From: New perspectives: systems medicine in cardiovascular disease
Name | Description | URL | Reference |
---|---|---|---|
Molecular Information | |||
 GenBank | The NIH genetic sequence database, an annotated collection of all publicly available DNA sequences | [58] | |
 UniProt | Provide a comprehensive and freely accessible resource of protein sequence and functional information. | [59] | |
 Ensembl | A genome browser for vertebrate genomes that supports cross-species research in genomics, evolution, sequence variation and transcriptional regulation. | [107] | |
Signaling Pathways | |||
 Reactome | A free, open-source, curated and peer reviewed pathway database. | [61] | |
 NDEx - the Network Data Exchange | An online commons to upload, share, and publicly distribute networks. Networks receive globally unique accession IDs and can be stored for private use, shared in pre-publication collaboration, or released for public access. Includes Pathway Interaction Database (NCI) and the Cancer Cell Maps Initiative databases. | [62] | |
 WikiPathways | A database of biological pathways maintained by and for the scientific community using a wiki approach. | [64] | |
Metabolic Pathways | |||
 MetaCyc | Database of non-redundant, experimentally elucidated metabolic pathways. It is curated from the scientific experimental literature and contains pathways involved in both primary and secondary metabolism, as well as associated compounds, enzymes, and genes | [108] | |
 KEGG - Kyoto Encyclopedia of Genes and Genomes | KEGG includes graphical diagrams and data of biochemical pathways including most of the known metabolic pathways and some of the known regulatory pathways. |  | [63] |
Protein-Protein Interactions | |||
 IntAct – molecularinteractiondatabase | Database system and analysis tools for molecular interaction data derived from literature curation or direct user submissions | [67] | |
 BioGRID – biological general repository for interaction datasets | Interaction repository with data compiled through comprehensive curation, containing protein and genetic interactions, chemical associations and posttranslational modifications | [109] | |
 STRING – protein–proteininteractionnetworks | Database of known and predicted protein–protein interactions, including direct (physical) and indirect (functional) associations | [68] | |
Other Interaction Knowledge | |||
 DrugBank | Combines detailed drug data with comprehensive drug target and drug action information | [110] | |
 PharmGKB - Pharmacogenetics Knowledge Base | Contains genomic, phenotype and clinical information collected from ongoing pharmacogenetic studies | [111] | |
 DiseaseConnect | Comprehensive knowledge base on mechanism-based disease connectivity | [112] | |
 Connectivity Map | A resource that uses transcriptional expression data to probe relationships between diseases, cell physiology, and therapeutics. | [113] | |
 OMIM - Online MendelianInheritance in Man | A comprehensive knowledge base of human genes and genetic disorders compiled to support human genetics research and education. | [114] |