Table 1.
Gene and Protein Databases.
| Database | Full name | Comments | Website | Ref |
|---|---|---|---|---|
| NCBI GenBank | NIH genetic sequence database | An international DNA sequence database | www.ncbi.nlm.nih.gov/Genbank | [45] |
| EMBL Nucleotide Sequence Database/EMBL-Bank | European Molecular Biology Laboratory Nucleotide Sequence Database | Collection of DNA and RNA sequences in Europe and is synchronized with GenBank at NCBI and DDBJ in Japan. | www.ebi.ac.uk/embl | [46] |
| DDBJ | DNA Data Bank of Japan | Nucleotide sequence database in Japan and in collaboration with EMBL and NCBI GenBank | www.ddbj.nig.ac.jp | [47] |
| Entrez Gene | - | NCBI database that focuses on gene-to-sequence relationship and provides gene-specific information. | www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene | [5] |
| RefSeq | NCBI Reference Sequences | NCBI collection of non-redundant set of DNA, RNA, and protein sequences. | www.ncbi.nlm.nih.gov/RefSeq | [72] |
| UniGene | NCBI UniGene | Partitions GenBank sequences into sets of transcript sequences that are likely to represent distinct genes. | www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=unigene | [73] |
| Ensembl | - | A source for comparative chordate genome sequences and gene annotation at EBI/Sanger. | www.ensembl.org | [74] |
| UCSC Genome Browser Database | University of California Santa Cruz Genome Browser Database | Human genome assembly and customizable track browsers at UCSC. | genome.ucsc.edu/bestlin ks.html | [75] |
| UniProtKB/TrEMBL | Universal Protein Resource Knowledgebase/Translated European Molecular Biology Laboratories | Computer-curated protein sequence database containing translations of all coding sequences in EMBL/GenBank/DDBJ and also other protein sequences from the literature. | www.ebi.ac.uk/trembl | [49] |
| UniProtKB/Swiss-Prot Protein Knowledgebase | Universal Protein Resource Knowledgebase | Manually-curated protein sequence database providing publicly available information about protein sequences. | www.ebi.ac.uk/swissprot | [49] |