Hierarchical modeling of alternative exon usage associations with survival

Ahmed Sadeque, Nicola V.L. Serão, Bruce R. Southey, Zeeshan Fazal, Sandra L. Rodriguez-Zas

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

Exon expression platforms have allowed the detection of associations between alternative exon usage (AEU) and the proliferation of malignant cells in cancer. However, due to inadequate number of studies performed on AEU and the approaches utilized to detect AEU events, well established biomarkers for GBM are not available. The expression of exons corresponding to 25,403 genes was related to the survival of 328 patients diagnosed with Glioblastoma multiforme (GBM). An approach that takes exon expression into account was adopted to detect the association between exon expression and survival. Association between expression and survival were identified in 22 single-exon genes 248 genes with 2-25 exons, 1430 genes with >24 and <50 exons and 215 genes with >50 exons. Among the multiple-exon genes exhibiting AEU were epidermal growth factor (EGF) and nidogen2 (NID2) that have known association with GBM. These results are consistent with reports that these genes have 12 and 10 transcripts, respectively.

Original languageEnglish (US)
Title of host publication2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011
Pages978-980
Number of pages3
DOIs
StatePublished - Dec 1 2011
Event2011 IEEE International Conference onBioinformatics and Biomedicine Workshops, BIBMW 2011 - Atlanta, GA, United States
Duration: Nov 12 2011Nov 15 2011

Publication series

Name2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011

Other

Other2011 IEEE International Conference onBioinformatics and Biomedicine Workshops, BIBMW 2011
CountryUnited States
CityAtlanta, GA
Period11/12/1111/15/11

Keywords

  • Alternative Exon Usage
  • Glioblastoma Multiforme
  • Hierarchical Model
  • Robust Multichip Average
  • Tukey biweight

ASJC Scopus subject areas

  • Biomedical Engineering
  • Health Informatics
  • Health Information Management

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  • Cite this

    Sadeque, A., Serão, N. V. L., Southey, B. R., Fazal, Z., & Rodriguez-Zas, S. L. (2011). Hierarchical modeling of alternative exon usage associations with survival. In 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011 (pp. 978-980). [6112528] (2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011). https://doi.org/10.1109/BIBMW.2011.6112528