ArticlePloS one2016
Infinity: An In-Silico Tool for Genome-Wide Prediction of Specific DNA Matrices in miRNA Genomic Loci.
Article in PloS one, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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Who cites it
6 citing papers in PubMed.
- Computational approaches for identifying neuropeptides: A comprehensive review.Molecular therapy. Nucleic acids · 2025Review
- Article
- MicroRNA Databases and Tools.Methods in molecular biology (Clifton, N.J.) · 2022Article
- The animal nuclear factor Y: an enigmatic and important heterotrimeric transcription factor.American journal of cancer research · 2018Review
- Methods of MicroRNA Promoter Prediction and Transcription Factor Mediated Regulatory Network.BioMed research international · 2017Review
- Designing and Expression of Recombinant Chimeric Spike Protein from SARS-CoV-2 inIranian journal of pharmaceutical research : IJPRArticle
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Authors and funding
7 authors.
Funding
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Abstract
motivationmiRNAs are potent regulators of gene expression and modulate multiple cellular processes in physiology and pathology. Deregulation of miRNAs expression has been found in various cancer types, thus, miRNAs may be potential targets for cancer therapy. However, the mechanisms through which miRNAs are regulated in cancer remain unclear. Therefore, the identification of transcriptional factor-miRNA crosstalk is one of the most update aspects of the study of miRNAs regulation.
resultsIn the present study we describe the development of a fast and user-friendly software, named infinity, able to find the presence of DNA matrices, such as binding sequences for transcriptional factors, on ~65kb (kilobase) of 939 human miRNA genomic sequences, simultaneously. Of note, the power of this software has been validated in vivo by performing chromatin immunoprecipitation assays on a subset of new in silico identified target sequences (CCAAT) for the transcription factor NF-Y on colon cancer deregulated miRNA loci. Moreover, for the first time, we have demonstrated that NF-Y, through its CCAAT binding activity, regulates the expression of miRNA-181a, -181b, -21, -17, -130b, -301b in colon cancer cells.
conclusionsThe infinity software that we have developed is a powerful tool to underscore new TF/miRNA regulatory networks. AVAILABILITY AND IMPLEMENTATION: Infinity was implemented in pure Java using Eclipse framework, and runs on Linux and MS Windows machine, with MySQL database. The software is freely available on the web at https://github.com/bio-devel/infinity. The website is implemented in JavaScript, PHP and HTML with all major browsers supported.
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