Network-based quantitative frameworks to identify pleotropic factors that influence for cardiomyopathy progression

Md Nasim Haidar, M. Babul Islam, Utpala Nanda Chowdhury, Fazlul Huq, Julian M.W. Quinn, Mohammad Ali Moni

Research output: Book chapter/Published conference paperConference paperpeer-review

1 Citation (Scopus)

Abstract

This paper presents network-based quantitative frameworks to study the complex relationship of cardiomyopathy (CMP) and risk factors that influence CMP progression in order to identify new CMP biomarkers. We analyzed gene expression microarray data from CMP affected and unaffected (control) tissues, and data from individuals with high body fat, high fat diet and type-II diabetes. We examined differentially expressed genes (DEGs) for each dataset and compared CMP with each factor pairwise to identify common DEG overlaps. In our analysis, 2589 DEGs are identified for CMP of which 1283 genes are over expressed and 1306 genes are under expressed. Protein-protein interaction (PPI) network found 10 core genes, namely SMARCA4, NCOR2 and histone genes HIST1H4K, HIST1H4I, HIST2H4B, HIST1H4H, HIST2H4A, HIST4H4, HIST1H4F and HIST1HL. Ontological and pathway analysis with this information identified significant pathways for CMP progression. The findings were validated using dbGaP (gene SNP-disease linkage) and OMIM databases for gold-standard benchmarking of their significance in disease progression. Thus, our network-based method identified a number of factors, notably histones, that may be pleiotropic influencing factors of the CMP.

Original languageEnglish
Title of host publication5th International Conference on Computer, Communication, Chemical, Materials and Electronic Engineering, IC4ME2 2019
PublisherIEEE, Institute of Electrical and Electronics Engineers
Number of pages5
ISBN (Electronic)9781728130606
ISBN (Print)9781728130613
DOIs
Publication statusPublished - Jul 2019
Event5th International Conference on Computer, Communication, Chemical, Materials and Electronic Engineering, IC4ME2 2019 - University of Rajshahi, Rajshahi, Bangladesh
Duration: 11 Jul 201912 Jul 2019
https://web.archive.org/web/20191028191905/http://dept.ru.ac.bd/ic4me2/2019/ (Wayback Machine link to conference website)
https://web.archive.org/web/20191030061438/http://dept.ru.ac.bd/ic4me2/2019/?page_id=115 (Call for papers)

Publication series

Name5th International Conference on Computer, Communication, Chemical, Materials and Electronic Engineering, IC4ME2 2019

Conference

Conference5th International Conference on Computer, Communication, Chemical, Materials and Electronic Engineering, IC4ME2 2019
Country/TerritoryBangladesh
CityRajshahi
Period11/07/1912/07/19
OtherThe International Conference on Computer, Communication, Chemical, Material and Electronic Engineering (IC4ME2-2019) will be held from July 11~12, 2019 at University of Rajshahi in Bangladesh. This conference is a sequel of our first conference ICMEIE-2015. The conference will gather world-class researchers, engineers and educators engaged in the fields of Materials, Electronics, Chemical and Information Engineering to meet and present their latest activities. The main theme of this conference is Networking and Collaboration.
Internet address

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