Detailed Information

Cited 0 time in webofscience Cited 0 time in scopus
Metadata Downloads

Analysis of cross-association between mRNA expression and RNAi efficacy for predictive target discovery in colon cancers

Authors
Jeong, EunaLee, YejinKim, YoungjuLee, JieunYoon, Suk Joon
Issue Date
Nov-2020
Publisher
MDPI
Keywords
Anticancer targets; Biomarkers; CRISPR; Gene expression; Precisionmedicine; shRNAscreening
Citation
Cancers, v.12, no.11, pp 1 - 13
Pages
13
Journal Title
Cancers
Volume
12
Number
11
Start Page
1
End Page
13
URI
https://scholarworks.sookmyung.ac.kr/handle/2020.sw.sookmyung/1060
DOI
10.3390/cancers12113091
ISSN
2072-6694
2072-6694
Abstract
The availability of large-scale, collateral mRNA expression and RNAi data from diverse cancer cell types provides useful resources for the discovery of anticancer targets for which inhibitory efficacy can be predicted from gene expression. Here, we calculated bidirectional cross-association scores (predictivity and descriptivity) for each of approximately 18, 000 genes identified from mRNA and RNAi (i.e., shRNA and sgRNA) data from colon cancer cell lines. The predictivity score measures the difference in RNAi efficacy between cell lines with high vs. low expression of the target gene, while the descriptivity score measures the differential mRNA expression between groups of cell lines exhibiting high vs. low RNAi efficacy. The mRNA expression of 90 and 74 genes showed significant (p < 0.01) cross-association scores with the shRNA and sgRNA data, respectively. The genes were found to be from diverse molecular classes and have different functions. Cross-association scores for the mRNA expression of six genes (CHAF1B, HNF1B, HTATSF1, IRS2, POLR2B and SATB2) with both shRNA and sgRNA efficacy were significant. These genes were interconnected in cancer-related transcriptional networks. Additional experimental validation confirmed that siHNF1B efficacy is correlated with HNF1B mRNA expression levels in diverse colon cancer cell lines. Furthermore, KIF26A and ZIC2 gene expression, with which shRNA efficacy displayed significant scores, were found to correlate with the survival rate from colon cancer patient data. This study demonstrates that bidirectional predictivity and descriptivity calculations between mRNA and RNAi data serve as useful resources for the discovery of predictive anticancer targets. © 2020 by the authors.
Files in This Item
Go to Link
Appears in
Collections
이과대학 > 생명시스템학부 > 1. Journal Articles

qrcode

Items in ScholarWorks are protected by copyright, with all rights reserved, unless otherwise indicated.

Related Researcher

Researcher Yoon, Suk Joon photo

Yoon, Suk Joon
이과대학 (생명시스템학부)
Read more

Altmetrics

Total Views & Downloads

BROWSE