The Transcriptional Landscape of Coding and Noncoding RNAs in Recurrent and Nonrecurrent Colon Cancer

A number of patients with colon cancer with local or local advanced disease suffer from recurrence and there is an urgent need for better prognostic biomarkers in this setting. Here, the transcriptomic landscape of mRNAs, long noncoding RNAs, snRNAs, small nucleolar RNAs (snoRNAs), small Cajal body–...

Full description

Saved in:

Bibliographic Details
Published in:	The American journal of pathology Vol. 194; no. 8; pp. 1424 - 1442
Main Authors:	Korsgaard, Ulrik, García-Rodríguez, Juan L., Jakobsen, Theresa, Ahmadov, Ulvi, Dietrich, Kim-Gwendolyn, Vissing, Stine M., Paasch, Thea P., Lindebjerg, Jan, Kjems, Jørgen, Hager, Henrik, Kristensen, Lasse S.
Format:	Journal Article
Language:	English
Published:	United States Elsevier Inc 01-08-2024
Subjects:	Biomarkers, Tumor - genetics Biomarkers, Tumor - metabolism Colonic Neoplasms - genetics Colonic Neoplasms - metabolism Colonic Neoplasms - pathology Female Gene Expression Profiling - methods Gene Expression Regulation, Neoplastic Humans Male Neoplasm Recurrence, Local - genetics Neoplasm Recurrence, Local - pathology RNA, Small Nucleolar - genetics RNA, Small Nucleolar - metabolism RNA, Untranslated - genetics Transcriptome - genetics
Online Access:	Get full text
Tags:	Add Tag No Tags, Be the first to tag this record!

Description
Summary:	A number of patients with colon cancer with local or local advanced disease suffer from recurrence and there is an urgent need for better prognostic biomarkers in this setting. Here, the transcriptomic landscape of mRNAs, long noncoding RNAs, snRNAs, small nucleolar RNAs (snoRNAs), small Cajal body–specific RNAs, pseudogenes, and circular RNAs, as well as RNAs denoted as miscellaneous RNAs, was profiled by total RNA sequencing. In addition to well-known coding and noncoding RNAs, differential expression analysis also uncovered transcripts that have not been implicated previously in colon cancer, such as RNA5SP149, RNU4-2, and SNORD3A. Moreover, there was a profound global up-regulation of snRNA pseudogenes, snoRNAs, and rRNA pseudogenes in more advanced tumors. A global down-regulation of circular RNAs in tumors relative to normal tissues was observed, although only a few were expressed differentially between tumor stages. Many previously undescribed transcripts, including RNU6-620P, RNU2-20P, VTRNA1-3, and RNA5SP60, indicated strong prognostic biomarker potential in receiver operating characteristics analyses. In summary, this study unveiled numerous differentially expressed RNAs across various classes between recurrent and nonrecurrent colon cancer. Notably, there was a significant global up-regulation of snRNA pseudogenes, snoRNAs, and rRNA pseudogenes in advanced tumors. Many of these newly discovered candidates demonstrate a strong prognostic potential for stage II colon cancer.
Bibliography:	ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23
ISSN:	0002-9440 1525-2191 1525-2191
DOI:	10.1016/j.ajpath.2024.04.003