Article ID | Journal | Published Year | Pages | File Type |
---|---|---|---|---|
5907214 | Gene | 2012 | 9 Pages |
Abstract
Computational prediction of biological networks would be a tremendous asset to systems biology and personalized medicine. In this paper, we use a moving window bioinformatic screen to identify transcripts with partial identity to the 5â² and 3â²UTRs of the polyQ spinocerebellar ataxia (SCA) genes ATXN1, ATXN2, ATXN3, ATXN7, TBP and CACNA1A and the CAG repeat expansion gene PPP2R2B. We find that the bioinformatic screen enriches for transcripts that encode proteins that interact and that have functions relevant to polyQ SCA. Transcription control and RNA binding are the primary functional groups represented in the proteins from the combined screens. The insulin growth factor pathway, the WNT pathway, long term potentiation, melanogenesis and ATM mediated DNA repair pathways were identified as important pathways. UGUUU repeats were identified as an abundant motif in the SCA network and PAXIP1, CELF2, CREBBP, EBF1, PLEKHG4, SRSF4, C5orf42, NFIA, STK24, and YWHAG were identified as statistically significant proteins in the polyQ and PPP2R2B network.
Keywords
DUSP10calcium/calmodulin-dependent protein kinase II alphaGrin2aRefSeqGNAQATXN3ATXN2CACNA1AEBF1GABRA1TBPCREBBPGRIN1CtBP1Kif5bFRS2HPRDC-terminal binding protein 1CHUKELMO1SCAEphA4CFTRCamk2aGBACAGPolyQATXN1ataxia telangiectasia mutatedIgf1spinocerebellar ataxialong term potentiationLTPATMDAVIDcystic fibrosis transmembrane conductance regulatorinsulin-like growth factor 1UTR یا untranslated regions untranslated regionNucleotidedatabase for annotation, visualization and integrated discoveryHuman Protein Reference DatabaseCREB binding proteinTATA box binding proteinAndrogen Receptor
Related Topics
Life Sciences
Biochemistry, Genetics and Molecular Biology
Genetics
Authors
Jean L. Spence, Scott Wallihan,