...

Are You Pregnant and Thinking about Adoption?

MedlinePlus

... stories . O.J. Howard Publishing. Siegel, D.H., & Smith, S.L. (2012). Openness in adoption: From secrecy and ... from- secrecy- and- stigma- to- knowledge- and- connections/ Smith, S. (2007). Safeguarding the rights and well-being of ...

Publications - PIR 2002-3 | Alaska Division of Geological & Geophysical

Science.gov Websites

): Philip Smith Mountains Bibliographic Reference Stevens, D.S.P., 2014, Engineering-geologic map of the Digital Geospatial Data Philip Smith Mountains: Engineering-geologic map Data File Format File Size Info

Genetics Home Reference: phosphoribosylpyrophosphate synthetase superactivity

MedlinePlus

... Sources for This Page Ahmed M, Taylor W, Smith PR, Becker MA. Accelerated transcription of PRPS1 in ... 11):7482-8. Citation on PubMed Becker MA, Smith PR, Taylor W, Mustafi R, Switzer RL. The ...

Contact Us | NOAA Gulf Spill Restoration

Science.gov Websites

601-961-5171 http://www.restore.ms/ Texas Trustee: Carter Smith, Texas Parks and Wildlife Department Executive Director Parks and Wildlife Department 4200 Smith School Road, Austin, TX 78744 512-389-4800 or

Genetics Home Reference: cutis laxa

MedlinePlus

... Bean LJH, Bird TD, Ledbetter N, Mefford HC, Smith RJH, Stephens K, editors. GeneReviews® [Internet]. Seattle (WA): ... Bean LJH, Bird TD, Ledbetter N, Mefford HC, Smith RJH, Stephens K, editors. GeneReviews® [Internet]. Seattle (WA): ...

Genetics Home Reference: severe congenital neutropenia

MedlinePlus

... Bean LJH, Bird TD, Ledbetter N, Mefford HC, Smith RJH, Stephens K, editors. GeneReviews® [Internet]. Seattle (WA): ... Yesilipek A, Fischer A, Bierings M, Ozturk G, Smith O, Veys P, Ljungman P, Peffault de Latour ...

Genetics Home Reference: galactosemia

MedlinePlus

... Bean LJH, Bird TD, Ledbetter N, Mefford HC, Smith RJH, Stephens K, editors. GeneReviews® [Internet]. Seattle (WA): ... Bean LJH, Bird TD, Ledbetter N, Mefford HC, Smith RJH, Stephens K, editors. GeneReviews® [Internet]. Seattle (WA): ...

An approach for Ewing test selection to support the clinical assessment of cardiac autonomic neuropathy.

PubMed

Stranieri, Andrew; Abawajy, Jemal; Kelarev, Andrei; Huda, Shamsul; Chowdhury, Morshed; Jelinek, Herbert F

2013-07-01

This article addresses the problem of determining optimal sequences of tests for the clinical assessment of cardiac autonomic neuropathy (CAN). We investigate the accuracy of using only one of the recommended Ewing tests to classify CAN and the additional accuracy obtained by adding the remaining tests of the Ewing battery. This is important as not all five Ewing tests can always be applied in each situation in practice. We used new and unique database of the diabetes screening research initiative project, which is more than ten times larger than the data set used by Ewing in his original investigation of CAN. We utilized decision trees and the optimal decision path finder (ODPF) procedure for identifying optimal sequences of tests. We present experimental results on the accuracy of using each one of the recommended Ewing tests to classify CAN and the additional accuracy that can be achieved by adding the remaining tests of the Ewing battery. We found the best sequences of tests for cost-function equal to the number of tests. The accuracies achieved by the initial segments of the optimal sequences for 2, 3 and 4 categories of CAN are 80.80, 91.33, 93.97 and 94.14, and respectively, 79.86, 89.29, 91.16 and 91.76, and 78.90, 86.21, 88.15 and 88.93. They show significant improvement compared to the sequence considered previously in the literature and the mathematical expectations of the accuracies of a random sequence of tests. The complete outcomes obtained for all subsets of the Ewing features are required for determining optimal sequences of tests for any cost-function with the use of the ODPF procedure. We have also found two most significant additional features that can increase the accuracy when some of the Ewing attributes cannot be obtained. The outcomes obtained can be used to determine the optimal sequences of tests for each individual cost-function by following the ODPF procedure. The results show that the best single Ewing test for diagnosing CAN is the deep breathing heart rate variation test. Optimal sequences found for the cost-function equal to the number of tests guarantee that the best accuracy is achieved after any number of tests and provide an improvement in comparison with the previous ordering of tests or a random sequence. Copyright © 2013 Elsevier B.V. All rights reserved.

Illustrated & Dissected: Professor Richard Sawdon Smith.

PubMed

2015-06-01

This Alternative Gallery feature introduces the photographic artist Professor Richard Sawdon Smith. Professor Sawdon Smith's work stems around a fascination with representations of anatomy that have been fuelled by his experience as a hospital patient. The work has allowed him to explore ideas through the use of medical illustrations which include early anatomical drawings, personal medical photography and facial modelling. The work highlights how such imagery can be used in the context of a patient seeking understanding and acceptance of ill health and disease using the body as a canvas on which to translate the experience.

Application of Near Infrared Spectroscopy, Intravascular Ultrasound and the Coronary Calcium Score to Predict Adverse Coronary Events

DTIC Science & Technology

2014-10-01

Kenneth&&Moore& 6/12/14 Smith RCA& stent ,&LAD&small&with&70%&lesion&poor&target,&Circ&too&tortuous Salvatore&Maccaron 12DJunD14 Smith Declined Edward...VanWingerden 9/10/14 Smith advanced&age,&no&targets&for&imaging&due&to&bypass&grafts&and&several& stents Van&McGlavan 10/1/14 Hopkins life&expectancy&less...than&3&years&&very&advanced&age Gene&Church 10/3/14 Marques no&IVUS&targets&due&to&bypass&grafts,& stents Ronald&Berry 10/3/14 Tabesh no&IVUS&targets&due

EVA 1 activity on Flight Day 4 to service the Hubble Space Telescope

NASA Image and Video Library

1997-02-14

STS082-730-090 (11-21 Feb. 1997) --- Astronaut Steven L. Smith handles one of the Goddard High Resolution Spectrograph (GHRS) boxes, changed out on the Hubble Space Telescope (HST) on Flight Day 4. Astronauts Smith and Mark C. Lee were participating in the first of five eventual days of Extravehicular Activity (EVA) to service the giant orbital observatory. Smith is standing on the end of the Remote Manipulator System (RMS) arm, which was controlled by astronaut Steven A. Hawley inside the Space Shuttle Discovery's crew cabin.

Chlorite, Biotite, Illite, Muscovite and Feldspar Dissolution Kinetics at Variable pH and Temperatures up to 280 deg C

DOE Data Explorer

Carroll, Susan; Smith, Megan M.; Lammers, Kristin

2017-02-24

Chemical reactions pose an important but poorly understood threat to EGS long-term success because of their impact on fracture permeability. This report summarizes the dissolution rate equations for layered silicates where data were lacking for geothermal systems. Here we report updated rate laws for chlorite (Carroll and Smith 2013), biotite (Carroll and Smith, 2015), illite (Carroll and Smith, 2014), and for muscovite. Also included is a spreadsheet with rate data and rate equations for use in reactive transport simulators.

Theory of the special Smith-Purcell radiation from a rectangular grating

DOE Office of Scientific and Technical Information (OSTI.GOV)

Liu, Weihao, E-mail: liuwhao@ustc.edu.cn; He, Zhigang, E-mail: hezhg@ustc.edu.cn; Jia, Qika

2015-12-15

The recently uncovered special Smith-Purcell radiation (S-SPR) from the rectangular grating has significantly higher intensity than the ordinary Smith-Purcell radiation (SPR). Its monochromaticity and directivity are also much better. Here we explored the mechanism of the S-SPR by applying the fundamental electromagnetic theory and simulations. We have confirmed that the S-SPR is exactly from the radiating eigen modes of the grating. Its frequency and direction are well correlated with the beam velocity and structure parameters, which indicates its promising applications in tunable wave generation and beam diagnostic.

Sequence Polishing Library (SPL) v10.0

DOE Office of Scientific and Technical Information (OSTI.GOV)

Oberortner, Ernst

The Sequence Polishing Library (SPL) is a suite of software tools in order to automate "Design for Synthesis and Assembly" workflows. Specifically: The SPL "Converter" tool converts files among the following sequence data exchange formats: CSV, FASTA, GenBank, and Synthetic Biology Open Language (SBOL); The SPL "Juggler" tool optimizes the codon usages of DNA coding sequences according to an optimization strategy, a user-specific codon usage table and genetic code. In addition, the SPL "Juggler" can translate amino acid sequences into DNA sequences.:The SPL "Polisher" verifies NA sequences against DNA synthesis constraints, such as GC content, repeating k-mers, and restriction sites.more » In case of violations, the "Polisher" reports the violations in a comprehensive manner. The "Polisher" tool can also modify the violating regions according to an optimization strategy, a user-specific codon usage table and genetic code;The SPL "Partitioner" decomposes large DNA sequences into smaller building blocks with partial overlaps that enable an efficient assembly. The "Partitioner" enables the user to configure the characteristics of the overlaps, which are mostly determined by the utilized assembly protocol, such as length, GC content, or melting temperature.« less

Optimized, unequal pulse spacing in multiple echo sequences improves refocusing in magnetic resonance.

PubMed

Jenista, Elizabeth R; Stokes, Ashley M; Branca, Rosa Tamara; Warren, Warren S

2009-11-28

A recent quantum computing paper (G. S. Uhrig, Phys. Rev. Lett. 98, 100504 (2007)) analytically derived optimal pulse spacings for a multiple spin echo sequence designed to remove decoherence in a two-level system coupled to a bath. The spacings in what has been called a "Uhrig dynamic decoupling (UDD) sequence" differ dramatically from the conventional, equal pulse spacing of a Carr-Purcell-Meiboom-Gill (CPMG) multiple spin echo sequence. The UDD sequence was derived for a model that is unrelated to magnetic resonance, but was recently shown theoretically to be more general. Here we show that the UDD sequence has theoretical advantages for magnetic resonance imaging of structured materials such as tissue, where diffusion in compartmentalized and microstructured environments leads to fluctuating fields on a range of different time scales. We also show experimentally, both in excised tissue and in a live mouse tumor model, that optimal UDD sequences produce different T(2)-weighted contrast than do CPMG sequences with the same number of pulses and total delay, with substantial enhancements in most regions. This permits improved characterization of low-frequency spectral density functions in a wide range of applications.