Welcome to Mika's Link Collection!
Genomics Databases World
Mika HIRAKAWA
Researcher, Bioinformatics Center
Institute for Chemical Research, Kyoto University
Genome Information Centers
- GenomeNet Kyoto University
- BIRD Institute for Bioinformatics Research and Development, JST
- EBI European Bioinformatics Institute
- NCBI National Center for Biotechnology Information
- ExPASy Proteomics server of SIB
- DDBJ DNA Data Bank of Japan, NIG
- DISC DNA Information and Stock Center
- TIGR The Institute for Genome Research
- MIPS Munich information center for protein sequences
Integrated Search Systems
- DBGET Integrated Database Retrieval System
- Entrez Integrated Database Retrieval System
- SRS Sequence Retrieval System at EBI
- SRS Sequence Retrieval System at DDBJ
DNA & Protein Databases
- Ensembl Genome Browser
- Uniprot Universal Protein Resource
- SWISS-PROT/TrEMBL Protein knowledgebase
- PIR Protein Information Resources
- InterPro Protein Domains and Families
- Prosite Database of protein families and domains
- PDB Protein Data Bank
- SCOP Structural Classification of Proteins
- Pfam Protein domain families by HMM
- FAMSBASE ORFs with 3D structure models
- Het-PDB Navi Protein-ligand/protein-substrate interactions
- TRANSFAC Transcription Factors
- DBTSS Database of Transcriptional Start Sites
- NDB Nucleic Acid Database
- Repbase Transposable Elements and other repetitive DNA
- Pgene database Pseudogene.org
Pathway Databases
- KEGG Kyoto Encyclopedia of Genes and Genomes
- EcoCyc E. coli metabolism
- EMP Enzymes and Metabolic Pathways database
- BRENDA The Comprehensive Enzyme Information System
- BRITE Biomolecular Reaction in Information Transmission and Expression
- DIP Database of Interacting Proteins
- BIND The Biomolecular Interaction Network Database
- ExPASy map Biochemical Pathway by Boehringer
Ontology Sources
- OP Genome ontology project, Tokyo University
- GO Genome ontology project
- MeSH Medical Subject Headings
- OBO Open Biological Ontologies
- FMA Foundational Model of Anatomy
- Klotho Biochemical Compounds Declarative Database
- Reactome CSHL/EBI
- The Disease Ontology Northwestern University
Insect Genome Databases
Fish Genome Databases
Fungi Genome Databases
Human Genome Databases
Microbial Genome Databases
Plant Genome Databases Databases
Rodent Genome Databases
Other Invatebrate Genome Databases
Other vertebrate Genome Databases
Organelle Genome Databases
Genome Project Information
Selected Online Journals
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