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The Cancer Genome Project is using current high throughput techniques to characterise a series of approximately 800 cancer cell lines including those most frequently used in biological and pharmaceutical research and drug discovery. These screens include sequencing of known cancer genes, copy number and genotyping analysis using SNP arrays and identification of microsatellite instability. Pair-wise comparison of the SNP array data for the entire series of cell lines under study has been performed identifying those lines which, in our set, are either identical or derived from a parental line. These lines are termed synonymous cell lines. Sponsors: This study was supported by the Wellcome Trust and Glaxo Smith Kline. :K eywords: Cancer, Genome, Technique, Research, Pharmaceutical, Drug, Discovery, Gene, Number, Genotype, SNP, Array, Microsatellite, Instability, Biological, Cell line, SNP, Data,

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• SciCrunch
• 17 years ago - by Anonymous

This is the HQSNP DB (high-quality SNP database) developed by CHG bioinformatics group. The high-quality SNP is defined as a SNP having allele frequency or genotyping data. The majority of the HQSNPs come from HapMap, others come from JSNP (Japanese SNP database), TSC (The SNP Consortium), Affymetrix 120K SNP, and Perlegen SNP. There are four kinds of SNP search you can do: * Get SNPs by dbSNP rs#: Choose this search if you have already selected a list of SNPs and you just want to get the SNP information. The program will generate a Excel file containing the SNP flanking sequence, variation, quality, function, etc. In the Excel file, there are 10 highlighted fields. You can send only those highlighted information to Illumina to get SNP pre-score. (The same fields are presented in other types of searches as well.) * Get gene SNPs by gene names: Choose this search if you have a list of gene names and you want to get the SNP information in these genes. The gene name can be official gene symbol, Ensembl gene ID, RefSeq accession ID, LocusLink number, etc. * Get gene SNPs by genome regions: Choose this search if you have a list of genome regions and you want to get all gene SNP information in these regions. The software will find all the Ensembl genes in the regions and find SNPs associated to each Ensembl gene. * Get genome scan SNPs by genome regions: Choose this search if you have a list of genome regions and you want to get evenly spaced SNPs in these regions. A SNP selection tool (SNPselector) was built upon HQSNP. It took snp ID list, gene name list, or genome region list as input and searched SNPs for genome scan or gene assoctiation study. It could take an optional ABI SNP file (exported from ABI SNP search web page) as input for checking whether the candidate SNP is available from ABI. It could also take an optional Illumina SNP pre-score file as input to select SNP for Illumina SNP assay. It generated results sorted by tag SNP in LD block, SNP quality, SNP function, SNP regulatory potential, and SNP mutation risk. SNPselector is now retired from public use (as of September 30, 2010).

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• SciCrunch
• 16 years ago - by Anonymous

It is a database of keys facts about proteins, families, and complexes involved in cell migration. This ongoing project provides a large amount of automated and curated data, collected from numerous online resources that are updated monthly. These data include names, synonyms, sequence information, summaries, CMC research data, reagents, structures, as well as protein family and complex details. CMKB''s ultimate goal is to create a database that will enable the cell migration community to conveniently access significant information about molecules of interest. This will also serve as a stepping stone to pathway analysis and demonstrate how these molecules coordinate with one another during cell adhesion and movement. Sponsors: This resource is supported by the Cell Migration Consortium.

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• SciCrunch
• 14 years ago - by Anonymous

The REasons for Geographic and Racial Differences in Stroke (REGARDS) project, sponsored by the National Institutes of Health (NIH), is a national study focusing on learning more about the factors that increase a person''s risk of having a stroke. REGARDS is an observational study of risk factors for stroke in adults 45 years or older. 30,239 participants were recruited between January 2003 and October 2007. They completed a telephone interview followed by an in-home physical exam. Measurements included traditional risk factors such as blood pressure and cholesterol levels, and an echocardiogram of the heart. At six month intervals, participants are contacted by phone to ask about stroke symptoms, hospitalizations and general health status. The study is ongoing and will follow participants for many years. The purpose of the REGARDS project is to understand why people in some parts of the country develop more strokes than people in other parts of the country, and why blacks develop more strokes than whites. We hope to learn how to reduce the number of people having strokes.

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• SciCrunch
• 16 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE, documented on August 20,2021. Center for Neuropharmacology & Neuroscience (CNN) is composed of faculty and students with research interests that are focused on the nervous system. One major purpose of the CNN is to facilitate and strengthen collaborations in neuroscience research; it also provides a unique interface for interactions among clinical and basic scientists. Neuropharmacology and Neuroscience are large and diverse fields that encompass physiology, pharmacology, anatomy, behavior, development, neural disorders and diseases.

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• SciCrunch
• 16 years ago - by Anonymous

An ontology for describing clinical signs and symptoms.

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• SciCrunch
• 13 years ago - by Anonymous

Department offers graduate and postgraduate programs that provide students with intensive education and training in neuroscience, along with opportunity to excel in laboratory. Our program brings together researchers from diverse backgrounds to study brain and its function in health and disease. Educational experiences are provided by faculty members actively involved in research into function of central nervous system through experimentation in molecular neurobiology, neuroanatomy, neurodevelopment, neural systems analysis, biophysics, imaging, and computer-assisted neural system modeling.Ongoing studies in our department range from molecular biophysics of ion channels and receptors, to analysis of neuronal development, signal processing, brain circuitry, and animal behavior all the way to human brain function.

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• SciCrunch
• 17 years ago - by Anonymous

Goal of Department is creation and dissemination of knowledge in psychological sciences, fostering environment conducive to creative scholarship and learning among both students and faculty, and application of knowledge to betterment and service of society. Offers Bachelor of Science and Bachelor of Arts degree in Psychology as well as few undergraduate degree programs in Neuroscience.

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• SciCrunch
• 17 years ago - by Anonymous

Mission of Department of Neuroscience is to do teaching and research on basic functions and diseases of nervous system. Areas of interest include neural plasticity, information processing, and neuronal and synaptic functions, particularly as they relate to development, sensory perception, motor behavior, and cognition. Members of Department also participate in MRI Research Facility, Center for Vision Research, and several NIH and NIMH training grants for graduate and postdoctoral fellows studying neuroscience and vision sciences.Department is also major contributor to Brown''s Institute for Brain Science, multidisciplinary consortium that promotes collaborative theoretical and experimental studies of brain.

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• SciCrunch
• 17 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE, documented on August 20, 2021. Department of Molecular Pharmacology, Physiology, and Biotechnology has closed, effective June 30, 2021. Department of Molecular Pharmacology, Physiology and Biotechnology is basic science department within Brown Medical School, and is full participant in undergraduate based Program in Biology within Division of Biology and Medicine at Brown University.

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• SciCrunch
• 17 years ago - by Anonymous

For more than 75 years, the division of biology has provided many of the major research advances that have made biology the premier science of the 21st century, and has trained many of the world''s most eminent biologists. The division at present has 38 professors of various ranks, who in their classes and laboratories have approximately 100 undergraduates, 100 graduate students, and 160 postdoctoral scholars, as well as more than 250 staff members. We occupy parts or all of seven buildings on the Caltech campus; we also operate a marine laboratory 50 miles from campus. Each building is devoted to state-of-the-art educational facilities and cutting-edge laboratories. We have three major research emphases: Structural, Molecular and Cell Biology; Developmental and Regulatory Biology; and Molecular, Cellular and Integrative Neuroscience. In each area we are trying to solve one of the great problems of modern biology: How do the proteins and other components of cells interact to provide a marvelous nanomachine of more than 100,000 integrated parts, a machine that has numerous extraordinary functions and can reproduce itself? How does a single cell become, by division and formation of new cell types, an entire multicellular organism, which in the case of humans has thousands of different cell types and more than 1 trillion different cells in specific places, communicating to form complex organs? How does the brain, the most complex organ of all, work to allow calculations beyond those of any computer, as well as to demonstrate amazing sensory capabilities, emotions, and consciousness?

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• SciCrunch
• 17 years ago - by Anonymous

Department of Pharmacology research mission is to discover specific mechanisms that control physiological processes at cellular and molecular levels. Department offers broad range of educational opportunities ranging from undergraduate research to classes leading toward Ph.D. and M.D.Training Programs include MOLECULAR THERAPEUTICS TRAINING PROGRAM, BIOMEDICAL SCIENCES TRAINING PROGRAM, MEDICAL SCIENTIST TRAINING PROGRAM, SUMMER UNDERGRADUATE RESEARCH PROGRAM, Cancer Pharmacology Training Program.

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• SciCrunch
• 17 years ago - by Anonymous

A statistical framework for genomic data fusion is a computational framework for integrating and drawing inferences from a collection of genome-wide measurements. Each dataset is represented via a kernel function, which defines generalized similarity relationships between pairs of entities, such as genes or proteins. The kernel representation is both flexible and efficient, and can be applied to many different types of data. Furthermore, kernel functions derived from different types of data can be combined in a straightforward fashion. Recent advances in the theory of kernel methods have provided efficient algorithms to perform such combinations in a way that minimizes a statistical loss function. These methods exploit semidefinite programming techniques to reduce the problem of finding optimizing kernel combinations to a convex optimization problem. Computational experiments performed using yeast genome-wide datasets, including amino acid sequences, hydropathy profiles, gene expression data and known protein-protein interactions, demonstrate the utility of this approach. A statistical learning algorithm trained from all of these data to recognize particular classes of proteins--membrane proteins and ribosomal proteins--performs significantly better than the same algorithm trained on any single type of data. Matlab code to center a kernel matrix and Matlab code for normalization are available.

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• SciCrunch
• 16 years ago - by Anonymous

Neuroscience research at BU is coordinated through unified community of investigators from multiple research groups of Charles River and MED campuses.Neuroscience faculty support Undergraduate Program in Neuroscience and Graduate Program for Neuroscience. Students can get specialized training in additional disciplines while carrying out neuroscience thesis research (Anatomy & Neurobiology, Biology, and Pharmacology and Experimental Therapeutics).

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• SciCrunch
• 17 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE, documented August 22, 2016. The Next Generation Biology Workbench is a free resource for research and education in Bioinformatics, Genomics, Proteomics, and Phylogenetics. The NGBW is a re-engineering of the Biology Workbench which was designed by Shankar Subramaniam and his group to provide an integrated environment where tools, user data, and public data resources can be easily accessed. The NGBW is designed to be an organic tool that evolves with the needs of the Biomedical research and education communities. The Next Generation Biology Workbench (NGBW) is now available for public use, in its production release.

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• SciCrunch
• 16 years ago - by Anonymous

A web application called Expressed Sequence Tag Information Management and Annotation (ESTIMA) has been created to meet the EST annotation and data management requirements of multiple high-throughput EST sequencing projects. It is anchored on individual ESTs and organized around different properties of ESTs including chromatograms, base-calling quality scores, structure of assembled transcripts, and multiple sources of comparison to infer functional annotation, Gene Ontology associations, and cDNA library information. ESTIMA consists of a relational database schema and a set of interactive query interfaces. These are integrated with a suite of web-based tools that allow a user to query and retrieve information. Further, query results are interconnected among the various EST properties. ESTIMA has several unique features. Users may run their own EST processing pipeline, search against arbitrary reference genomes, and use any clustering and assembly algorithm. The ESTIMA database schema is very flexible and accepts output from any EST processing and assembly pipeline. ESTIMA has been used for management of EST projects of many species, including honeybee (Apis mellifera), cattle (Bos taurus), songbird (Taeniopygia guttata), corn rootworm (Diabrotica vergifera), catfish (Ictalurus punctatus, Ictalurus furcatus), and apple (Malus x domestica). The entire resource may be downloaded and used as is, or readily adapted to fit the unique needs of other cDNA sequencing projects. The scripts used to create the ESTIMA interface are freely available to academic users in an archived format from http://titan.biotec.uiuc.edu/ESTIMA/download/. The entity-relationship (E-R) diagrams and the programs used to generate the Oracle database tables are also available. Presently the chromatograms, EST databases and their annotations have been made available for cattle and honeybee.

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• SciCrunch
• 16 years ago - by Anonymous

Frontiers community is a web portal for both open access Frontiers journals and a community portal for jobs, books, and scholarly events. Frontiers is more than just an open-access publisher of scholarly articles: it is a pioneering approach to the world of academia, radically improving the way scholarly research is managed. The grand vision of Frontiers is a world where all people have an equal opportunity of seeking, sharing and generating knowledge. As a first active measure in this direction, Frontiers provides immediate and permanent online open access to all of its publications, but this alone is not enough to realize our grand goals. The Frontiers solution develops around two main concepts, mutually integrating each other within the innovative Frontiers'' platform: * the Frontiers Journal Series, and * the Frontiers Community. As an open-access Journal Series, Frontiers revolutionizes research publishing by freely delivering the most outstanding research, evaluated with no bias from both the academic and social point of view. As an interdisciplinary Community system, Frontiers is reshaping research management with a state-of-the-art platform, designed as a collaborative architecture and aimed at all research communities, whether academicians or research enthusiasts, investors or grantmakers. By applying the most advanced information technologies, Frontiers is catapulting scholarly publishing into a new 21st century generation.

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• SciCrunch
• 17 years ago - by Anonymous

WAViS generates pictures of your alignment files. These tools should help you with preparation of publication-quality pictures of your alignment. Sponsors: This resource is supported by Institute of Molecular Genetics. Keywords: Software, Server, Picture, Alignment,

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• SciCrunch
• 17 years ago - by Anonymous

A website dedicated to advancing non-animal methods of toxicity testing, both to better protect the health of humans, animals, and the environment and to reduce the numbers and suffering of animals used in current toxicology assessments. The website is designed to encourage the exchange of technical and policy information on in vitro and in silico methods for all types of toxicity tests. The AltTox Forum is a message board for the AltTox community to use for posting news, information, and perspectives as well as encouraging feedback and commentary. This online community is intended to foster progress internationally in the development, validation, and acceptance of in vitro methods, with the goal of decreasing our reliance on animal-based safety testing. The Forum is moderated by a group of internationally-recognized subject matter experts. The Way Forward invited commentaries, which are posted in the TTRC, are opinion pieces written by experts in each relevant subfield. These essays are meant to help chart the course for future developments by advancing opportunities to overcome challenges and barriers to progress. Stakeholders are invited to comment on these essays in The AltTox Forum. AltTox users are encouraged to contribute to the website and interact with other users in several ways, including: :- Participating in the online forum :- Providing invited expert commentaries :- Suggesting or submitting content, events, monthly features, data, and graphics :- Providing feedback through the Website Feedback surve To encourage objectivity, the website content is overseen by an editorial board of distinguished subject matter experts.

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• SciCrunch
• 17 years ago - by Anonymous

Doris Kupfer, Sara Downard, and Laura Hern in our Genome Center at the University of Oklahoma, have sequenced the 3'' and/or 5'' ends of double stranded cDNAs constructed from the salivary glands of the lone star tick, Amblyomma americanum constructed by Richard Essenberg and Majd Aljamali, Department of Biochemistry and Molecular Biology at Oklahoma State University, Stillwater OK. Four libraries are included in this August 27, 2003 release. Lib1:TSG Lib1, female, salivary gland, 50-200 mg feeding adults Lib2:TSG Lib2, female, salivary gland, unfed adults, feeding adults, replete adults Lib3:TSG Lib3, female, salivary gland, 3 day feeding adults Lib4:TSG Lib4, female, salivary gland, 50-200 mg feeding adults, was constructed from TSG Lib1 by normalization following procedure of, Bonaldo et al (Genome Res. 1996 Sep;6(9):791-806). Amblyomma americanum lone star tick Latest Data Release - August 27, 2003 1757 total ESTs that were assembled into 810 entries and 608,477 nucleotides in the four separately libraries and combined into one searchable database. - The Amblyomma americanum lone star tick salivary gland cDNA libraries Lib1, Lib2 and Lib4 were constructed from multiple feeding stages in Clonetech pTriplEx2 vector by directionally cloning into the 5'' EcoRI and 3'' SfiIb sites. Lib3 was constructed from 3 day feeding adults by Stratagene, Inc. into pBlueScript SK- . - Ribosomal RNA, mitochondrial RNA, vector and small (less than 100bp) inserts, will be removed prior to assembly of a UniGene database using Phred (Phil Green, University of Washington) . All of our data is available from our ftp site, and we now have added the ability to perform blast searches on this data. A keyword search of a blastx search of GenBank with this data also is available. Sponsors: This resource is supported by University of Oklahoma. Keywords: CDNA, Dataset, Library, RNA, Mitochondrial, Ribosomal,

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• SciCrunch
• 17 years ago - by Anonymous