eQTL analysis from co-localization of 2739 GWAS loci detects associated genes across 14 human cancers.
Blood Proteins
/ analysis
Genetic Predisposition to Disease
Genome-Wide Association Study
/ methods
Humans
Matrix Attachment Region Binding Proteins
/ analysis
Membrane Proteins
/ analysis
Neoplasm Staging
/ methods
Neoplasms
/ genetics
Polymorphism, Single Nucleotide
Quantitative Trait Loci
Transcription Factors
/ analysis
Cis-regulatory genes
Multiple cancers
SNPs
Stage levels
Survival events
Journal
Journal of theoretical biology
ISSN: 1095-8541
Titre abrégé: J Theor Biol
Pays: England
ID NLM: 0376342
Informations de publication
Date de publication:
07 02 2019
07 02 2019
Historique:
received:
17
04
2018
revised:
28
09
2018
accepted:
31
10
2018
pubmed:
6
11
2018
medline:
24
3
2020
entrez:
5
11
2018
Statut:
ppublish
Résumé
Genetic variants can predict other "linked" diseases because alterations in one or more genes in vivo may affect relevant phenotype properties. Our study systematically explored the pan-cancer common gene and cancer type-specific genes based on GWAS loci and TCGA data of multiple cancers. It was found that there were 17 SNPs were significantly associated with the expression of 18 genes. Associations between the 18 cis-regulatory genes and the pathologic stage of each cancer showed that MYL2 and PTGFR in HNSC, 4 genes (F8, SATB2, G6PD and UGT1A6) in KIRP, 3 genes (CHMP4C, MAP3K1 and MECP2) in LUAD were all strongly associated with cancer stage levels. Additionally, the survival association analysis showed that SATB2 was correlated with HNSC survival, and MPP1 was strongly associated with the survival of SARC. This study will shed light on the biological pathways involved in cancer-genetic associations, and has the potential to be applied to the predictions of the risk of cancers developing in healthy individuals.
Identifiants
pubmed: 30391648
pii: S0022-5193(18)30547-2
doi: 10.1016/j.jtbi.2018.10.059
pii:
doi:
Substances chimiques
Blood Proteins
0
MPP1 protein, human
0
Matrix Attachment Region Binding Proteins
0
Membrane Proteins
0
SATB2 protein, human
0
Transcription Factors
0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
240-246Informations de copyright
Copyright © 2018 Elsevier Ltd. All rights reserved.