Format

Send to

Choose Destination
Molecules. 2017 Sep 22;22(10). pii: E1599. doi: 10.3390/molecules22101599.

Integrative Pathway Analysis of Genes and Metabolites Reveals Metabolism Abnormal Subpathway Regions and Modules in Esophageal Squamous Cell Carcinoma.

Author information

1
Department of Medical Informatics, Daqing Campus, Harbin Medical University, Daqing 163319, China. lcqbio@163.com.
2
College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China. lcqbio@163.com.
3
Department of Medical Informatics, Daqing Campus, Harbin Medical University, Daqing 163319, China. wangqiuyu900490@163.com.
4
Department of Computer Science and Technology, Heilongjiang University, Harbin 150080, China. jiquanma@126.com.
5
Department of Computer Science and Technology, Heilongjiang University, Harbin 150080, China. 2001043@hlju.edu.cn.
6
College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China. chenxin00001@163.com.
7
College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China. yanghaixiu@ems.hrbmu.edu.cn.
8
College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China. hanjunwei@ems.hrbmu.edu.cn.

Abstract

Aberrant metabolism is one of the main driving forces in the initiation and development of ESCC. Both genes and metabolites play important roles in metabolic pathways. Integrative pathway analysis of both genes and metabolites will thus help to interpret the underlying biological phenomena. Here, we performed integrative pathway analysis of gene and metabolite profiles by analyzing six gene expression profiles and seven metabolite profiles of ESCC. Multiple known and novel subpathways associated with ESCC, such as 'beta-Alanine metabolism', were identified via the cooperative use of differential genes, differential metabolites, and their positional importance information in pathways. Furthermore, a global ESCC-Related Metabolic (ERM) network was constructed and 31 modules were identified on the basis of clustering analysis in the ERM network. We found that the three modules located just to the center regions of the ERM network-especially the core region of Module_1-primarily consisted of aldehyde dehydrogenase (ALDH) superfamily members, which contributes to the development of ESCC. For Module_4, pyruvate and the genes and metabolites in its adjacent region were clustered together, and formed a core region within the module. Several prognostic genes, including GPT, ALDH1B1, ABAT, WBSCR22 and MDH1, appeared in the three center modules of the network, suggesting that they can become potentially prognostic markers in ESCC.

KEYWORDS:

ESCC; metabolic pathway; network

PMID:
28937628
PMCID:
PMC6151487
DOI:
10.3390/molecules22101599
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for Multidisciplinary Digital Publishing Institute (MDPI) Icon for PubMed Central
Loading ...
Support Center