Premium
Network‐based proteomic analysis for postmenopausal osteoporosis in Caucasian females
Author(s) -
Zhang Lan,
Liu YaoZhong,
Zeng Yong,
Zhu Wei,
Zhao YingChun,
Zhang JiGang,
Zhu JiaQiang,
He Hao,
Shen Hui,
Tian Qing,
Deng FeiYan,
Papasian Christopher J.,
Deng HongWen
Publication year - 2016
Publication title -
proteomics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.26
H-Index - 167
eISSN - 1615-9861
pISSN - 1615-9853
DOI - 10.1002/pmic.201500005
Subject(s) - proteomics , proteome , gene , transcriptome , biology , gene expression profiling , osteoporosis , menopause , annexin a2 , gene expression , quantitative proteomics , osteoclast , fold change , bioinformatics , medicine , endocrinology , annexin , genetics , cell , receptor
Menopause is one of the crucial physiological events during the life of a woman. Transition of menopause status is accompanied by increased risks of various health problems such as osteoporosis. Peripheral blood monocytes can differentiate into osteoclasts and produce cytokines important for osteoclast activity. With quantitative proteomics LC‐nano‐ESI‐MS E (where MS E is elevated‐energy MS), we performed protein expression profiling of peripheral blood monocytes in 42 postmenopausal women with discordant bone mineral density (BMD) levels. Traditional comparative analysis showed proteins encoded by four genes (LOC654188, PPIA, TAGLN2, YWHAB) and three genes (LMNB1, ANXA2P2, ANXA2) were significantly down‐ and upregulated, respectively, in extremely low‐ versus high‐BMD subjects. To study functionally orchestrating groups of detected proteins in the form of networks, we performed weighted gene coexpression network analysis and gene set enrichment analysis. Weighted gene coexpression network analysis showed that the module including the annexin gene family was most significantly correlated with low BMD, and the lipid‐binding related GO terms were enriched in this identified module. Gene set enrichment analysis revealed that two significantly enriched gene sets may be involved in postmenopausal BMD variation by regulating pro‐inflammatory cytokines activities. To gain more insights into the proteomics data generated, we performed integrative analyses of the datasets available to us at the genome (DNA level), transcriptome (RNA level), and proteome levels jointly.