Computational pan-cancer characterization of model-based quantitative transcription regulations dysregulated in regional lymph node metastasis

Meiyu Duan; Lei Zhang; Yueying Wang; Yusi Fan; Shuai Liu; Qiong Yu; Lan Huang; Fengfeng Zhou

doi:10.1016/j.compbiomed.2021.104571

Computational pan-cancer characterization of model-based quantitative transcription regulations dysregulated in regional lymph node metastasis

Comput Biol Med. 2021 Aug:135:104571. doi: 10.1016/j.compbiomed.2021.104571. Epub 2021 Jun 16.

Authors

Meiyu Duan¹, Lei Zhang¹, Yueying Wang², Yusi Fan³, Shuai Liu¹, Qiong Yu⁴, Lan Huang¹, Fengfeng Zhou⁵

Affiliations

¹ College of Computer Science and Technology, Jilin University, Changchun, Jilin, 130012, China; Key Laboratory of Symbolic Computation and Knowledge Engineering of Ministry of Education, Jilin University, Changchun, Jilin, 130012, China.
² College of Computer Science and Technology, Jilin University, Changchun, Jilin, 130012, China; Department of Epidemiology and Biostatistics, School of Public Health, Jilin University, Changchun, Jilin Province, China; Key Laboratory of Symbolic Computation and Knowledge Engineering of Ministry of Education, Jilin University, Changchun, Jilin, 130012, China.
³ College of Software, Jilin University, Changchun, Jilin, 130012, China; Key Laboratory of Symbolic Computation and Knowledge Engineering of Ministry of Education, Jilin University, Changchun, Jilin, 130012, China.
⁴ Department of Epidemiology and Biostatistics, School of Public Health, Jilin University, Changchun, Jilin Province, China.
⁵ College of Computer Science and Technology, Jilin University, Changchun, Jilin, 130012, China; Key Laboratory of Symbolic Computation and Knowledge Engineering of Ministry of Education, Jilin University, Changchun, Jilin, 130012, China. Electronic address: FengfengZhou@gmail.com.

PMID: 34166881
DOI: 10.1016/j.compbiomed.2021.104571

Abstract

Cancer is one of the major causes of mortality worldwide. Regional lymph node metastasis is an important mechanism during the spread of human cancers, in which transcription regulation plays an essential role. This study formulated a regression-model-based quantitative transcription regulation (mqTrans) between one mRNA gene and multiple transcription factors (TFs). Computational pan-cancer screening was carried out to detect the quantitative dysregulation of transcription regulation in the regional lymph node metastasis of 18 cancer types. Only a few metastasis-dysregulated mqTrans models were shared among the cancer types. The mRNA genes of the metastasis-dysregulated mqTrans models were not differentially expressed in regional lymph node metastasis. The experimental data suggested that mqTrans technology provided a complementary approach to the evaluation of transcription regulation mechanisms and may facilitate its quantitative investigation in other phenotypes.

Keywords: Dark biomarker; Metastasis-dysregulated; Pan-cancer; Regional lymph node metastasis; Transcription regulation.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Humans
Lymph Nodes*
Lymphatic Metastasis
RNA, Messenger

Substances

RNA, Messenger