| Database |
Description |
Reference |
| |
Nucleotide Databases |
|
| DNA Data Bank of Japan |
It is the member of International Nucleotide Sequence Databases (INSD) and is one of the biggest resources for nucleotide sequences. |
[37] |
|
European Nucleotide Archive |
It captures and presents information relating to experimental workflows that are based around nucleotide sequencing. |
[126] |
|
GenBank |
It is the member of International Nucleotide Sequence Databases (INSD) and is a nucleotide sequence resource. |
[47] |
|
Rfam |
A collection of RNA families, represented by multiple sequence alignments |
[54] |
| |
Protein Databases |
|
|
Uniprot |
One of the largest collection of protein sequences. |
[45] |
|
Protein Data Bank |
This is another major resource of proteins containing information of experimentally-determined structures of nucleic acids, proteins, and other complex assemblies. |
[38] |
|
Prosite |
Provides information on protein families, conserved domains and actives sites of the proteins. |
[43] |
|
Pfam |
Collection of protein families |
[39] |
|
SWISS PROT |
A section of the UniProt Knowledgebase containing the manually annotated protein sequences |
[32]. |
|
InterPro |
Describes the protein families, conserved domains and actives sites |
[127] |
|
Proteomics Identifications Database |
A public source, containing supporting evidence for functional characterization and post-translation modification of proteins and peptides. |
[128] |
| |
Genome databases |
|
|
Ensembl |
It is a database containing annotated genomes of eukaryotes including human, mouse and other vertebrates. |
[129] |
|
PIR |
An integrated public resource to support genomic and proteomic research |
[34] |
| |
Miscellaneous Databases |
|
|
Medherb |
Resource database for medicinally important herbs |
[130] |
|
Reactome |
A peer-reviewed resource of human biological processes |
[131] |
| TextPresso |
This database provides full text literature searches of model organism research, helps database curators to identify and extract biological entities which include new allele and gene names and human disease gene orthologs |
http://www.textpresso.org/ |
|
TAIR |
The Arabidopsis Information Resource (TAIR) maintains adatabaseof genetic andmolecular datafor the model plantArabidopsis thaliana. It provides information on gene structure, gene product, gene expression, DNA and seed stocks, genome maps, genetic and physical markers. |
http://www.arabidopsis.org/ |
|
dictyBase |
dictyBaseis an online bioinformatics database for Dictyosteliumdiscoideum. |
[132] |
| |
Signalling & Metabolic Pathway Databases |
|
|
KEGG |
KEGG is a suite of databases and associated software for understanding and simulating higher-order functional behaviours of the cell or the organism from its genome information. |
[133] |
|
CMAP |
Complement Map Database is a novel and easily accessible research tool to assist the complement community and scientists from related disciplines in exploring the complement network and discovering new connections. |
[134] |
|
SGMP |
The Signaling Gateway Molecule Pages (SGMP) database provides highly structured data on proteins which exist in different functional states participating in signal transduction pathways. |
[135] |
|
PID |
The Pathway Interaction Database (PID) is a collection of curated and peer-reviewed pathways composed of human molecular signaling and regulatory events and key cellular processes. It serves as a research to study the cellular pathways with a special emphasis on cancer. |
[136] |
|
HMDB |
The Human Metabolome Database (HMDB) is the most comprehensive curated collection of human metabolite and human metabolism data in the world. It contains records for more than 2180 endogenous metabolites with information gathered from thousands of books, journal articles and electronic databases along an extensive collection of experimental metabolite concentration data compiled from hundreds of mass spectra (MS) and Nuclear Magnetic resonance (NMR) from the analyses performed on urine, blood and cerebrospinal fluid samples. The HMDB is designed to address the broad needs of biochemists, clinical chemists, physicians, medical geneticists, nutritionists and members of the metabolomics community. |
[137] |
