Analysis of long noncoding RNAs for acute rejection and graft outcome in kidney transplant biopsies

Biomarkers in Medicine
You ZouRong Liu

Abstract

To analyse long noncoding RNAs (lncRNA) in kidney transplant biopsies. Using a data mining approach, we constructed expression profiles in kidney transplant cohorts (n = 1105) from Gene Expression Omnibus. Integrative analysis of the lncRNAs with acute rejection (AR), T-cell-mediated acute rejection (TCMR) and graft loss were performed. Six lncRNAs were identified as are associated with AR in the training and validating datasets, and with a risk score was generated with 3-lncRNAs that were predictive of graft loss (AUC = 0.73). MIR155HG is associated with AR, TCMR and graft loss. Plus it might be involved in several graft rejection and immune associated pathways. Understanding the role of lncRNAs in AR and graft outcome in kidney transplant biopsies needs to be further investigated.

References

Nov 13, 2001·Kidney International·P N FurnessUNKNOWN Convergence of European Renal Transplant Pathology Assessment Procedures (CERTPAP) Project
Jul 6, 2005·American Journal of Transplantation : Official Journal of the American Society of Transplantation and the American Society of Transplant Surgeons·Anke SchwarzHermann Haller
May 19, 2007·Science·Philipp KapranovThomas R Gingeras
Aug 14, 2008·Bioinformatics·Hui Jiang, Wing Hung Wong
May 27, 2010·The Journal of Clinical Investigation·Gunilla EineckePhilip F Halloran
Aug 6, 2011·BMC Bioinformatics·Jeremy A MillerSteve Horvath
Oct 12, 2011·Clinical Rheumatology·Gang WangCheuk-Chun Szeto
Nov 17, 2011·Nucleic Acids Research·Paul FlicekStephen M J Searle
Sep 8, 2012·Genome Research·Jennifer HarrowTim J Hubbard
Jan 30, 2013·American Journal of Transplantation : Official Journal of the American Society of Transplantation and the American Society of Transplant Surgeons·J ReeveP F Halloran
Jun 4, 2013·Nature Structural & Molecular Biology·Zhou DuX Shirley Liu
Jul 6, 2013·Cell·Igor Ulitsky, David P Bartel
Aug 7, 2013·American Journal of Transplantation : Official Journal of the American Society of Transplantation and the American Society of Transplant Surgeons·P F HalloranJ Reeve
Apr 26, 2015·The Journal of Immunology : Official Journal of the American Association of Immunologists·Qian XinQiji Liu
May 2, 2015·European Journal of Immunology·Fei LiuYayi Hou
Dec 18, 2015·The Journal of Neuroscience : the Official Journal of the Society for Neuroscience·Marcin P MyckoKrzysztof W Selmaj
Mar 5, 2016·Cellular and Molecular Life Sciences : CMLS·Lucien P Garo, Gopal Murugaiyan
Jun 25, 2016·Database : the Journal of Biological Databases and Curation·Bronwen L AkenStephen M J Searle
Nov 28, 2017·Cellular Physiology and Biochemistry : International Journal of Experimental Cellular Physiology, Biochemistry, and Pharmacology·Yu-Zheng GeRui-Peng Jia

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Datasets Mentioned

BETA
AB209021
GSE36059
GSE48581
GSE21374

Methods Mentioned

BETA
biopsy
biopsies

Software Mentioned

LncRNA
R package ROCR
R
EnrichmentMap Plug - in of
affy R Bioconductor
survivalROC
Ensemble
GENCODE
SeqMap
Cytoscape

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