1. NCGR The National Center for genome resources (NCGR) in Santa Fe, New Mexico, is an independent, nonprofit research National Center for genome resources. Privacy Contact NCGR http://www.ncgr.org/

News Stephen Kingsmore joins NCGR as President more Susan Baxter joins NCGR as Chief Operating Officer more NCGR awarded $1.2M by USDA for the continuation of MPI more Events Seminar Series: hot topics, notable guests more Symposium for a National Tuberculosis Archival System more The National Center for Genome Resources (NCGR) in Santa Fe, New Mexico, is an independent, nonprofit research institution that develops and uses informatics for biological discovery. Scientists at NCGR study the influence of genetic variability of both host and pathogen on infectious disease progression and its subsequent impact on human health. Computational biologists, population geneticists, and mathematicians are developing and using novel algorithms and statistical approaches to model complex biological systems. Particular emphasis is placed on meeting the challenges presented in systems biology today, including sparse experimental datasets, poorly defined biological networks, and data collected on disparate timescales. NCGR is a unique provider of professionally engineered software and computational discovery platforms for the scientific community. At its inception in 1994, NCGR's mandate was to develop the Genome Sequence Data Base (GSDB), the first publicly accessible, relational database of human genome sequences from Los Alamos National Laboratory. NCGR has continued to design and maintain publically accessible genomic information resources, such as TAIR and LIS, as well as novel bioinformatic tools, such as Gene-X Lite, ISYS, and XGI, used at research institutions worldwide. Software engineers and developers at NCGR are experienced at creating bioinformatics platforms, incorporating automated annotation and visualization tools, for genome mapping and pathway analysis based on data obtained from high-throughput biotechnologies.

2. WashU-Zebrafish Genome Resources Project WashUZebrafish genome resources Project. http://zfish.wustl.edu/

WashU-Zebrafish Genome Resources Project

3. NCBI Human Genome Resources The NCBI Handbook. An online guide to the use of NCBI resources. Titles ofselected chapters that refer to human genome resources are shown below. http://www.ncbi.nlm.nih.gov/genome/guide/

NCBI Home Genomic Biology Homo sapiens Browse Your Genome Click on a chromosome to show Clones Genes Physical Maps Linkage Maps Variation The NCBI Handbook An online guide to the use of NCBI resources. Titles of selected chapters that refer to human genome resources are shown below. The Single Nucleotide Polymorphism Database (dbSNP) of Nucleotide Sequence Variation. by Adrienne Kitts and Stephen Sherry The Gene Expression Omnibus (GEO): A Gene Expression and Hybridization Repository. by Ron Edgar and Alex Lash Online Mendelian Inheritance in Man (OMIM): A Directory of Human Genes and Genetic Disorders. by Donna Maglott, Joanna S. Amberger, and Ada Hamosh The SKY/CGH Database for Spectral Karyotyping and Comparative Genomic Hybridization Data. by Turid Knutsen, Vasuki Gobu, Rodger Knaus, Thomas Ried, and Karl Sirotkin Genome Assembly and Annotation Process. by Paul Kitts The Reference Sequence (RefSeq) Project. by Kim D. Pruitt, Tatiana Tatusova, and James M. Ostell LocusLink: A Directory of Genes. by Donna Maglott Using the Map Viewer to Explore Genomes.

4. Mouse Genome Resources Genomic resources for the mouse are increasing at an astounding pace.The ability to manipulate the mouse genome coupled with the http://www.ncbi.nlm.nih.gov/genome/guide/mouse/

NCBI Home Genomic Biology Search Books LocusLink MapViewer Nucleotide Proteins PubMed UniGene UniSTS for NCBI Web Resources: BLAST. Compare your sequence to different mouse-derived sequences. Clone Finder. Find clones based on BAC end sequence alignments. Clone Registry. Find information about specific BAC clones, including sequencing status, end sequence and Fingerprint information. dbSNP. Database of SNPs and other genetic variation. e-PCR. Check your sequence for STSs and view in genomic context. Full-Length cDNAs. Find info on various efforts to sequence entire genes. GEO. Gene Expression Omnibus, a public repository for expression data. HomoloGene. Putative homologies among human, mouse, rat, and zebrafish. Homology Map. Blocks of conserved synteny between mouse and human. LocusLink. Focal point for genes and associated information. MapViewer.

5. CSHL - GenomicsÊ&ÊBioinformatics Sequencing and database maintenance, related to cancer, neurobiology, plant genetics, genomics and bioinformatics, at Cold Spring Harbor Loboratories, New York. http://www.cshl.org/public/genome.html

Search  McCombie Lab Genome structure; DNA sequencing; computational molecular biology; Human Genome Project Zhang Lab Computational genomics; nucleic acid pattern recognition; gene expression Stein Lab Genome informatics; bioinformatics; mapping; software; World Wide Web Neuwald Lab Classification and modeling of protein domains; predicting protein structure and function Wigler Lab Cancer; genomics; oncogenes; signal transduction; Ras; yeast genetics Hamaguchi Lab Cancer genetics; positional cloning; tumor-suppressor genes; RDA Sequencing Projects Genome Databases Human Arabidopsis thaliana Rice S. pombe ... promoter database Bioinformatics Software Other Resources AcePerl Jade CGI.pm Transcription prediction ... Microarray Shared Resources Genome Sequencing The Lita Annenberg Hazen Genome Sequencing Center at Cold Spring Harbor performs high-throughput sequencing of several organisms, including the flowering plant Arabidopsis thaliana , the fission yeast S. pombe , and homo sapiens Bioinformatics The Hershey bioinformatics group develops novel analytic software, databases, and user interfaces for the management, manipulation and mining of genome data. Training Courses The Advanced Genome Sequencing and Analysis Course Genome Informatics , and Computational Genomics courses provided post-graduate training courses in genome sequencing, genome informatics, and DNA analysis.

6. NCGR :: GeneX-Lite Project to provide an online repository of gene expression data with an integrated toolset . Includes programs and software. From the National Center for genome resources. http://www.ncgr.org/genex/

On this page abstract components architecture download quick start genex listservs ontology contact GeneX-Lite :: Gene Expression Lite GeneX-Lite is a client application that provides an interface to a relational database managment system (RDBMS). The client application interface allows the user to load, manage, analyze, visualize and query gene expression data. The RDBMS provides persistent storage of the data and analysis/visualization results. GeneX-Lite strives to make the greatest use of gene expression data by integrating several complementary technologies to create a system that may be utilized by a large institution or an individual researcher's private lab. ABSTRACT GeneX-Lite is designed to accomodate a wide variety of measurement technologies such as one-color or multi-color spotted arrays. Specifically, the aim of GeneX-Lite is to provide a rich and robust set of freely available resources. The GeneX-Lite integrated system was designed and implemented using open-source software and is itself open-source. Some of the open-source software used: The Institute for Genome Research (TIGR) MultiExperiment Viewer (TMEV) www.tigr.org

7. Cold Spring Harbor Genome Resources CSHL logo, genome resources at Cold Spring Harbor Laboratory. http://www.cshl.org/labs/genome_resources/genome_resources.html

Genome Resources at Cold Spring Harbor Laboratory Sequencing Center Zhang Lab Stein Lab Neuwald Lab CSHL and the Genome Project Genome Sequencing The Lita Annenberg Hazen Genome Sequencing Center at Cold Spring Harbor performs high-throughput sequencing of several organisms, including the flowering plant Arabidopsis thaliana , the fission yeast S. pombe , and homo sapiens Bioinformatics The Hershey bioinformatics group develops novel analytic software, databases, and user interfaces for the management, manipulation and mining of genome data. Sequencing Projects Genome Databases Bioinformatics Software Human C. elegans Database AcePerl ... Kaleidaseq Other Medline Workbench Sequencing Protocols Advanced Genome Sequencing and Analysis Course Genome Informatics Course Training Courses The Advanced Genome Sequencing and Analysis Course Genome Informatics , and Computational Genomics courses provided post-graduate training courses in genome sequencing, genome informatics, and DNA analysis. Cold Spring Harbor Home Last Modified: 15 May 1999

8. CABI Publishing Originally published by the National Centre for genome resources. Provides free access to past papers for the years 1995 to 2000. http://www.cabi-publishing.org/jag

Product Search Home Bookshop Customer Services Publish With CABI ... Site Map Product Information Description Subscription Rates Subscribe Stay In Touch ToC / Email Alerts Email this page to a friend Bookmark this page Journal of Agricultural Genomics > Journal of Agricultural Genomics Journal of Agricultural Genomics Journal of Agricultural Genomics was formerly published online by the National Centre for Genome Resources CABI Publishing plans to relaunch this title in 2005 with an expanded remit and scope, to provide a forum for the exploration of research at the interface between genomics research and the social, economic and technical ramifications of the science. Further details will be made available in 2004. In the meantime CABI Publishing is making past papers available free of charge from this site. Click here to find content from volumes 1 through 5 THE SCIENCE THE SEARCH THE SOLUTION CAB International Privacy Policy Feedback ... Other CABI Sites

9. WashU-Zfish Project : Radiation Hybrid (RH) Maps To generate PCR fragments that contain the ends of PAC inserts that can be sequenced. Protocol by B Barbazuk, Washington University Zebrafish genome resources Project, USA. http://www.genetics.wustl.edu/fish_lab/frank/cgi-bin/fish/prot2.html

Home Inverse PCR for PAC-end sequencing Inverse PCR for PAC-end sequencing from Brad Barbazuk Goal is to generate PCR fragments that contain the ends of PAC inserts that can be sequenced. For inverse PCR we cut the PAC once in the vector (near outward primer site) and once at unknown site in insert (and many other places outside these sites, that don't matter). Following ligation to generate small circles, PCR is performed with outward facing primers at the end of the vector that will amplify a product that contains the end of the insert. To increase the odds of getting an amplifiable product, we use two different enzymes (used singly!!) per pac end - NlaIII and RsaI for the SP6 end, and NlaIII and HinPI (or HhaI) for the T7 end. Primers PCYPAC2SP6L GCC GTC GAC ATT TAG GTG PCYPAC2SP6R GAT CGA AAC GGC AGA TCG PCYPAC2T7L CCT TGA GAG CCT TCA ACC PCYOAC2T7R CGA GCT TGA CAT TGT AGG AC Stages in protocol (1) Restriction digest of PAC DNA (2) ligation of restriction digests (3) PCR amplification of ligation products (4) Sequencing of PCR products (5) Trim sequence of primer and vector sequence.

10. National Human Genome Research Institute - Human Genome Resources Supported By N Genome Informatics Program Human genome resources Supported by NHGRI, Humangenome resources Supported by the National Human Genome Research Institute. http://www.genome.gov/11510192

Genome Informatics Program Human Genome Resources Supported by NHGRI Human Genome Resources Supported by the National Human Genome Research Institute Genome KnowledgeBase A Curated Resource of Core Pathways and Reactions in Human Biology Gene Ontology Consortium Controlled Vocabularies for Gene Product Attributes GeneTests A Medical Genetics Information Resource HUGO Human Genome Nomenclature Committee (HGNC) A Resource for Human Gene Names Online Mendelian Inheritiance in Man (OMIM) A Catalog of Human Genes and Genetic Disorders PharmGKB The Pharmacogenetics and Pharmacogenomics Knowledge Base UCSC Genome Bioinformatics A Genome Browser for the Reference Human Genome Sequence UniProt KnowledgeBase A Portal for Curated Information on Protein Sequence, Classification and Function Last Updated: January 2004 Privacy Contact Accessibility Site Index ... Home

11. The Dolan DNA Learning Center - Genes In Education. The Web-site Of The Dolan DN Contains online genome resources and details of workshops, field trips, courses and educational products, from Cold Spring Harbor, NY. http://www.dnalc.org/

...more Science Educators We're hiring! Are you passionate about science? Do you know how to explain DNA to people of all ages? Can you help us develop new science curricula and activities for schools? You may be what we're looking for. The Dolan DNA Learning Center needs creative, energetic individuals with teaching experience and a science background to join our dynamic and fast-moving team. For a full job description and information on how to apply, click here Looking for a previous feature story? Go to FEATURES Contact us: Dolan DNA Learning Center, 1 Bungtown Road, Cold Spring Harbor, NY 11724 Phone: (516) 367-5170, Fax: (516) 367-5182, Email: dnalc@cshl.org Map and Directions

12. PGRC Home Founded in 1997, the Plant genome resources Center (PGRC) represents a scientificand technological platform for plant genome analysis in barley (Hordeum http://pgrc.ipk-gatersleben.de/

P lant G enome R esources C enter PGRC Home Modules Research Databases ... Biolinks Webmaster: miehe@ipk-gatersleben.de Founded in 1997, the Plant Genome Resources Center (PGRC) represents a scientific and technological platform for plant genome analysis in barley (Hordeum vulgare) and other crop species. A central unit offers services for automated DNA sequencing and high throughput arraying, developes bioinformatic tools and provides user support in the field of bioinformatics. Complementary to the service core five modules provide expertise and resources in specific target areas. In addition to the establishment of external research collaborations with partners from both the private and the public sector interdepartmental research projects are linked via the PGRC. Most activities of the PGRC are now located in the new genome center that was inaugurated in September 2000. Coordinator: Dr. Patrick Schweizer Tel. +49 (0) 39482-5660 Fax: +49 (0) 39482-5595 email: schweiz@ipk-gatersleben.de

13. National Center For Genome Resources National Center for genome resources. 1800 Old Pecos Trail, Suite A Santa Fe, NewMexico 87505 USA Phone 505982-7840 Fax 505-995-4439 E-Mail ncgr@ncgr.org http://www.biospace.com/company_profile.cfm?CompanyID=89504

14. National Center For Genome Resources (NCGR) URL Go to the National Center for genome resources (NCGR) Web Site.Publisher National Center for genome resources. Publications http://www.biospace.com/publication_detail.cfm?RID=125304

15. Genome Resources Human Genome Project. Resources for Education and Exploration. Human GenomeProject Educational resources. A Primer on Molecular Genetics. http://www.millerandlevine.com/genome-resources.html

Human Genome Project Resources for Education and Exploration Exploring our Molecular Selves (a genome project education kit) Genetic Education Cente r (University of Kansas) National Human Genome Research Center (at NIH) Human Genome Project Information (at Department of Energy) Human Genome Project Educational resources A Primer on Molecular Genetics Modern Genetics for all Students (from Washington Univ.) Blazing a Genetic Trail (from the Hughes Foundation) The DNA Learning Center (Cold Spring Harbor Lab) DNA from the Beginning (an animated scientific tour) DNA "Chips" (a detailed DNA lab guide for teachers) The Genome News Network (from the Institute for Genomic Research) These resources, from a wide variety of educational institutions and laboratories, provide material that may be useful in the science classroom and laboratory. We particulary recommend "Exploring our Molecular Selves" an education kit that can be ordered from the web (The molecular graphic shown above is taken from this web site)

16. PPI Home Page Pseudomonas syringae genome resources Home Page. This site is intended to be a portalto the various genome biology resources available for these model strains. http://pseudomonas-syringae.org/

P. s. pv . tomato P. s. ... phaseolicola Pseudomonas syringae Genome Resources Home Page High School Connect What is the basis for pathogenicity of P. syringae pv tomato DC3000 on tomato and Arabidopsis? What enables P. syrinage pv. syringae B728a to be such a good epiphyte on bean leaves in the field? What is the basis for non-host resistance of Arabidopsis to the highly virulent bean pathogen, P. syringae pv phaseolicola These are some of the many questions that can be explored through functional genomic analysis of the bacterial plant pathogen, Pseudomonas syringae . Strains of P. syringae are noted for their diverse and host specific interactions with different plant species. Specific strains are assigned to one of the over 50 known pathovars based on their ability to infect different plant species. The value of P. syringae

17. Human Genome Resources Fact Sheet Home Library Catalogs Services Fact Sheets Human genome resources.Fact Sheet Human genome resources. National Center for http://www.nlm.nih.gov/pubs/factsheets/humangenome.html

Skip to Content United States National Library of Medicine National Institutes of Health Search NLM Web Site NLM Home Contact NLM Site Map FAQs ... Fact Sheets Human Genome Resources Fact Sheet Human Genome Resources National Center for Biotechnology Information http://www.ncbi.nlm.nih.gov Return to Web Version Printer-friendly Version Guide Human Genome Resources Guide - overview of available human genome data resources. Includes bulletins and progress reports concerning the Human Genome Project and provides centralized access to previously disparate data. http://www.ncbi.nlm.nih.gov/genome/guide/human Genes Entrez Gene - gene-based resource supplying connections for map, sequence, expression, structure, functional and homology data. This data base is considered to be the successor to LocusLink http://www.ncbi.nih.gov/entrez/query.fcgi?db=gene HomoloGene - a gene homology tool that compares nucleotide sequences between pairs of organisms in order to identify putative orthologs. Curated orthologs are incorporated from a variety of sources via LocusLink. Organisms represented are listed on the HomoloGene home page. http://www.ncbi.nlm.nih.gov/HomoloGene/

18. National Center For Genome Resources Awarded $1.2M By USDA For Continuation Of T National Center for genome resources Awarded $1.2M by USDA for Continuation ofthe Model Plant Initiative SOURCE The National Center for genome resources. http://www.thesoydailyclub.com/Research/LISGenomeResearch05072004.asp

Soy happy to see you! "Everyone deserves a soy choice!"™ www.thesoydailyclub.com © 2000 - 2004 The Soy Daily™ Think Soy Daily HOME ARCHIVES ADVERTISE THE BEST OF SOY COOKING/RECIPES ... TELL A FRIEND Home of The Soy Fan Club's Drive-in With thousands of pages and thousands of reports in The Soy Daily™, only the greatest search engine, G o o g l e could help you search them all! WWW The Soy Daily™ Soy Research News National Center for Genome Resources Awarded $1.2M by USDA for Continuation of the Model Plant Initiative SANTA FE, N.M., May 4, 2004 (BUSINESS WIRE) The National Center for Genome Resources (NCGR) today announced that it was awarded $1.2 million by the Agricultural Research Service of the United States Department of Agriculture (USDA) to continue development of the Legume Information System (LIS). LIS is a component of the Model Plant Initiative, established by Congress to translate information and discoveries from well-studied plant species to economically critical legumes, such as soybeans, peanuts and alfalfa. "The amount of information being collected on the genetics, physiology and biochemistry of the organisms that feed the world is staggering and increasing daily," said Dr. Randy C. Shoemaker of the Agricultural Research Service of the USDA, Ames, Iowa. "Making sense of this vast amount of data is a huge challenge. To do this, we need a database that can retrieve, accumulate, sort, compare and visualize data, quickly and efficiently this is the Legume Information System. It will help transfer knowledge gained in one legume species to another, decreasing redundant research and speeding genetic advances."

19. Bioafrica - Mycobacterium Tuberculosis (TB) Genome Resources Mycobacterium Tuberculosis genome resources * NCBI Mycobacterium tuberculosisGenome resource. * Sanger Center Mycobacterium tuberculosis http://www.bioafrica.net/TBresources1.html

Mycobacterium Tuberculosis Genome Resources: NCBI Mycobacterium tuberculosis Genome resource. Sanger Center Mycobacterium tuberculosis resource: TubercuList World-Wide Web Server at Pasteur Institute. Bioinformatics Tools for Mycobacterium: M. Tuberculosis Blast Search at BioAfrica . M. Tuberculosis Complete Genome Blast at SANBI. M. Tuberculosis Complete Genome Blast at Sanger Institute. Retrieve annotation for a M. tuberculosis gene at Sanger Institute Enter the gene designation here [ e.g. Note that the trailing "c" should be included, where necessary. If your search produces no results, try adding a trailing "c" Literature Search: An integrated map of the genome of the tubercle bacillus, Mycobacterium tuberculosis H37Rv, and comparison with Mycobacterium leprae. Philipp WJ et al. Free Full Paper Use of a Mycobacterium tuberculosis H37Rv bacterial artificial chromosome library for genome mapping, sequencing, and comparative genomics. Brosch R et al Free Full Paper Search PubMed The BioAfrica web site is maintained by: Tulio de Oliveira, email: toliveira@mrc.ac.za Bioinformatics Unit at Africa Centre

20. National Center For Genome Resources - Disinfopedia National Center for genome resources. According to its own website (accessed200311-29) NCGR a non-profit, bioinformatics research http://www.disinfopedia.org/wiki.phtml?title=National_Center_for_Genome_Resource

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