Network analyses-based identification of circular ribonucleic acid-related pathways in intrahepatic cholangiocarcinoma

Tumour Biology : the Journal of the International Society for Oncodevelopmental Biology and Medicine
Anuradha MoirangthemTushar Patel

Abstract

Circular ribonucleic acids are non-coding ribonucleic acids that can be identified from genome sequencing studies. Although they can be readily detected, their regulation and functional role in human diseases such as cancer are unknown. Using a systematic approach, we analyzed ribonucleic acid-sequencing data from a well-characterized cohort of intrahepatic cholangiocarcinoma to identify genetic pathways related to circular ribonucleic acids. Although the expression of most circular ribonucleic acids was similar in both the cancer and non-cancer tissues, expression of circ2174 was significantly increased in cancer tissues. Network analysis of co-related genes identified several pathways associated with circ2174, and common regulatory mediators between genes in these pathways and circ2174. Among these, alterations in several genes involved in interleukin-16 signaling responses such Lck, interleukin-16, and macrophage inflammatory protein-1-beta were the most prominent. Octamer transcription factor (Oct)-2 was identified as a signal transducer that was common to both circ2174 and interleukin-16. Circ2174 has sequence complementarity to miR149 which can target Oct-2. These data suggest a mechanism whereby circ2174 can act as a spo...Continue Reading

References

Dec 31, 2008·BMC Bioinformatics·Peter Langfelder, Steve Horvath
Mar 6, 2009·Genome Biology·Ben LangmeadSteven L Salzberg
Dec 18, 2009·Science in China. Series C, Life Sciences·Wei XiaNingSheng Shao
Sep 15, 2010·PloS One·Morgan R DavidsonKwun M Fong
Feb 24, 2011·Current Molecular Medicine·T M WitkosW J Krzyzosiak
Aug 31, 2013·Clinical Cancer Research : an Official Journal of the American Association for Cancer Research·Christian Marin-MullerQizhi Yao
Mar 7, 2014·Frontiers in Genetics·Sarah M PetersonClare Bates Congdon
Jul 19, 2014·Cancer Research·Annabell BischoffMonilola A Olayioye
Sep 23, 2014·RNA·Petar GlažarNikolaus Rajewsky
Oct 1, 2014·Journal of Hepato-biliary-pancreatic Sciences·Hiroaki Haga, Tushar Patel
Feb 14, 2015·PLoS Computational Biology·Eric BonnetTom Michoel
May 29, 2015·Gut·Si-Meng WangDai-Ming Fan
Mar 26, 2016·Pharmacology & Therapeutics·Mansi A ParasramkaTushar Patel
Sep 20, 2016·BioMed Research International·Gui YangMingxia Yu
Jun 25, 2017·Biochimica Et Biophysica Acta. Molecular Basis of Disease·Colm J O'RourkeJesper B Andersen
Aug 8, 2017·Biochimica Et Biophysica Acta. Molecular Basis of Disease·Rocio I R MaciasJose J G Marin
Sep 14, 2017·International Journal of Molecular Sciences·Atsushi OkatoNaohiko Seki
Sep 25, 2017·Protein Science : a Publication of the Protein Society·Peter J Thul, Cecilia Lindskog

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Citations

Jul 2, 2020·Nature Reviews. Gastroenterology & Hepatology·Jesus M BanalesGregory J Gores
Sep 1, 2020·Hepatology : Official Journal of the American Association for the Study of Liver Diseases·Aude MerdrignacCédric Coulouarn
Jun 30, 2021·The Journal of International Medical Research·Fengming YiLong Feng
Oct 21, 2021··Srinivas AluruAnkit Srivastava

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Methods Mentioned

BETA
RNA-seq
PCR
exome-sequencing

Software Mentioned

cBioportal
GaneSh
LemonTree
WGCNA
R
exceRpt
Circinteractome
STAR
Bowtie aligner
Gencode

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