Difference between revisions of "Web Resources"

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(Ontology/Pathway)
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== GATEWAY DB ==
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*[http://www.ebi.ac.uk/ EBI]
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*[http://www.ncbi.nlm.nih.gov/ NCBI]
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== Ontology/Pathway ==
 
== Ontology/Pathway ==
 
*[http://www.geneontology.org/ Gene Ontology]
 
*[http://www.geneontology.org/ Gene Ontology]

Revision as of 19:59, 11 January 2012

Contents

GATEWAY DB

Ontology/Pathway

Variome

  • GVS Genome Variation Server (meta DB containing dbSNP, HapMap phase 3)
  • dbSNP DB of short genetic variations by NCBI
  • 1000 Genome Project Deep catalog of human genetic variation
  • HapMap Project Catalog of human genetic variation
  • Exome Variant Server by NHLBI GO Exome sequencing project (ESP)
  • MutaDATABASE a centralized and standardized DNA variation DB
  • HGMD The human gene mutation database (The professional version of DB is commercial.)
  • TCGA The Cancer Genome Atlas
  • ICGC cancer genome project International Cancer Genome Consortium Cancer genome project
  • 1001 Genome Project Genetic variation] of natural population of Arabidopsis

Prediction of deleteriousness of SNV

Transcriptome

Proteome/Localisome

  • SUBA SUBcellular location DB for Arabidopsis proteins

Diseasome/Phenome/Metabolome

  • OMIM Human disease DB
  • UMLS Unified Medical Language Systems
  • ICD International Classification of Disease by WHO
  • GenomeRNAi A Phenotype DB for large-scale RNAi screens (human, mouse, fly, worm...)
  • cloroplast2010 Phenome/metabolome DB for Arabidopsis clroloplast gene KO lines (by MSU)

Genotype-to-phenotype map

Interactome/Network

TF/miRNA/Regulaorty network

Chemical/Drug DBs

Side effect/Toxicogenomics DBs

  • CTD The Comparative Toxicogenomics database
  • SIDER Side Effect Resource
  • CEBS Chemical Effects in Biological Systems, an integrated public repository for toxicogenomics data

Animal genomes

Plant genomes

Microbe genomes

Protozoa genomes

Metagenomes

  • CAMERA 2.0 Curated DB and analysis tool for metagenomes
  • NCBI Metagenome DB Categorized with metagenome types, sources and sequencing methods.

Other resources

  • GOLD Genome Online Database-Genome project statistics and download links
  • CAGI Critical Assessment of Genome Interpretation
  • nightscience Collective creativity in scientific discovery games
Personal tools
Namespaces

Variants
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