Bioinformatics Analysis of Transcriptomic Data Reveals Refined Functional Networks for the Self-Renewal of Mouse Spermatogonial Stem Cells
Joint Authors
Wang, Min
Chen, Daozhen
Zhou, Tao
Zhao, Wene
Wang, Fuqiang
Ling, Xiufeng
Wang, Ying
Source
Issue
Vol. 2018, Issue 2018 (31 Dec. 2018), pp.1-9, 9 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2018-07-08
Country of Publication
Egypt
No. of Pages
9
Abstract EN
Spermatogonial stem cells (SSCs) are exquisitely regulated to reach a balance between proliferation and differentiation in the niche of seminiferous epithelium.
Several extrinsic factors such as GDNF are reported to switch the transition, activating various intrinsic signaling pathways.
Transcriptomics analysis could provide a comprehensive landscape of gene expression and regulation.
Here, we reanalyzed a previously published transcriptome of two cell types (standing for self-renewing and differentiating SSCs correspondingly).
First, we proposed a new parameter, the expression index, to sort the genes considering both absolute and relative expression levels.
Using a dynamic statistical model, we identified a list of 1119 candidate genes for SSC self-renewal with the best enrichment of canonical markers.
Finally, based on interaction relations, we further optimized the list and constructed a refined network containing integrated information of interactions, expression alternations, biological functions, and disease associations.
Further annotation of the 521 refined genes involved in the network revealed an enrichment of well-studied signaling pathways.
We believe that the refined network could help us better understand the regulation of SSCs’ fates, as well as find novel regulators or targets for SSC self-renewal or preservation of male fertility.
American Psychological Association (APA)
Wang, Min& Zhao, Wene& Wang, Fuqiang& Ling, Xiufeng& Chen, Daozhen& Zhou, Tao…[et al.]. 2018. Bioinformatics Analysis of Transcriptomic Data Reveals Refined Functional Networks for the Self-Renewal of Mouse Spermatogonial Stem Cells. Stem Cells International،Vol. 2018, no. 2018, pp.1-9.
https://search.emarefa.net/detail/BIM-1213484
Modern Language Association (MLA)
Wang, Min…[et al.]. Bioinformatics Analysis of Transcriptomic Data Reveals Refined Functional Networks for the Self-Renewal of Mouse Spermatogonial Stem Cells. Stem Cells International No. 2018 (2018), pp.1-9.
https://search.emarefa.net/detail/BIM-1213484
American Medical Association (AMA)
Wang, Min& Zhao, Wene& Wang, Fuqiang& Ling, Xiufeng& Chen, Daozhen& Zhou, Tao…[et al.]. Bioinformatics Analysis of Transcriptomic Data Reveals Refined Functional Networks for the Self-Renewal of Mouse Spermatogonial Stem Cells. Stem Cells International. 2018. Vol. 2018, no. 2018, pp.1-9.
https://search.emarefa.net/detail/BIM-1213484
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-1213484