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Effects of high fat medium conditions on cellular gene expression profile: a network analysis approach

AIM: This study aimed to evaluate high fat medium (HFM) effect on the gene expression profile of human Sk-hep1 cells and to determine critical differential proteins. BACKGROUND: There is a correlation between high fat diet (HFD), obesity, and non-alcoholic fatty liver disease. Despite wide range of...

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Autores principales: Asadzadeh-Aghdaei, Hamid, Zadeh-Esmaeel, Mohammad-Mehdi, Esmaeili, Somayeh, Rezaei Tavirani, Mostafa, Rezaei Tavirani, Sina, Mansouri, Vahid, Montazer, Fatemeh
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Shaheed Beheshti University of Medical Sciences 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7011064/
https://www.ncbi.nlm.nih.gov/pubmed/32099613
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author Asadzadeh-Aghdaei, Hamid
Zadeh-Esmaeel, Mohammad-Mehdi
Esmaeili, Somayeh
Rezaei Tavirani, Mostafa
Rezaei Tavirani, Sina
Mansouri, Vahid
Montazer, Fatemeh
author_facet Asadzadeh-Aghdaei, Hamid
Zadeh-Esmaeel, Mohammad-Mehdi
Esmaeili, Somayeh
Rezaei Tavirani, Mostafa
Rezaei Tavirani, Sina
Mansouri, Vahid
Montazer, Fatemeh
author_sort Asadzadeh-Aghdaei, Hamid
collection PubMed
description AIM: This study aimed to evaluate high fat medium (HFM) effect on the gene expression profile of human Sk-hep1 cells and to determine critical differential proteins. BACKGROUND: There is a correlation between high fat diet (HFD), obesity, and non-alcoholic fatty liver disease. Despite wide range of investigations, understanding molecular mechanism of HFD effect on onset and progression of NAFLD warrants further examination. In this study, network analysis is applied to obtain a clear perspective about HFD effects and NAFLD. METHODS: Gene expression profiles of human Sk-hep1 cells treated with HFM versus controls were extracted from GEO. Data were analyzed by GEO2R where the significant and characterized DEGs were included in the PPI network. The top 10 nodes of query DEGs based on four centrality parameters were selected to determine central nodes. The common hub nodes with at least other one central group were identified as central nodes. Action map was provided for the introduced central nodes. RESULTS: Heterogeneous nuclear ribonucleoprotein family including A1, A2/B1, D, R, and D-like, and five proteins (PRPF40A, SRSF1, PCF11, LSM8, and HSP90AA1) were introduced as differential proteins. CONCLUSION: mRNA processing and several biological terms including hypoxia and oxidative stress, apoptosis, regulation of cell morphology and cytoskeletal organization, and differentiation of micro tubes were introduced as dysregulated terms under HFM condition.
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spelling pubmed-70110642020-02-25 Effects of high fat medium conditions on cellular gene expression profile: a network analysis approach Asadzadeh-Aghdaei, Hamid Zadeh-Esmaeel, Mohammad-Mehdi Esmaeili, Somayeh Rezaei Tavirani, Mostafa Rezaei Tavirani, Sina Mansouri, Vahid Montazer, Fatemeh Gastroenterol Hepatol Bed Bench Original Article AIM: This study aimed to evaluate high fat medium (HFM) effect on the gene expression profile of human Sk-hep1 cells and to determine critical differential proteins. BACKGROUND: There is a correlation between high fat diet (HFD), obesity, and non-alcoholic fatty liver disease. Despite wide range of investigations, understanding molecular mechanism of HFD effect on onset and progression of NAFLD warrants further examination. In this study, network analysis is applied to obtain a clear perspective about HFD effects and NAFLD. METHODS: Gene expression profiles of human Sk-hep1 cells treated with HFM versus controls were extracted from GEO. Data were analyzed by GEO2R where the significant and characterized DEGs were included in the PPI network. The top 10 nodes of query DEGs based on four centrality parameters were selected to determine central nodes. The common hub nodes with at least other one central group were identified as central nodes. Action map was provided for the introduced central nodes. RESULTS: Heterogeneous nuclear ribonucleoprotein family including A1, A2/B1, D, R, and D-like, and five proteins (PRPF40A, SRSF1, PCF11, LSM8, and HSP90AA1) were introduced as differential proteins. CONCLUSION: mRNA processing and several biological terms including hypoxia and oxidative stress, apoptosis, regulation of cell morphology and cytoskeletal organization, and differentiation of micro tubes were introduced as dysregulated terms under HFM condition. Shaheed Beheshti University of Medical Sciences 2019 /pmc/articles/PMC7011064/ /pubmed/32099613 Text en ©2019 RIGLD This is an Open Access article distributed under the terms of the Creative Commons Attribution License, (http://creativecommons.org/licenses/by/3.0/) which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Original Article
Asadzadeh-Aghdaei, Hamid
Zadeh-Esmaeel, Mohammad-Mehdi
Esmaeili, Somayeh
Rezaei Tavirani, Mostafa
Rezaei Tavirani, Sina
Mansouri, Vahid
Montazer, Fatemeh
Effects of high fat medium conditions on cellular gene expression profile: a network analysis approach
title Effects of high fat medium conditions on cellular gene expression profile: a network analysis approach
title_full Effects of high fat medium conditions on cellular gene expression profile: a network analysis approach
title_fullStr Effects of high fat medium conditions on cellular gene expression profile: a network analysis approach
title_full_unstemmed Effects of high fat medium conditions on cellular gene expression profile: a network analysis approach
title_short Effects of high fat medium conditions on cellular gene expression profile: a network analysis approach
title_sort effects of high fat medium conditions on cellular gene expression profile: a network analysis approach
topic Original Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7011064/
https://www.ncbi.nlm.nih.gov/pubmed/32099613
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