Table 2.
Updated descriptions of online databases not previously featured in the NAR Database issue
| Database name | URL | Brief description |
|---|---|---|
| COLOMBOS | http://colombos.net | Collections of Microarrays for Bacterial Organisms |
| Consensus CDS | http://www.ncbi.nlm.nih.gov/projects/CCDS | A collaborative effort to identify a core set of human protein coding regions |
| CottonGen | http://www.cottongen.org | Cotton Genomics, genetics and breeding |
| Database of Genomic Variants | http://dgv.tcag.ca/dgv/app/home | Curated catalog of human genomic structural variation |
| dbGaP | http://www.ncbi.nlm.nih.gov/gap | Database of Genotypes and Phenotypes |
| DECIPHER | http://decipher.sanger.ac.uk | Database of Chromosomal Imbalance and Phenotype in Humans Using Ensembl Resources |
| GEISHA | http://geisha.arizona.edu | Gallus Expression In Situ Hybridization Analysis |
| GeneProf | http://www.geneprof.org | Human and mouse gene expression data from RNA-seq and ChIP-seq |
| GGBN | http://www.ggbn.org/dataportal | The Global Genome Biodiversity Network portal |
| HMDD | http://cmbi.bjmu.edu.cn/hmdd | Human MicroRNA and Disease Associations Database |
| Human Phenotype Ontology | http://www.human-phenotype-ontology.org | Standardized vocabulary of phenotypic abnormalities in human disease |
| IMPC | http://www.mousephenotype.org | International Mouse Phenotyping Consortium portal |
| iPfam | http://www.ipfam.org | Protein family interactions mapped to Pfam domains |
| KBDOCK | http://kbdock.loria.fr | Knowledge-Based Docking: protein domain interfaces |
| Locus Reference Genomic | http://www.lrg-sequence.org | Each LRG is a stable genomic DNA sequence for a region of the human genome |
| LPSN | http://www.bacterio.net | List of Prokaryotic names with Standing in Nomenclature |
| NDB | http://ndbserver.rutgers.edu | Nucleic Acid DataBase, nucleic acids-containing structures |
| Plasma Proteome Database | http://www.plasmaproteomedatabase.org | Quantitative information on proteins in human plasma and serum |
| Progenetix | http://www.progenetix.org | Copy number abnormalities in human cancer |
| SEED | http://pubseed.theseed.org or http://www.theseed.org | Genome annotations based on curated functional systems |
| SFLD | http://sfld.rbvi.ucsf.edu | Structure-Function Linkage Database: sequence conservation in enzyme superfamilies |
| SoyKB | http://soykb.org | Soybean Knowledge Base |
| Virus variation | http://www.ncbi.nlm.nih.gov/genomes/VirusVariation | Variation data on influenza, dengue and West Nile viruses |
| YeastNet | http://www.inetbio.org/yeastnet | Functional gene networks for Saccharomyces cerevisiae |