Functional Analysis: Difference between revisions
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== GEGG biochemical pathways == | == GEGG biochemical pathways == | ||
[http://www.genome.jp/dbget-bin/www_bget?compound+C00575 KEGG pathways which involve cAMP] | [http://www.genome.jp/dbget-bin/www_bget?compound+C00575 KEGG pathways which involve cAMP] | ||
== MicroArray Analysis == | |||
Entrez gene ID [[http://compchembio.srcgenomics.uq.edu.au/tgdb/getEntrezGeneInfo.do?uid=270802&symbol=BC048403&description=cDNA%20sequence%20BC048403&aliases=E030027L10&organism=Mus%20musculus&chr=10&location=10%20D2 | |||
|270802] ] |
Revision as of 04:43, 29 May 2007
New avenues in protein function prediction http://www.proteinscience.org/cgi/content/full/15/6/1527
Sequence -> Function
- Detecting Protein Function and Protein-Protein Interactions from Genome Sequences
Edward M. Marcotte, Matteo Pellegrini, Ho-Leung Ng, Danny W. Rice, Todd O. Yeates, and David Eisenberg (30 July 1999) Science 285 (5428), 751. [DOI: 10.1126/science.285.5428.751] [1]
Structure -> Function
- Proknow
Pal D and Eisenberg D. (2005). Inference of protein function from protein structure. Structure 13, 121-130. [2]
- Profunc [3]
Laskowski R A, Watson J D, Thornton J M (2005). ProFunc: a server for predicting protein function from 3D structure. Nucleic Acids Res., 33, W89-W93. [4]
Using mouse sequence:
Mammalian Orthology http://www.informatics.jax.org/searches/homology_report.cgi?_Marker_key=92352 -- Genes
Mammalian Orthology http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=homologene&dopt=HomoloGene&list_uids=17580 --Proteins
String returned no results.
Pfam didn't work...http://www.sanger.ac.uk/cgi-bin/Pfam/getblast?id=2103981H86007039eB664
Interpro returned no results.
CDART http://www.ncbi.nlm.nih.gov/Structure/lexington/lexington.cgi?cmd=rps - when given a protein query sequence, CDART displays the functional domains that make up the protein and lists proteins with similar domain architectures. Returns no results for mouse sequence.
GEGG biochemical pathways
KEGG pathways which involve cAMP
MicroArray Analysis
Entrez gene ID [[http://compchembio.srcgenomics.uq.edu.au/tgdb/getEntrezGeneInfo.do?uid=270802&symbol=BC048403&description=cDNA%20sequence%20BC048403&aliases=E030027L10&organism=Mus%20musculus&chr=10&location=10%20D2 |270802] ]