ArticleBMC systems biology2010
Combinatorial regulation of transcription factors and microRNAs.
Article in BMC systems biology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed, 44 citations in OpenAlex.
- GRPR-induced FAM135A expression promote perineural invasion in prostate cancer.Molecular cancer · 2025Article
- Cell-Type Specific miRNA Regulatory Network Responses to ABA Stress Revealed by Time Series Transcriptional Atlases in Arabidopsis.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
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- Burkitt lymphoma-associated network construction and important network motif analysis.Oncology letters · 2018Article
- Mechanistic Insights Into the Interaction Between Transcription Factors and Epigenetic Modifications and the Contribution to the Development of Obesity.Frontiers in endocrinology · 2018Review
- microRNA-451 protects neurons against ischemia/reperfusion injury-induced cell death by targeting CELF2.Neuropsychiatric disease and treatment · 2018Article
- Adaptive modelling of gene regulatory network using Bayesian information criterion-guided sparse regression approach.IET systems biology · 2016Article
- Integrated network analysis reveals distinct regulatory roles of transcription factors and microRNAs.RNA (New York, N.Y.) · 2016Article
- MiRNA and TF co-regulatory network analysis for the pathology and recurrence of myocardial infarction.Scientific reports · 2015Article
- Impacts of pretranscriptional DNA methylation, transcriptional transcription factor, and posttranscriptional microRNA regulations on protein evolutionary rate.Genome biology and evolution · 2014Article
- Using graphical adaptive lasso approach to construct transcription factor and microRNA's combinatorial regulatory network in breast cancer.IET systems biology · 2014Article
- Integrative identification of deregulated miRNA/TF-mediated gene regulatory loops and networks in prostate cancer.PloS one · 2014Article
- Microarray-based analysis of gene regulation by transcription factors and microRNAs in glioma.Neurological sciences : official journal of the Italian Neurological Society and of the Italian Society of Clinical Neurophysiology · 2013Article
- The impact of trans-regulation on the evolutionary rates of metazoan proteins.Nucleic acids research · 2013Article
- miRNA-transcription factor interactions: a combinatorial regulation of gene expression.Molecular genetics and genomics : MGG · 2013Review
- Integrative Approaches for microRNA Target Prediction: Combining Sequence Information and the Paired mRNA and miRNA Expression Profiles.Current bioinformatics · 2013Article
- Molecular network analysis of human microRNA targetome: from cancers to Alzheimer's disease.BioData mining · 2012Article
- AtPAN: an integrated system for reconstructing transcriptional regulatory networks in Arabidopsis thaliana.BMC genomics · 2012Article
- Discovering dysfunction of multiple microRNAs cooperation in disease by a conserved microRNA co-expression network.PloS one · 2012Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundGene regulation is a key factor in gaining a full understanding of molecular biology. Cis-regulatory modules (CRMs), consisting of multiple transcription factor binding sites, have been confirmed as the main regulators in gene expression. In recent years, a novel regulator known as microRNA (miRNA) has been found to play an important role in gene regulation. Meanwhile, transcription factor and microRNA co-regulation has been widely identified. Thus, the relationships between CRMs and microRNAs have generated interest among biologists.
resultsWe constructed new combinatorial regulatory modules based on CRMs and miRNAs. By analyzing their effect on gene expression profiles, we found that genes targeted by both CRMs and miRNAs express in a significantly similar way. Furthermore, we constructed a regulatory network composed of CRMs, miRNAs, and their target genes. Investigating its structure, we found that the feed forward loop is a significant network motif, which plays an important role in gene regulation. In addition, we further analyzed the effect of miRNAs in embryonic cells, and we found that mir-154, as well as some other miRNAs, have significant co-regulation effect with CRMs in embryonic development.
conclusionsBased on the co-regulation of CRMs and miRNAs, we constructed a novel combinatorial regulatory network which was found to play an important role in gene regulation, particularly during embryonic development.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.