Resources

Animal Genome Data Resources

• Maps: [ NCBI (Cattle, Chicken, Horse, Pig, Sheep); Ensembl (Cattle, Chicken, Horse, Pig, Sheep); ARKDB (Chick,Cow,Horse,Pig,Salmon,Sheep,Turkey); INRA (Cattle, Pigs); RH (Cattle, Pigs, Chicken, Sheep) ]
• EST: [ Cattle, Pig, Chicken ]      QTL: [ Cattle, Pig, Chicken, Sheep ]
• BAC contig: [ Cattle, Chicken, Pigs, Sheep ]
• SNP Chips: [ Cattle | Pig | Sheep | SNPchimp ]
• HapMap: [ Cattle | Pig | Sheep ]
• Genes: [ OMIA, TGI, Unigen, SIGENAE, miRNAdb, miROtho, OrthoDB ]
• Genomes: [ Chicken, Cattle, Pigs, Sheep, Horse ]
• NAGRP Data Repository: for all livestock species

• Open source tools: BioPerl | BioJava | BioXML | OpenBio
• Database tools: GMod | GBrowse | cMAP | BioMOBY |
• Data centers: NCBI | Ensembl | UCSC | DBGET
• Ontology: GO | MPO | SO | OBO | BioOntology | Matching
• Functional genomics: BioGPS | ExPASy | GeneCards | HGNC | VGNC | MIBBI | KEGG | Reactom | IONH pathways | DGIL Porcine Translational DB
  
• Metabolism: BRENDA | BioCyc | MetaCyc
• Text mining: eGIFT |
• Traits/phenotypes: CTC | VT | LPT | CMO | Phenotypes
• Interest groups: AgBioData | BioCurators | FAANG
• NCBI Resources: [ Pig | Cattle | Chicken | Sheep | Horses ]

• Structure: Members and responsibility
• Mission: Challenges and tasks.
• Projects: The Past, the Current, and the Potentials
• Services: Computers and Service Resources
• Community: Communication channels
• Publications: Abstracts and Papers

• Updates: NRSP-8 Bioinformatics Reports/Newsletters
• Events: Conferences, Meetings & Workshops
• News: Google | BioInform | NCBI | USDA | NAGRP
• AnGenMap: Animal Genomics Discussion Group
• Directory: Animal Genetics Community Members
• NRSP-8: USDA-NIFA | The Structure | The Community
• Community Groups: Web sites and communications
• Activities: USDA/NRSP8 Bioinformatics Workshops
• Resources Links: Bioinformatics | Animal Genomics

• Services: ( CorrDB | QTLdb | GBrowse | JBrowse )
• Service developments: Databases and Web Sites
• [ Data Repository ] [ Tools Repository ]
• ToolBox | NAGRP Data Sharing Platform
• Ontologies ( VT | LPT | CMO | LBO )
• Starred tools: AgBase | Blast | FAANG Data Portal | ResSpecies | VCMap 
• An introductory list of animal genomics software
• Collections: Genetics Software | Genomics Software
• Useful Bookmarks | Genomics Methods References
• Tutorials: how to use [ NCBI] [Ensembl ]

• FAQ | Books | Journals | Learning Sites
• Blast | Crimap | BioPerl | BioPython | Courses | Genomics
• Highlighted: Manuals / Tutorials / File Formats
• Tutorials ( 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 12, 13, 14, 15 )
• Glossaries ( Genetics glossaries | Talk genetics glossaries )
  VT terms | LPT terms | CMO terms |