ArticlePloS one2011
MIRTFnet: analysis of miRNA regulated transcription factors.
Article in PloS one, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed, 26 citations in OpenAlex.
- Integration of RNA molecules data with prior-knowledge driven Joint Deep Semi-Negative Matrix Factorization for heart failure study.Frontiers in genetics · 2022Article
- hsa-miR-301a- and SOX10-dependent miRNA-TF-mRNA regulatory circuits in breast cancer.Turkish journal of biology = Turk biyoloji dergisi · 2018Article
- Article
- MicroRNA and Transcription Factor: Key Players in Plant Regulatory Network.Frontiers in plant science · 2017Review
- Regulatory network analysis of genes and microRNAs in human hepatoblastoma.Oncology letters · 2016Article
- Elucidating MicroRNA Regulatory Networks Using Transcriptional, Post-transcriptional, and Histone Modification Measurements.Cell reports · 2016Article
- Construction and analysis of three networks of genes and microRNAs in adenocarcinoma.Oncology letters · 2015Article
- Network analysis of microRNAs and genes in human osteosarcoma.Experimental and therapeutic medicine · 2015Article
- miRegulome: a knowledge-base of miRNA regulomics and analysis.Scientific reports · 2015Article
- Reproducible combinatorial regulatory networks elucidate novel oncogenic microRNAs in non-small cell lung cancer.RNA (New York, N.Y.) · 2014Article
- Large-scale investigation of human TF-miRNA relations based on coexpression profiles.BioMed research international · 2014Article
- Identifying miRNAs, targets and functions.Briefings in bioinformatics · 2014Review
- Genome-wide uncovering of STAT3-mediated miRNA expression profiles in colorectal cancer cell lines.BioMed research international · 2014Article
- microRNA and gene networks in human pancreatic cancer.Oncology letters · 2013Article
- cGRNB: a web server for building combinatorial gene regulatory networks through integrated engineering of seed-matching sequence information and gene expression datasets.BMC systems biology · 2013Article
- Correlation set analysis: detecting active regulators in disease populations using prior causal knowledge.BMC bioinformatics · 2012Article
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundSeveral expression datasets of miRNA transfection experiments are available to analyze the regulatory mechanisms downstream of miRNA effects. The miRNA induced regulatory effects can be propagated via transcription factors (TFs). We propose the method MIRTFnet to identify miRNA controlled TFs as active regulators if their downstream target genes are differentially expressed. METHODOLOGY/PRINCIPAL
findingsMIRTFnet enables the determination of active transcription factors (TFs) and is sensitive enough to exploit the small expression changes induced by the activity of miRNAs. For this purpose, different statistical tests were evaluated and compared. Based on the identified TFs, databases, computational predictions and the literature we construct regulatory models downstream of miRNA actions. Transfecting miRNAs are connected to active regulators via a network of miRNA-TF, miRNA-kinase-TF as well as TF-TF relationships. Based on 43 transfection experiments involving 17 cancer relevant miRNAs we show that MIRTFnet detects active regulators reliably. CONCLUSIONS/SIGNIFICANCE: The consensus of the individual regulatory models shows that the examined miRNAs induce activity changes in a common core of transcription factors involved in cancer related processes such as proliferation or apoptosis.
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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.