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Differential alternative RNA splicing and transcription events between tumors from African American and White patients in The Cancer Genome Atlas.

Publication ,  Journal Article
Al Abo, M; Hyslop, T; Qin, X; Owzar, K; George, DJ; Patierno, SR; Freedman, JA
Published in: Genomics
May 2021

Individuals of African ancestry suffer disproportionally from higher incidence, aggressiveness, and mortality for particular cancers. This disparity likely results from an interplay among differences in multiple determinants of health, including differences in tumor biology. We used The Cancer Genome Atlas (TCGA) SpliceSeq and TCGA aggregate expression datasets and identified differential alternative RNA splicing and transcription events (ARS/T) in cancers between self-identified African American (AA) and White (W) patients. We found that retained intron events were enriched among race-related ARS/T. In addition, on average, 12% of the most highly ranked race-related ARS/T overlapped between any two analyzed cancers. Moreover, the genes undergoing race-related ARS/T functioned in cancer-promoting pathways, and a number of race-related ARS/T were associated with patient survival. We built a web-application, CanSplice, to mine genomic datasets by self-identified race. The race-related targets have the potential to aid in the development of new biomarkers and therapeutics to mitigate cancer disparity.

Duke Scholars

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Published In

Genomics

DOI

EISSN

1089-8646

Publication Date

May 2021

Volume

113

Issue

3

Start / End Page

1234 / 1246

Location

United States

Related Subject Headings

  • Neoplasms
  • Humans
  • Genomics
  • Genetics & Heredity
  • Gene Expression Regulation, Neoplastic
  • Black or African American
  • Alternative Splicing
  • 3105 Genetics
  • 0806 Information Systems
  • 0604 Genetics
 

Citation

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Al Abo, M., Hyslop, T., Qin, X., Owzar, K., George, D. J., Patierno, S. R., & Freedman, J. A. (2021). Differential alternative RNA splicing and transcription events between tumors from African American and White patients in The Cancer Genome Atlas. Genomics, 113(3), 1234–1246. https://doi.org/10.1016/j.ygeno.2021.02.020
Al Abo, Muthana, Terry Hyslop, Xiaodi Qin, Kouros Owzar, Daniel J. George, Steven R. Patierno, and Jennifer A. Freedman. “Differential alternative RNA splicing and transcription events between tumors from African American and White patients in The Cancer Genome Atlas.Genomics 113, no. 3 (May 2021): 1234–46. https://doi.org/10.1016/j.ygeno.2021.02.020.
Al Abo M, Hyslop T, Qin X, Owzar K, George DJ, Patierno SR, et al. Differential alternative RNA splicing and transcription events between tumors from African American and White patients in The Cancer Genome Atlas. Genomics. 2021 May;113(3):1234–46.
Al Abo, Muthana, et al. “Differential alternative RNA splicing and transcription events between tumors from African American and White patients in The Cancer Genome Atlas.Genomics, vol. 113, no. 3, May 2021, pp. 1234–46. Pubmed, doi:10.1016/j.ygeno.2021.02.020.
Al Abo M, Hyslop T, Qin X, Owzar K, George DJ, Patierno SR, Freedman JA. Differential alternative RNA splicing and transcription events between tumors from African American and White patients in The Cancer Genome Atlas. Genomics. 2021 May;113(3):1234–1246.
Journal cover image

Published In

Genomics

DOI

EISSN

1089-8646

Publication Date

May 2021

Volume

113

Issue

3

Start / End Page

1234 / 1246

Location

United States

Related Subject Headings

  • Neoplasms
  • Humans
  • Genomics
  • Genetics & Heredity
  • Gene Expression Regulation, Neoplastic
  • Black or African American
  • Alternative Splicing
  • 3105 Genetics
  • 0806 Information Systems
  • 0604 Genetics