Cargando…

Regulatory patterns analysis of transcription factor binding site clustered regions and identification of key genes in endometrial cancer

Endometrial cancer (EC) is one of the three fatal tumors of the female reproductive system. Epigenetic alterations have been reported to be important in tumorigenesis, especially the chromatin accessibility changes and transcription factor binding differences. However, the regulatory mechanism under...

Descripción completa

Detalles Bibliográficos
Autores principales: Tang, Xiaohan, Wang, Junting, Tao, Huan, Yuan, Lin, Du, Guifang, Ding, Yang, Xu, Kang, Bai, Xuemei, Li, Yaru, Sun, Yu, Huang, Xin, Zheng, Xiushuang, Li, Qianqian, Gong, Bowen, Zheng, Yang, Xu, Jingxuan, Xu, Xiang, Wang, Zhe, Bo, Xiaochen, Lu, Meisong, Li, Hao, Chen, Hebing
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Research Network of Computational and Structural Biotechnology 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8844752/
https://www.ncbi.nlm.nih.gov/pubmed/35222842
http://dx.doi.org/10.1016/j.csbj.2022.01.014
_version_ 1784651537199398912
author Tang, Xiaohan
Wang, Junting
Tao, Huan
Yuan, Lin
Du, Guifang
Ding, Yang
Xu, Kang
Bai, Xuemei
Li, Yaru
Sun, Yu
Huang, Xin
Zheng, Xiushuang
Li, Qianqian
Gong, Bowen
Zheng, Yang
Xu, Jingxuan
Xu, Xiang
Wang, Zhe
Bo, Xiaochen
Lu, Meisong
Li, Hao
Chen, Hebing
author_facet Tang, Xiaohan
Wang, Junting
Tao, Huan
Yuan, Lin
Du, Guifang
Ding, Yang
Xu, Kang
Bai, Xuemei
Li, Yaru
Sun, Yu
Huang, Xin
Zheng, Xiushuang
Li, Qianqian
Gong, Bowen
Zheng, Yang
Xu, Jingxuan
Xu, Xiang
Wang, Zhe
Bo, Xiaochen
Lu, Meisong
Li, Hao
Chen, Hebing
author_sort Tang, Xiaohan
collection PubMed
description Endometrial cancer (EC) is one of the three fatal tumors of the female reproductive system. Epigenetic alterations have been reported to be important in tumorigenesis, especially the chromatin accessibility changes and transcription factor binding differences. However, the regulatory mechanism underlying epigenetic alterations in EC development remains unclear. Here, we identified and characterized transcription factor binding site clustered regions (TFCRs) by integrating chromatin accessibility and transcription factor binding information. We totally identified 78,820 TFCRs and explored the relationship between TFCRs and regulatory elements, gene expression and mutation. Finally, we constructed a bioinformatic framework to identify candidate oncogenes and screened 13 candidate key genes, which may serve as potential diagnostic markers or therapeutic targets of EC.
format Online
Article
Text
id pubmed-8844752
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher Research Network of Computational and Structural Biotechnology
record_format MEDLINE/PubMed
spelling pubmed-88447522022-02-25 Regulatory patterns analysis of transcription factor binding site clustered regions and identification of key genes in endometrial cancer Tang, Xiaohan Wang, Junting Tao, Huan Yuan, Lin Du, Guifang Ding, Yang Xu, Kang Bai, Xuemei Li, Yaru Sun, Yu Huang, Xin Zheng, Xiushuang Li, Qianqian Gong, Bowen Zheng, Yang Xu, Jingxuan Xu, Xiang Wang, Zhe Bo, Xiaochen Lu, Meisong Li, Hao Chen, Hebing Comput Struct Biotechnol J Research Article Endometrial cancer (EC) is one of the three fatal tumors of the female reproductive system. Epigenetic alterations have been reported to be important in tumorigenesis, especially the chromatin accessibility changes and transcription factor binding differences. However, the regulatory mechanism underlying epigenetic alterations in EC development remains unclear. Here, we identified and characterized transcription factor binding site clustered regions (TFCRs) by integrating chromatin accessibility and transcription factor binding information. We totally identified 78,820 TFCRs and explored the relationship between TFCRs and regulatory elements, gene expression and mutation. Finally, we constructed a bioinformatic framework to identify candidate oncogenes and screened 13 candidate key genes, which may serve as potential diagnostic markers or therapeutic targets of EC. Research Network of Computational and Structural Biotechnology 2022-01-20 /pmc/articles/PMC8844752/ /pubmed/35222842 http://dx.doi.org/10.1016/j.csbj.2022.01.014 Text en © 2022 The Authors https://creativecommons.org/licenses/by-nc-nd/4.0/This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
spellingShingle Research Article
Tang, Xiaohan
Wang, Junting
Tao, Huan
Yuan, Lin
Du, Guifang
Ding, Yang
Xu, Kang
Bai, Xuemei
Li, Yaru
Sun, Yu
Huang, Xin
Zheng, Xiushuang
Li, Qianqian
Gong, Bowen
Zheng, Yang
Xu, Jingxuan
Xu, Xiang
Wang, Zhe
Bo, Xiaochen
Lu, Meisong
Li, Hao
Chen, Hebing
Regulatory patterns analysis of transcription factor binding site clustered regions and identification of key genes in endometrial cancer
title Regulatory patterns analysis of transcription factor binding site clustered regions and identification of key genes in endometrial cancer
title_full Regulatory patterns analysis of transcription factor binding site clustered regions and identification of key genes in endometrial cancer
title_fullStr Regulatory patterns analysis of transcription factor binding site clustered regions and identification of key genes in endometrial cancer
title_full_unstemmed Regulatory patterns analysis of transcription factor binding site clustered regions and identification of key genes in endometrial cancer
title_short Regulatory patterns analysis of transcription factor binding site clustered regions and identification of key genes in endometrial cancer
title_sort regulatory patterns analysis of transcription factor binding site clustered regions and identification of key genes in endometrial cancer
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8844752/
https://www.ncbi.nlm.nih.gov/pubmed/35222842
http://dx.doi.org/10.1016/j.csbj.2022.01.014
work_keys_str_mv AT tangxiaohan regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT wangjunting regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT taohuan regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT yuanlin regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT duguifang regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT dingyang regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT xukang regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT baixuemei regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT liyaru regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT sunyu regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT huangxin regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT zhengxiushuang regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT liqianqian regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT gongbowen regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT zhengyang regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT xujingxuan regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT xuxiang regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT wangzhe regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT boxiaochen regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT lumeisong regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT lihao regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer
AT chenhebing regulatorypatternsanalysisoftranscriptionfactorbindingsiteclusteredregionsandidentificationofkeygenesinendometrialcancer