Bioinformatics analysis of genes related to iron death in diabetic nephropathy through network and pathway levels based approaches.

Diabetic nephropathy is one of the common microvascular complications of diabetes. Iron death is a recently reported way of cell death. To explore the effects of iron death on diabetic nephropathy, iron death score of diabetic nephropathy was analyzed based on the network and pathway levels. Further...

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Autores principales:	Yaling Hu, Shuang Liu, Wenyuan Liu, Ziyuan Zhang, Yuxiang Liu, Dalin Sun, Mingyu Zhang, Jingai Fang
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/4cbd7b4df3754feb8a627d6fed0c74a3
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spelling	oai:doaj.org-article:4cbd7b4df3754feb8a627d6fed0c74a32021-12-02T20:04:21ZBioinformatics analysis of genes related to iron death in diabetic nephropathy through network and pathway levels based approaches.1932-620310.1371/journal.pone.0259436https://doaj.org/article/4cbd7b4df3754feb8a627d6fed0c74a32021-01-01T00:00:00Zhttps://doi.org/10.1371/journal.pone.0259436https://doaj.org/toc/1932-6203Diabetic nephropathy is one of the common microvascular complications of diabetes. Iron death is a recently reported way of cell death. To explore the effects of iron death on diabetic nephropathy, iron death score of diabetic nephropathy was analyzed based on the network and pathway levels. Furthermore, markers related to iron death were screened. Using RNA-seq data of diabetic nephropathy, samples were clustered uniformly and the disease was classified. Differentially expressed gene analysis was conducted on the typed disease samples, and the WGCNA algorithm was used to obtain key modules. String database was used to perform protein interaction analysis on key module genes for the selection of Hub genes. Moreover, principal component analysis method was applied to get transcription factors and non-coding genes, which interact with the Hub gene. All samples can be divided into two categories and principal component analysis shows that the two categories are significantly different. Hub genes (FPR3, C3AR1, CD14, ITGB2, RAC2 and ITGAM) related to iron death in diabetic nephropathy were obtained through gene expression differential analysis between different subtypes. Non-coding genes that interact with Hub genes, including hsa-miR-572, hsa-miR-29a-3p, hsa-miR-29b-3p, hsa-miR-208a-3p, hsa-miR-153-3p and hsa-miR-29c-3p, may be related to diabetic nephropathy. Transcription factors HIF1α, KLF4, KLF5, RUNX1, SP1, VDR and WT1 may be related to diabetic nephropathy. The above factors and Hub genes are collectively involved in the occurrence and development of diabetic nephropathy, which can be further studied in the future. Moreover, these factors and genes may be potential target for therapeutic drugs.Yaling HuShuang LiuWenyuan LiuZiyuan ZhangYuxiang LiuDalin SunMingyu ZhangJingai FangPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 16, Iss 11, p e0259436 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Yaling Hu Shuang Liu Wenyuan Liu Ziyuan Zhang Yuxiang Liu Dalin Sun Mingyu Zhang Jingai Fang Bioinformatics analysis of genes related to iron death in diabetic nephropathy through network and pathway levels based approaches.
description	Diabetic nephropathy is one of the common microvascular complications of diabetes. Iron death is a recently reported way of cell death. To explore the effects of iron death on diabetic nephropathy, iron death score of diabetic nephropathy was analyzed based on the network and pathway levels. Furthermore, markers related to iron death were screened. Using RNA-seq data of diabetic nephropathy, samples were clustered uniformly and the disease was classified. Differentially expressed gene analysis was conducted on the typed disease samples, and the WGCNA algorithm was used to obtain key modules. String database was used to perform protein interaction analysis on key module genes for the selection of Hub genes. Moreover, principal component analysis method was applied to get transcription factors and non-coding genes, which interact with the Hub gene. All samples can be divided into two categories and principal component analysis shows that the two categories are significantly different. Hub genes (FPR3, C3AR1, CD14, ITGB2, RAC2 and ITGAM) related to iron death in diabetic nephropathy were obtained through gene expression differential analysis between different subtypes. Non-coding genes that interact with Hub genes, including hsa-miR-572, hsa-miR-29a-3p, hsa-miR-29b-3p, hsa-miR-208a-3p, hsa-miR-153-3p and hsa-miR-29c-3p, may be related to diabetic nephropathy. Transcription factors HIF1α, KLF4, KLF5, RUNX1, SP1, VDR and WT1 may be related to diabetic nephropathy. The above factors and Hub genes are collectively involved in the occurrence and development of diabetic nephropathy, which can be further studied in the future. Moreover, these factors and genes may be potential target for therapeutic drugs.
format	article
author	Yaling Hu Shuang Liu Wenyuan Liu Ziyuan Zhang Yuxiang Liu Dalin Sun Mingyu Zhang Jingai Fang
author_facet	Yaling Hu Shuang Liu Wenyuan Liu Ziyuan Zhang Yuxiang Liu Dalin Sun Mingyu Zhang Jingai Fang
author_sort	Yaling Hu
title	Bioinformatics analysis of genes related to iron death in diabetic nephropathy through network and pathway levels based approaches.
title_short	Bioinformatics analysis of genes related to iron death in diabetic nephropathy through network and pathway levels based approaches.
title_full	Bioinformatics analysis of genes related to iron death in diabetic nephropathy through network and pathway levels based approaches.
title_fullStr	Bioinformatics analysis of genes related to iron death in diabetic nephropathy through network and pathway levels based approaches.
title_full_unstemmed	Bioinformatics analysis of genes related to iron death in diabetic nephropathy through network and pathway levels based approaches.
title_sort	bioinformatics analysis of genes related to iron death in diabetic nephropathy through network and pathway levels based approaches.
publisher	Public Library of Science (PLoS)
publishDate	2021
url	https://doaj.org/article/4cbd7b4df3754feb8a627d6fed0c74a3
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_version_	1718375599331868672

Bioinformatics analysis of genes related to iron death in diabetic nephropathy through network and pathway levels based approaches.

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