TY - JOUR
T1 - Characterization of drug-induced splicing complexity in prostate cancer cell line using long read technology
AU - Chen, Xintong
AU - Houten, Sander
AU - Allette, Kimaada
AU - Sebra, Robert P.
AU - Stolovitzky, Gustavo
AU - Losic, Bojan
N1 - Publisher Copyright:
© 2017 The Authors.
PY - 2018
Y1 - 2018
N2 - 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.
AB - 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.
KW - Alternative splicing
KW - Cancer
KW - Combination treatment
KW - Long read sequencing
UR - http://www.scopus.com/inward/record.url?scp=85048477284&partnerID=8YFLogxK
U2 - 10.1142/9789813235533_0002
DO - 10.1142/9789813235533_0002
M3 - Conference article
C2 - 29218865
AN - SCOPUS:85048477284
SN - 2335-6936
VL - 0
SP - 8
EP - 19
JO - Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
JF - Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
T2 - 23rd Pacific Symposium on Biocomputing, PSB 2018
Y2 - 3 January 2018 through 7 January 2018
ER -