Characterization of drug-induced splicing complexity in prostate cancer cell line using long read technology

Xintong Chen, Sander Houten, Kimaada Allette, Robert P. Sebra, Gustavo Stolovitzky, Bojan Losic

Research output: Contribution to journalConference articlepeer-review

4 Scopus citations

Abstract

We characterize the transcriptional splicing landscape of a prostate cancer cell line treated with a previously identified synergistic drug combination. We use a combination of third generation long-read RNA sequencing technology and short-read RNAseq to create a high-fidelity map of expressed isoforms and fusions to quantify splicing events triggered by treatment. We find strong evidence for drug-induced, coherent splicing changes which disrupt the function of oncogenic proteins, and detect novel transcripts arising from previously unreported fusion events.

Original languageEnglish
Pages (from-to)8-19
Number of pages12
JournalPacific Symposium on Biocomputing
Volume0
DOIs
StatePublished - 2018
Event23rd Pacific Symposium on Biocomputing, PSB 2018 - Kohala Coast, United States
Duration: 3 Jan 20187 Jan 2018

Keywords

  • Alternative splicing
  • Cancer
  • Combination treatment
  • Long read sequencing

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