Computational approaches to cell cycle analysis: Data and databases
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The document discusses various databases that contain biological data including genes, proteins, genomes, protein domains, gene expression, interactions, pathways, and models. It mentions several specific databases such as GenBank, UniProt, PDB, SGD, TAIR, Ensembl, InParanoid, HomoloGene, COG, OrthoMCL, Entrez, eggNOG, TreeFam, CDD, Pfam, SMART, InterPro, SCOP, CATH, GEO, ArrayExpress, Cyclebase, BioGRID, DIP, IntAct, MINT, Prosite, ELM, Domino, Phospho.ELM, PhosPhAt, Phosida, CORUM,
Computational approaches to cell cycle analysis: Data and databases
- 1. Data and databases Lars Juhl Jensen EMBL Heidelberg
- 2. a lot of data
- 4. a lot of databases
- 7. GenBank
- 10. UniProt
- 13. PDB
- 16. genomes
- 17. SGD Saccharomyces Genome Database
- 20. TAIR The Arabidopsis Information Resource
- 23. GeneDB
- 26. Ensembl
- 30. and many others
- 31. homology
- 34. InParanoid
- 39. HomoloGene
- 40. Entrez
- 43. COG Clusters of Orthologous Groups
- 44. deep orthology
- 47. OrthoMCL
- 48. high resolution
- 52. YOGY
- 53. meta-database
- 56. eggNOG
- 62. TreeFam
- 67. protein domains
- 68. CDD Conserved Domain Database
- 69. NCBI BLAST
- 72. Pfam
- 73. high coverage
- 77. SMART
- 81. InterPro
- 82. meta-database
- 87. SCOP
- 90. CATH
- 93. cell cycle
- 96. gene expression
- 97. microarrays
- 99. dynamics
- 100. GEO Gene Expression Omnibus
- 103. ArrayExpress
- 106. cell cycle
- 109. Cyclebase.org
- 113. SCEPTRANS
- 116. interactions
- 119. yeast two-hybrid
- 121. synthetic lethality
- 123. repositories
- 124. BioGRID
- 127. DIP Database of Interacting Proteins
- 131. IntAct
- 134. MINT Molecular Interactions Database
- 138. cell cycle
- 139. dynamic network
- 141. linear motifs
- 142. less than 10 residues
- 144. Prosite
- 146. ELM
- 148. Domino
- 151. PepCyber P~Pep
- 155. Phospho.ELM
- 158. PhosphoSite
- 161. PhosPhAt
- 165. Phosida
- 168. cell cycle
- 171. complexes
- 172. CORUM
- 175. Gene Ontology
- 178. cell cycle
- 181. pathways
- 182. KEGG
- 183. broad coverage
- 186. iPath
- 189. EcoCyc
- 190. MetaCyc
- 191. metabolism
- 194. Reactome
- 195. elegant data model
- 197. PID Pathway Interaction Database
- 198. meta-database
- 201. models
- 202. BioModels
- 205. cell cycle
- 206. Cyclonet
- 211. CCDB
- 216. integration
- 217. STRING
- 219. benchmarking
- 224. Bayesian framework
- 226. signaling networks
- 227. NetworKIN