Frontiers in Oncology (Oct 2021)
Cancer CRC: A Comprehensive Cancer Core Transcriptional Regulatory Circuit Resource and Analysis Platform
- Ling Wei,
- Ling Wei,
- Ling Wei,
- Jiaxin Chen,
- Chao Song,
- Chao Song,
- Chao Song,
- Yuexin Zhang,
- Yimeng Zhang,
- Mingcong Xu,
- Chenchen Feng,
- Yu Gao,
- Fengcui Qian,
- Fengcui Qian,
- Fengcui Qian,
- Qiuyu Wang,
- Qiuyu Wang,
- Qiuyu Wang,
- Qiuyu Wang,
- Qiuyu Wang,
- Desi Shang,
- Desi Shang,
- Desi Shang,
- Desi Shang,
- Xinyuan Zhou,
- Jiang Zhu,
- Xiaopeng Wang,
- Yijie Jia,
- Jiaqi Liu,
- Jiaqi Liu,
- Jiaqi Liu,
- Jiaqi Liu,
- Yanbing Zhu,
- Yanbing Zhu,
- Chunquan Li,
- Chunquan Li,
- Chunquan Li,
- Chunquan Li,
- Chunquan Li,
- Chunquan Li,
- Chunquan Li
Affiliations
- Ling Wei
- School of Medical Informatics, Daqing Campus, Harbin Medical University, Daqing, China
- Ling Wei
- The First Affiliated Hospital, Institute of Cardiovascular Disease, Hengyang Medical School, University of South China, Hengyang, China
- Ling Wei
- Cardiovascular Lab of Big Data and Imaging Artificial Intelligence, The First Affiliated Hospital, Hengyang Medical School, University of South China, Hengyang, China
- Jiaxin Chen
- School of Medical Informatics, Daqing Campus, Harbin Medical University, Daqing, China
- Chao Song
- School of Medical Informatics, Daqing Campus, Harbin Medical University, Daqing, China
- Chao Song
- The First Affiliated Hospital, Institute of Cardiovascular Disease, Hengyang Medical School, University of South China, Hengyang, China
- Chao Song
- Cardiovascular Lab of Big Data and Imaging Artificial Intelligence, The First Affiliated Hospital, Hengyang Medical School, University of South China, Hengyang, China
- Yuexin Zhang
- School of Medical Informatics, Daqing Campus, Harbin Medical University, Daqing, China
- Yimeng Zhang
- School of Medical Informatics, Daqing Campus, Harbin Medical University, Daqing, China
- Mingcong Xu
- School of Medical Informatics, Daqing Campus, Harbin Medical University, Daqing, China
- Chenchen Feng
- School of Medical Informatics, Daqing Campus, Harbin Medical University, Daqing, China
- Yu Gao
- School of Medical Informatics, Daqing Campus, Harbin Medical University, Daqing, China
- Fengcui Qian
- School of Medical Informatics, Daqing Campus, Harbin Medical University, Daqing, China
- Fengcui Qian
- The First Affiliated Hospital, Institute of Cardiovascular Disease, Hengyang Medical School, University of South China, Hengyang, China
- Fengcui Qian
- Cardiovascular Lab of Big Data and Imaging Artificial Intelligence, The First Affiliated Hospital, Hengyang Medical School, University of South China, Hengyang, China
- Qiuyu Wang
- School of Medical Informatics, Daqing Campus, Harbin Medical University, Daqing, China
- Qiuyu Wang
- The First Affiliated Hospital, Institute of Cardiovascular Disease, Hengyang Medical School, University of South China, Hengyang, China
- Qiuyu Wang
- Cardiovascular Lab of Big Data and Imaging Artificial Intelligence, The First Affiliated Hospital, Hengyang Medical School, University of South China, Hengyang, China
- Qiuyu Wang
- School of Computer, University of South China, Hengyang, China
- Qiuyu Wang
- Hunan Provincial Base for Scientific and Technological Innovation Cooperation, University of South China, Hengyang, China
- Desi Shang
- The First Affiliated Hospital, Institute of Cardiovascular Disease, Hengyang Medical School, University of South China, Hengyang, China
- Desi Shang
- Cardiovascular Lab of Big Data and Imaging Artificial Intelligence, The First Affiliated Hospital, Hengyang Medical School, University of South China, Hengyang, China
- Desi Shang
- School of Computer, University of South China, Hengyang, China
- Desi Shang
- Hunan Provincial Base for Scientific and Technological Innovation Cooperation, University of South China, Hengyang, China
- Xinyuan Zhou
- School of Medical Informatics, Daqing Campus, Harbin Medical University, Daqing, China
- Jiang Zhu
- School of Medical Informatics, Daqing Campus, Harbin Medical University, Daqing, China
- Xiaopeng Wang
- School of Medical Informatics, Daqing Campus, Harbin Medical University, Daqing, China
- Yijie Jia
- School of Medical Informatics, Daqing Campus, Harbin Medical University, Daqing, China
- Jiaqi Liu
- The First Affiliated Hospital, Institute of Cardiovascular Disease, Hengyang Medical School, University of South China, Hengyang, China
- Jiaqi Liu
- Cardiovascular Lab of Big Data and Imaging Artificial Intelligence, The First Affiliated Hospital, Hengyang Medical School, University of South China, Hengyang, China
- Jiaqi Liu
- School of Computer, University of South China, Hengyang, China
- Jiaqi Liu
- Hunan Provincial Base for Scientific and Technological Innovation Cooperation, University of South China, Hengyang, China
- Yanbing Zhu
- Experimental and Translational Research Center, Beijing Friendship Hospital, Capital Medical University, Beijing, China
- Yanbing Zhu
- Beijing Clinical Research Institute, Beijing, China
- Chunquan Li
- The First Affiliated Hospital, Institute of Cardiovascular Disease, Hengyang Medical School, University of South China, Hengyang, China
- Chunquan Li
- School of Medical Informatics, Daqing Campus, Harbin Medical University, Daqing, China
- Chunquan Li
- Cardiovascular Lab of Big Data and Imaging Artificial Intelligence, The First Affiliated Hospital, Hengyang Medical School, University of South China, Hengyang, China
- Chunquan Li
- School of Computer, University of South China, Hengyang, China
- Chunquan Li
- Hunan Provincial Base for Scientific and Technological Innovation Cooperation, University of South China, Hengyang, China
- Chunquan Li
- General Surgery Department, Beijing Friendship Hospital, Capital Medical University, Beijing, China
- Chunquan Li
- Guangxi Key Laboratory of Diabetic Systems Medicine, Guilin Medical University, Guilin, China
- DOI
- https://doi.org/10.3389/fonc.2021.761700
- Journal volume & issue
-
Vol. 11
Abstract
A core transcriptional regulatory circuit (CRC) is a group of interconnected auto-regulating transcription factors (TFs) that form loops and can be identified by super-enhancers (SEs). Studies have indicated that CRCs play an important role in defining cellular identity and determining cellular fate. Additionally, core TFs in CRCs are regulators of cell-type-specific transcriptional regulation. However, a global view of CRC properties across various cancer types has not been generated. Thus, we integrated paired cancer ATAC-seq and H3K27ac ChIP-seq data for specific cell lines to develop the Cancer CRC (http://bio.liclab.net/Cancer_crc/index.html). This platform documented 94,108 cancer CRCs, including 325 core TFs. The cancer CRC also provided the “SE active core TFs analysis” and “TF enrichment analysis” tools to identify potentially key TFs in cancer. In addition, we performed a comprehensive analysis of core TFs in various cancer types to reveal conserved and cancer-specific TFs.
Keywords
- cancer
- core transcriptional regulatory circuit (CRC)
- transcription factors (TFs)
- super-enhancers (SEs)
- chromatin accessibility
