Difference between revisions of "Web Resources"
From Bioinformatics Lab
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*[http://code.google.com/p/psicquic/ Protemic Standard Initiative Common QUery InterfaCe (PSICQUIC)] | *[http://code.google.com/p/psicquic/ Protemic Standard Initiative Common QUery InterfaCe (PSICQUIC)] | ||
*[http://www.imexconsortium.org/ International Molecular Exchange Consortium (IMEx)] | *[http://www.imexconsortium.org/ International Molecular Exchange Consortium (IMEx)] | ||
| − | *[http://wodaklab.org/iRefWeb/ iRefWeb] a web interface to PPI consolidated from 10 public DB (BIND, BioGRID, CORUM, DIP,IntAct, HPRD, MINT, MPact, MPPI, OPHID) | + | *[http://wodaklab.org/iRefWeb/ iRefWeb] a web interface to PPI consolidated from 10 public DB (BIND, BioGRID, CORUM, DIP,IntAct, HPRD, MINT, MPact, MPPI, OPHID(predicted PPIs)) |
| − | *[http://www.hprd.org/ Human Protein Reference Database | + | *[http://bond.unleashedinformatics.com/ BIND] the Biomolecular Interaction Network Database |
| + | *[http://thebiogrid.org/ BioGRID] | ||
| + | *[http://mips.helmholtz-muenchen.de/genre/proj/corum/index.html CORUM] Comprehensive Resource of Mammalian Protein Complexes | ||
| + | *[http://dip.doe-mbi.ucla.edu/dip/ DIP] Database of Interacting Proteins | ||
| + | *[http://www.ebi.ac.uk/intact/ IntAct] | ||
| + | *[http://www.hprd.org/ HPRD] Human Protein Reference Database | ||
| + | *[http://mint.bio.uniroma2.it/mint/ MINT] Molecular Interaction DB | ||
| + | *[http://mips.helmholtz-muenchen.de/genre/proj/mpact Mpact] Representation of Interaction Data at MIPS | ||
| + | *[http://mips.helmholtz-muenchen.de/proj/ppi/ MPPI] Mammalian PPI DB at MIPS | ||
*[http://string-db.org/ STRING] Known and predicted PPI | *[http://string-db.org/ STRING] Known and predicted PPI | ||
Revision as of 16:11, 6 August 2011
Variome
- MutaDATABASE a centralized and standardized DNA variation DB
- HapMap Project Catalog of human genetic variation
- 1000 Genome Project Deep catalog of human genetic variation
- 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
Transcriptome
Proteome/Localisome
- SUBA SUBcellular location DB for Arabidopsis proteins
Phenome/Metabolome
- OMIM Human disease DB
- 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
- Protemic Standard Initiative Common QUery InterfaCe (PSICQUIC)
- International Molecular Exchange Consortium (IMEx)
- iRefWeb a web interface to PPI consolidated from 10 public DB (BIND, BioGRID, CORUM, DIP,IntAct, HPRD, MINT, MPact, MPPI, OPHID(predicted PPIs))
- BIND the Biomolecular Interaction Network Database
- BioGRID
- CORUM Comprehensive Resource of Mammalian Protein Complexes
- DIP Database of Interacting Proteins
- IntAct
- HPRD Human Protein Reference Database
- MINT Molecular Interaction DB
- Mpact Representation of Interaction Data at MIPS
- MPPI Mammalian PPI DB at MIPS
- STRING Known and predicted PPI
TF/miRNA/Regulaorty network
- PlnTFDB Plant TF database by University of Potsdam, Germany
- PlantTFDB Plant TF database by Peking University, China
- AGRIS Arabidopsis Gene Regulatory Information Server (by OSU)
- miRBase
- miRGator
- microRNA.org
- TargetScanHuman
- PicTar An algorithm for miRNA target scan
- Carrington Lab Resource Various DBs for plant miRNA
- hmChIP DB for publicly available human and mouse ChIP-seq and ChIP-chip data
Chemical/Drug/Drug network
Ontology/Pathway
- Gene Ontology
- Reactome A manually curated and peer-reviewed pathway DB
- Biocyc
Bacterial genomes
Fungal genomes
Animal genomes
Plant genomes
Metagenomes
Stem Cells
Others
- CAGI Critical Assessment of Genome Interpretation
