1. NCGR Develop bioinformatics and computational biology tools to support genetic analysisand discovery. Features scientific programs, software, http://www.ncgr.org/

News NCGR Releases Open Source Version of ISYS more NCGR and USDA-ARS Announce Support for Continued Development of the Legume Information System more NCGR, USDA-ARS and CCGB announce collaboration to initiate a Legume Information Network more NCGR Archives 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. Washington University - Zebrafish Genome Resources Develop genomic and genetic tools to facilitate biological investigations .Projects include expressed sequence tags, mapping genes and ESTs, and allocating http://zfish.wustl.edu/

The efficient use of zebrafish to study developmental and physiological processes requires a variety of genomic and genetic tools. Over the years, WashU-Zebrafish Genome Resources has helped to provide many such resources, including EST sequences and EST assemblies, mapped genes and ESTs, radiation hybrid and mieotic maps, a repeat masker, and inbred strains of zebrafish (funded by NIH DK55739, 1998-2004). Various links below lead to these resources. Our current genome scale project is to use our expertise in high-throughput biology and zebrafish genetics, together with the Tol2 gene or enhancer trap system developed by our collaborator on this project, Koichi Kawakami , to generate 500 lines expressing GFP (or other colored fluorescent proteins) in specific cells or tissues, and to identify their insertion sites. These GFP lines can then be used in biological analysis, or as visible genetic markers along chromosomes to aid in mapping experiments or generation of deletions. Open the Tol2 link below to see examples of expression patterns and insertion site information. Tol2 Gene and Enhancer Traps gene list ESTs and WZ Assemblies Search EST assemblies (by EST, wz#, or GI#)

3. NCBI Human Genome Resources A guide to online information resources for human genome research. http://www.ncbi.nlm.nih.gov/genome/guide/

NCBI Genomic Biology Homo sapiens Search Entrez NCBI Web Site Books Domains 3D Domains Gene Genome GEO GEO Datasets HomoloGene Journals LocusLink MapViewer MeSH Nucleotide OMIM PMC PopSet Protein PubMed SNP Structure Taxonomy UniGene UniSTS Browse your Genome Click on the 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 Adrienne Kitts and Stephen Sherry Online Mendelian Inheritance in Man (OMIM): A Directory of Human Genes and Genetic Disorders Donna Maglott, Joanna S. Amberger, and Ada Hamosh The SKY/CGH Database for Spectral Karyotyping and Comparative Genomic Hybridization Data Turid Knutsen, Vasuki Gobu, Rodger Knaus, Thomas Ried, and Karl Sirotkin Genome Assembly and Annotation Process Paul Kitts The Reference Sequence (RefSeq) Project Kim D. Pruitt, Tatiana Tatusova, and James M. Ostell LocusLink: A Directory of Genes Donna Maglott Using the Map Viewer to Explore Genomes Susan M. Dombrowski and Donna Maglott

4. NCBI Human Genome Resources A guide to online information resources for human genome research. http://tmsyn.wc.ask.com/r?t=an&s=hb&uid=24312681243126812&sid=343126

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

NCBI Home Genomic Biology Mouse Genome Resources Search Entrez NCBI Web Site Books Domains 3D Domains Gene Genome GEO GEO Datasets HomoloGene Journals LocusLink Map Viewer MeSH Nucleotide OMIM PMC PopSet Protein PubMed SNP Structure Taxonomy UniGene UniSTS Mouse Genome Resources 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 and view in genomic context. Entrez Gene. Focal point for genes and associated information 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. MapViewer. Interactive viewer for genome maps, sequences, and genes. RefSeq.

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. NCBI HomePage Entrez Home. Entrez Tools. Gene expression omnibus (GEO) Human genome resources. Malaria genetics genomics. Map Viewer dbMHC. Mouse genome http://tmsyn.wc.ask.com/r?t=an&s=hb&uid=24312681243126812&sid=343126

8. National Center For Genome Resources The National Center for genome resources (NCGR) in Santa Fe, New Mexico, is an independent, nonprofit research institution that develops and uses http://tmsyn.wc.ask.com/r?t=an&s=hb&uid=24312681243126812&sid=343126

9. The Jackson Laboratory- Advancing Research In Human Health Research JAX Mice Services Research Resources Mouse Genome Informatics Courses and Educational Programs Pharmaceutical http://tmsyn.wc.ask.com/r?t=an&s=hb&uid=24312681243126812&sid=343126

10. FlyBase @ Flybase.net Drosophila resources If you are new to flies Allied related data Nov 2004 A Database of the Drosophila Genome. Data Classes http://tmsyn.wc.ask.com/r?t=an&s=hb&uid=24312681243126812&sid=343126

11. Ensembl Mouse Genome Server Mouse Genome Server. Ensembl Entry Points. Search for with Display Chr From To Additional mouse resources. Top 40 InterPro domains http://tmsyn.wc.ask.com/r?t=an&s=hb&uid=24312681243126812&sid=343126

12. Ensembl Genome Browser NCBI http//www.ncbi.nlm.nih.gov/genome/guid. .. http://tmsyn.wc.ask.com/r?t=an&s=hb&uid=24312681243126812&sid=343126

13. Rice Plant DNA Mapped Several countries, including the US are engaged in developing genome resources for a plant with a small genome that is related to soybean http://tmsyn.wc.ask.com/r?t=an&s=hb&uid=24312681243126812&sid=343126

14. Washington University - Zebrafish Genome Resources Washington University Zebrafish genome resources http://tmsyn.wc.ask.com/r?t=an&s=hb&uid=24312681243126812&sid=343126

15. NCBI Dog Genome Resources Top/Health/Animal/Conditions_and_Diseases/Cancer/Research http://www.ncbi.nlm.nih.gov/genome/guide/dog/

NCBI Home Genomic Biology Dog Genome Resources Search Entrez NCBI Web Site Books Domains 3D Domains Gene Genome GEO GEO Datasets HomoloGene Journals LocusLink Map Viewer MeSH Nucleotide OMIM PMC PopSet Protein PubMed SNP Structure Taxonomy UniGene UniSTS Dog Genome Resources NCBI Web Resources: Global Query. Query all NCBI Entrez databases in one step. Site Search. Search NCBI's Web sites and Ftp sites. BLAST. Blast your sequence against dog-specific genomic sequence. Clone Registry. Find information about specific BAC clones, including sequencing status, end sequence information, and fingerprint information. Entrez Gene. Focal point for genes and associated information. e-PCR. Check your sequence for STSs and view in genomic context. GEO. Gene Expression Omnibus, a public repository for expression data. GEO DataSets. Experimental sets of GEO data. Genome Project. Complete and in-progress large-scale sequencing, assembly, annotation and mapping projects. HomoloGene. Putative homologies among the annotated genes of several completely sequenced eukaryotic genomes. Map Viewer.

16. TIGR Rice Genome Annotation The TIGR Rice Genome Annotation Database and Resource is a National Science Foundation project and provides sequence and annotation data for the rice http://tmsyn.wc.ask.com/r?t=an&s=hb&uid=24312681243126812&sid=343126

17. Plant Genome Databases The Arabidopsis Genome Resource (AGR) is an information resource being developed at The National Center of genome resources (NCGR) has entered into a http://www.hgmp.mrc.ac.uk/GenomeWeb/plant-gen-db.html

18. The Sanger Institute: Zebrafish Genome Resources Workshop - Dresden 2005 Zebrafish genome resources Workshop Dresden 2005 Zebrafish Model OrganismDatabase (ZFIN); Zebrafish genome resources and the NCBI Home Page (NCBI) http://www.sanger.ac.uk/Projects/D_rerio/workshop_Dresden/

Sanger Home Acedb YourGenome Ensembl ... Blast D. rerio Overview Frequently asked questions Sanger '04 tutorial Madison '04 tutorial ... Contact us clone seq project Select - MAPPING overview mapping contacts zebrafish fpc libraries details - BROWSE vega - SEARCH Blast Server vega Blast - STATUS INFO genome MOT Clone Status - DOWNLOAD EMBL file information ftp EMBL files - OTHER clone submission wgs seq project Select - ASSEMBLY Zv4 ensembl Zv4 Blast/SSAHA search marker search information ftp - ASSEMBLY Zv4 information ftp - ASSEMBLY Zv3 information ftp - ASSEMBLY Zv2 information ftp - ASSEMBLY Zv1/06 information ftp - TRACES trace repository SSAHA search traces - OTHER DAS Server other services Select online RepeatMasker Sanger '04 tutorial Madison '04 tutorial contacts Select Help FAQs Resources Search FTP Site Sitemap Zebrafish Genome Resources Workshop - Dresden 2005 The Sanger Institute ZFIN and NCBI organise the "Zebrafish Genome Resources Workshop" to be held concurrently with the 4th European Zebrafish Meeting in Dresden (Germany) on the 14th and 15th of July 2005. Workshop The aim of this workshop is to present an overview of the services and data collections that are accessible from the web pages of NCBI, ZFIN and the Sanger Institute. This will be complemented with practical sessions where different ways to access the web-based resources will be demonstrated with examples and exercises. These workshops will be held in a room equipped with computers where the attendees will have the chance to have a hands-on experience.

19. Journal Of Agricultural Genomics 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

20. Genome.gov | Human Genome Resources Supported By NHGRI Human genome resources Supported by the National Human Genome Research Institute A Medical Genetics Information Resource; HUGO Human Genome Nomenclature http://www.genome.gov/11510192

triggerParms["cpp_5"] = "Referer:"+ cppUrlPatch (""); // Optional Home About NHGRI Newsroom Staff ... Genome Informatics and Computational Biology Program Human Genome Resources Supported by NHGRI Print Version Human Genome Resources Supported by the National Human Genome Research Institute Gene Ontology Consortium [geneontology.org] Controlled Vocabularies for Gene Product Attributes GeneTests [geneclinics.org] A Medical Genetics Information Resource HUGO Human Genome Nomenclature Committee (HGNC) [hugo-international.org] A Resource for Human Gene Names Online Mendelian Inheritiance in Man (OMIM) [ncbi.nlm.nih.gov] A Catalog of Human Genes and Genetic Disorders PharmGKB [pharmgkb.org] The Pharmacogenetics and Pharmacogenomics Knowledge Base Reactome [reactome.org] A Curated Resource of Core Pathways and Reactions in Human Biology UCSC Genome Bioinformatics [genome.ucsc.edu] Genome browsers and comparative genomics for human and other model species UniProt KnowledgeBase [uniprot.org] A Portal for Curated Information on Protein Sequence, Classification and Function

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