Development and Interpretation of a Genomic Instability Derived lncRNAs Based Risk Signature as a Predictor of Prognosis for Clear Cell Renal Cell Carcinoma Patients.

Frontiers in Oncology
Huiying YangHua Li

Abstract

Clear cell renal cell carcinoma (ccRCC) is a kind of frequently diagnosed cancer, leading to high death rate in patients. Genomic instability (GI) is regarded as playing indispensable roles in tumorigenesis and impacting the prognosis of patients. The aberrant regulation of long non-coding RNAs (lncRNAs) is a main cause of GI. We combined the somatic mutation profiles and expression profiles to identify GI derived lncRNAs (GID-lncRNAs) in ccRCC and developed a GID-lncRNAs based risk signature for prognosis prediction and medication guidance. We decided cases with top 25% cumulative number of somatic mutations as genomically unstable (GU) group and last 25% as genomically stable (GS) group, and identified differentially expressed lncRNAs (GID-lncRNAs) between two groups. Then we developed the risk signature with all overall survival related GID-lncRNAs with least absolute shrinkage and selection operator (LASSO) Cox regression. The functions of the GID-lncRNAs were partly interpreted by enrichment analysis. We finally validated the effectiveness of the risk signature in prognosis prediction and medication guidance. We developed a seven-lncRNAs (LINC00460, AL139351.1, AC156455.1, AL035446.1, LINC02471, AC022509.2, and LINC01606) ...Continue Reading

References

Dec 10, 1998·Nucleic Acids Research·H OgataM Kanehisa
Feb 24, 2010·Nature Reviews. Molecular Cell Biology·Simona NegriniThanos D Halazonetis
Mar 30, 2012·Omics : a Journal of Integrative Biology·Guangchuang YuQing-Yu He
May 11, 2013·British Journal of Cancer·S W CheethamM E Dinger
Jun 25, 2013·Nature·UNKNOWN Cancer Genome Atlas Research Network
Sep 21, 2013·Nature·Rebecca A BurrellCharles Swanton
Jan 22, 2015·Nucleic Acids Research·Matthew E RitchieGordon K Smyth
Nov 10, 2015·The Journal of Clinical Investigation·Beatrice RondinelliGiovanni Tonon
Feb 11, 2016·Trends in Genetics : TIG·Darío G LupiáñezStefan Mundlos
Mar 10, 2017·Nature Reviews. Disease Primers·James J HsiehVincenzo Ficarra
Nov 1, 2017·Genome Biology·Francesco P MarcheseMaite Huarte
Dec 25, 2017·Trends in Cell Biology·Chunru Lin, Liuqing Yang
Jun 16, 2018·Biomedicine & Pharmacotherapy = Biomédecine & Pharmacothérapie·Hongshun XingPeng Sun
Aug 25, 2018·Molecular Cancer·Ming YiKongming Wu
Oct 21, 2018·Genome Research·Anand MayakondaH Phillip Koeffler
Jan 27, 2019·Current Opinion in Cell Biology·Tatsuro Yamamoto, Noriko Saitoh
Mar 14, 2019·Cancer Management and Research·Yueyan ZhangYong Zhang
Mar 26, 2019·Cancer Biomarkers : Section a of Disease Markers·Shuhua ZhangHongrong Guo
Apr 29, 2020·Clinical Cancer Research : an Official Journal of the American Association for Cancer Research·Paymaneh D MalihiAmado J Zurita

❮ Previous
Next ❯

Citations

Nov 2, 2021·European Archives of Oto-rhino-laryngology : Official Journal of the European Federation of Oto-Rhino-Laryngological Societies (EUFOS) : Affiliated with the German Society for Oto-Rhino-Laryngology - Head and Neck Surgery·Yanan ShanZhihua Yin

❮ Previous
Next ❯

Software Mentioned

limma
maftools R package
LASSO
clusterProfiler R package
R
survivalROC R

Related Concepts

Related Feeds

Adenocarcinoma, Clear Cell

Clear Cell Adenocarcinoma is a tumor that arises in the female genital tract and is characterized by cells that appear clear under the microscope. Discover the latest research here.