Seven non-differentially expressed ‘dark biomarkers’ show transcriptional dysregulation in chronic lymphocytic leukemia

Author:

Xin Ruihao12,Feng Xin34ORCID,Zhang Hang2,Wang Yueying1,Duan Meiyu1,Xie Tunyang5,Dong Lin4,Yu Qiong4ORCID,Huang Lan1,Zhou Fengfeng1ORCID

Affiliation:

1. College of Computer Science and Technology & Key Laboratory of Symbolic Computation & Knowledge Engineering of Ministry of Education, Jilin University, Changchun, Jilin, 130012, China

2. College of Information & Control Engineering, Jilin Institute of Chemical Technology, Jilin, 132000, China

3. School of Science, Jilin Institute of Chemical Technology, Jilin,132000, China

4. Department of Epidemiology & Biostatistics, School of Public Health, Jilin University, Changchun, 130012, China

5. Centre for Mathematical Sciences, University of Cambridge, Wilberforce Road, Cambridge, CB3 0WA, UK

Abstract

Aim: Transcriptional regulation is actively involved in the onset and progression of various diseases. This study used the feature-engineering approach model-based quantitative transcription regulation to quantitatively measure the correlation between mRNA and transcription factors in a reference dataset of chronic lymphocytic leukemia (CLL) transcriptomes. Methods: A comprehensive investigation of transcriptional regulation changes in CLL was conducted using 973 samples in six independent datasets. Results & conclusion: Seven mRNAs were detected to have significantly differential model-based quantitative transcription regulation values but no differential expression between CLL patients and controls. We called these genes ‘dark biomarkers’ because their original expression levels did not show differential changes in the CLL patients. The overlapping lncRNAs might have contributed their transcripts to the expression miscalculations of these dark biomarkers.

Funder

Fundamental Research Funds for the Central Universities

Jilin City Science and Technology Innovation Development Program Project

Jilin Provincial Key Laboratory of Big Data Intelligent Computing

National Natural Science Foundation of China

Science and Technology Foundation of Health Commission of Guizhou Province

Science and Technology Project of Education Department of Jilin Province

Senior and Junior Technological Innovation Team

Publisher

Future Medicine Ltd

Subject

Pharmacology,Molecular Medicine,General Medicine

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