Genome-wide association pathway analysis to identify candidate single nucleotide polymorphisms and molecular pathways associated with TP53 expression status in HBV-related hepatocellular carcinoma

Cancer Management and Research
Xiwen LiaoTao Peng

Abstract

The aim of this investigation was to identify candidate single nucleotide polymorphisms (SNPs) and molecular pathways associated with tumor protein p53 (TP53) expression status in hepatitis B virus (HBV)-related hepatocellular carcinoma (HCC), clarify their potential mechanisms, and generate SNP-to-gene to pathway hypothesis. Identify candidate Causal SNPs and Pathways (ICSNPathway) was used to perform pathway analysis based on the results of our previous genome-wide association study of TP53 expression status in 387 HBV-related HCC patients. Through the ICSNPathway analysis, we identified 18 candidate SNPs and 10 candidate pathways that are associated with TP53 expression status in HBV-related HCC. The strongest mechanism involved the modulation of major histocompatibility complex, class II, DP beta 1 (human leukocyte antigen [HLA]-DPB1-rs1042153), major histocompatibility complex, class II, DQ beta 1 (HLA-DQB1-rs1130399, HLA-DQB1-rs1049056, HLA-DQB1-rs1049059, and HLA-DQB1-rs1049060), and major histocompatibility complex, class II, DR beta 1 (HLA-DRB1-rs35445101). SNPs consequently affected regulatory roles in all the candidate pathways except hematopoietic cell lineage pathways. Association analysis using the GSE14520 data s...Continue Reading

Citations

Feb 13, 2020·Molecular Genetics and Genomics : MGG·Baiqiang LiangXiao Zhu

❮ Previous
Next ❯

Datasets Mentioned

BETA
GSE14520

Methods Mentioned

BETA
genotyping
chip

Software Mentioned

SPSS
ICSNPathway
SNAP
STRING
GeneMANIA Tool for the
Haploview
GeneMANIA

Related Concepts

Related Feeds

Carcinoma, Hepatocellular

Hepatocellular Carcinoma is a malignant cancer in liver epithelial cells. Discover the latest research on Hepatocellular Carcinoma here.

Related Papers

Hepatology : Official Journal of the American Association for the Study of Liver Diseases
Chibo Liu
Neurological Sciences : Official Journal of the Italian Neurological Society and of the Italian Society of Clinical Neurophysiology
Young Ho Lee, Gwan Gyu Song
Journal of Molecular Neuroscience : MN
Gwan Gyu SongYoung Ho Lee
© 2022 Meta ULC. All rights reserved