SELER: a database of super-enhancer-associated lncRNA- directed transcriptional regulation in human cancers

Database : the Journal of Biological Databases and Curation
Zhi-Wei GuoYing-Song Wu

Abstract

Super-enhancers (SEs) are enriched with a cluster of mediator binding sites, which are major contributors to cell-type-specific gene expression. Currently, a large quantity of long non-coding RNAs has been found to be transcribed from or to interact with SEs, which constitute super-enhancer associated long non-coding RNAs (SE-lncRNAs). These SE-lncRNAs play essential roles in transcriptional regulation through controlling SEs activity to regulate a broad range of physiological and pathological processes, especially tumorigenesis. However, the pathological functions of SE-lncRNAs in tumorigenesis are still obscure. In this paper, we characterized 5056 SE-lncRNAs and their associated genes by analysing 102 SE data sets. Then, we analysed their expression profiles and prognostic information derived from 19 cancer types to identify cancer-related SE-lncRNAs and to explore their potential functions. In total, 436 significantly differentially expressed SE-lncRNAs and 2035 SE-lncRNAs with high prognostic values were identified. Additionally, 3935 significant correlations between SE-lncRNAs and their regulatory genes were further validated by calculating their correlation coefficients in each cancer type. Finally, the SELER database in...Continue Reading

References

Aug 15, 2009·EMBO Reports·Julia Berretta, Antonin Morillon
Mar 2, 2011·Nature Reviews. Genetics·Chin-Tong Ong, Victor G Corces
May 3, 2012·Genome Research·Fabian A BuskeTimothy L Bailey
Sep 8, 2012·Genome Research·Jennifer HarrowTim J Hubbard
Nov 24, 2012·Nucleic Acids Research·Geng ChenQinghua Cui
Sep 3, 2013·Molecular Cell·Kambiz MousaviVittorio Sartorelli
Sep 30, 2014·Molecular Cell·Katie SchaukowitchTae-Kyung Kim
Dec 31, 2014·Nature Genetics·Sebastian Pott, Jason D Lieb
Oct 2, 2015·Journal of Molecular and Cellular Cardiology·Samir OunzainThierry Pedrazzini
Oct 7, 2015·Nucleic Acids Research·Aziz Khan, Xuegong Zhang
Apr 4, 2017·Nature Immunology·Casey D S KaterndahlMichael A Farrar

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Citations

Jun 21, 2018·The Cleft Palate-craniofacial Journal : Official Publication of the American Cleft Palate-Craniofacial Association·Claudia Resende LealDaniela Gamba Garib
Apr 13, 2020·Molecular Cancer·Yuan TanFaqing Tang
Nov 2, 2019·Nucleic Acids Research·Chuangeng ChenYan Zhang
Dec 6, 2021·Cancer Science·Hiroshi I Suzuki, Koh Onimaru

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Methods Mentioned

BETA
SELER

Software Mentioned

GENCODE
Linux
PANTHER
SELER
MySQL
Apache
Triplexator
TANRIC
dbSUPER
LAMP

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