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Related Subjects
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This category includes brief overview of all related subjects.
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Defining BioInformatics
[7]
In this section we tried to briefly explain what bioinformatics is ?
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Unviersities
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This contains information about universities that are offering bioinformatics degree programs.
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Resources
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Contains information about bioinformatics resources including databases, tools and techniques.
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Algorithms
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This category includes some of the basic algorithms that are usually used by bioinformaticians.
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Home » 2011 » August » 11 » Specialized Databases
3:11 PM Specialized Databases |
Generalized DNA, protein and carbohydrate databases
- Specialized protein databases
- Proteome databases
- Proteome analysis (comprehensive statistical and comparative analyses of the predicted proteomes of fully sequenced organisms at EBI, UK)
- Specific protein family databases
- Proweb (Guide to specific protein families)
- TRANSFAC (Transcription Factor Database, housed at Biobase)
- GPCRDB (G-Protein Coupled Receptor Database)
- PKR (Protein Kinase Resource)
- ENZYME (Enzyme database at ExPASy, CH)
- MEROPS (Peptidase database at Sanger Institute, UK)
- Prolysis (Protease and inhibitors database, Univ of Tours, Fr)
- CAZy (Carbohydrate-active enZymes at CNRS, Fr)
- PROMISE (Prostetic groups and Metal Ions in protein active sites database at Scripps Researche Institute, USA)
- ReLiBase (database system for analysing receptor/ligand complexes deposited in the Protein Data Bank at EBI, UK)
- IMGT (ImMunoGeneTics database of Igs, TcRs, and MHC molecules at Montpellier, France)
- REBASE (Restriction enzyme database at New England Biolabs, USA)
- Protein classification databases
- CluSTr (Clusters of SWISS-PROT and TrEMBL proteins at EBI, UK)
- Pfam (Protein families database of alignments and HMMs at the Sanger Centre, UK)
- TIGRFAMs (Protein families based on HMMs at TIGR, USA)
- Hits (Protein domain database at ISREC, Switzerland)
- SCOP (Structural Classification of Proteins according to familiy, superfamily, common fold, and class)
- CATH (Protein structure classification based on Class, Architecture, Topology, and Homologous superfamilies)
- BioSpace (Unified sequence-structure classification of proteins, Stanford, USA)
- LPFC (Library of Protein Family Cores)
- Dali (Dali Fold classification based on structure-structure alignment of proteins, at Helsinki University, Finland)
- ENZYME (Enzyme nomenclature database at ExPASy, CH)
- Enzyme Structures Database (University College London, UK)
- PRESAGE (Annotated protein structure database at the University of California, Berkeley, USA)
- CDD (Conserved Domain Database at NCBI, USA)
- Specialized structure databases
- Pathway databases
- KEGG(Kyoto Encyclopedia of Genes and Genomes at Kyoto Univ. Jp. or at mirror servers)
- LIGAND (Chemical database for emzyme reactions at Institute for Chemical Research, Kyoto Univ. Jp)
- BRITE (Biomolecular Relations in Information, Transmission and Expression, Kyoto Univ., Jp)
- Boehringer Mannheim - Biochemical pathways (Maintained at ExPASy, Ch)
- BioCyc (Microbial species-specific integrated pathway/genome database)
- WIT (What is There? Integrated pathway/genome database. Registration required)
- EMP (Database of Enzymes and Metabolic pathways public server
- UM-BBD (Microbial biocatalysis/biodegradation pathways, University of Minnesota, USA)
- BRENDA (Enzyme and metabolic database at Univ Cologne, Germany)
- SRS (Metabolic pathway database search at EBI, UK)
- Microarray databases
- ArrayExpress (Public repository for microarray based gene expression data at EBI, UK)
- GEO (Genome Expression Omnibus: Public repository for microarray based gene expression data at NCBI, USA)
- 2D-page databases
- Lists of databases
- DBCAT
- (Catalog of more than 500 molecular biology databases at INFOBIOGEN, France )
- NAR 31 (1) 2003
- (Nucl. Acids Res. biological database issue, papers available through NAR online)
- NAR 32 (1) 2004
(Nucl. Acids Res. biological database issue, papers available through NAR online)
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