miRWalk - Database: Prediction of possible miRNA binding sites by walking the genes of three genomes
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TLDR
The miRWalk database as mentioned in this paper is a comprehensive database on miRNAs, which hosts predicted as well as validated miRNA binding sites, information on all known genes of human, mouse and rat.About:
This article is published in Journal of Biomedical Informatics.The article was published on 2011-10-01 and is currently open access. It has received 1603 citations till now. The article focuses on the topics: MiRNA binding & Untranslated region.read more
Citations
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Journal ArticleDOI
Differential Expression of microRNAs in Peripheral Blood Mononuclear Cells Identifies Autophagy and TGF-Beta-Related Signatures Aberrantly Expressed in Inflammatory Bowel Disease.
Aylia Mohammadi,Orlaith B Kelly,Orlaith B Kelly,Melissa Filice,Boyko Kabakchiev,Michelle I. Smith,Mark S. Silverberg,Mark S. Silverberg +7 more
TL;DR: unique miRNA signatures expressed in distinct IBD phenotypes are identified, revealing possible mechanisms underlying the pathophysiology of IBD, but also suggest a cluster of miRNAs as readily accessible biomarkers to aid in differential diagnosis.
Journal ArticleDOI
Impact of gestational chronodisruption on fetal cardiac genomics
Hugo A. Galdames,Claudia Torres-Farfan,Carlos Spichiger,Natalia Mendez,Lorena Abarzua-Catalan,Pamela Alonso-Vazquez,Hans Richter +6 more
TL;DR: The dysregulation of a relevant fraction of the fetal cardiac transcriptome, together with the diversity and complexity of the gene networks altered by gestational chronodisruption, suggest enduring molecular changes which may shape the hypertrophy observed in the left ventricle of adult LL offspring.
Book ChapterDOI
Investigating miRNA-lncRNA Interactions: Computational Tools and Resources.
Dario Veneziano,Gioacchino P Marceca,Gioacchino P Marceca,Sebastiano Di Bella,Giovanni Nigita,Rosario Distefano,Carlo M. Croce +6 more
TL;DR: The present chapter aims to provide a brief update on the actual biomedical relevance of ceRNAs, together with a summary of resources, tools, and practical examples of their application to aid researchers in the discovery and further elucidation of lncRNA-miRNA interactions.
Journal ArticleDOI
MicroRNA 27a-3p Regulates Antimicrobial Responses of Murine Macrophages Infected by Mycobacterium avium subspecies paratuberculosis by Targeting Interleukin-10 and TGF-β-Activated Protein Kinase 1 Binding Protein 2.
Tariq Hussain,Deming Zhao,Syed Zahid Ali Shah,Jie Wang,Ruichao Yue,Yi Liao,Naveed Sabir,Lifeng Yang,Xiangmei Zhou +8 more
TL;DR: It is found that miR-27a regulates protective innate immune responses during MAP infection and can be exploited as a novel therapeutic target in the control of intracellular pathogens, including paratuberculosis.
Journal ArticleDOI
Paternal Benzo[a]pyrene Exposure Affects Gene Expression in the Early Developing Mouse Embryo
TL;DR: It is found that paternal B[a]P exposure altered the expression of numerous genes in the developing embryo especially at the blastocyst stage, and some genes were also affected at earlier developmental stages.
References
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Journal ArticleDOI
MicroRNAs: Genomics, Biogenesis, Mechanism, and Function
TL;DR: Although they escaped notice until relatively recently, miRNAs comprise one of the more abundant classes of gene regulatory molecules in multicellular organisms and likely influence the output of many protein-coding genes.
Journal ArticleDOI
The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14
TL;DR: Two small lin-4 transcripts of approximately 22 and 61 nt were identified in C. elegans and found to contain sequences complementary to a repeated sequence element in the 3' untranslated region (UTR) of lin-14 mRNA, suggesting that lin- 4 regulates lin- 14 translation via an antisense RNA-RNA interaction.
Journal ArticleDOI
Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets
TL;DR: In a four-genome analysis of 3' UTRs, approximately 13,000 regulatory relationships were detected above the estimate of false-positive predictions, thereby implicating as miRNA targets more than 5300 human genes, which represented 30% of the gene set.
Journal ArticleDOI
MicroRNA expression profiles classify human cancers
Jun Lu,Gad Getz,Eric A. Miska,Eric A. Miska,Ezequiel Alvarez-Saavedra,Justin Lamb,David Peck,Alejandro Sweet-Cordero,Alejandro Sweet-Cordero,Benjamin L. Ebert,Benjamin L. Ebert,Raymond H. Mak,Raymond H. Mak,Adolfo A. Ferrando,James R. Downing,Tyler Jacks,H. Robert Horvitz,H. Robert Horvitz,Todd R. Golub,Todd R. Golub,Todd R. Golub +20 more
TL;DR: A new, bead-based flow cytometric miRNA expression profiling method is used to present a systematic expression analysis of 217 mammalian miRNAs from 334 samples, including multiple human cancers, and finds the miRNA profiles are surprisingly informative, reflecting the developmental lineage and differentiation state of the tumours.
Journal ArticleDOI
Prediction of Mammalian MicroRNA Targets
TL;DR: The predicted regulatory targets of mammalian miRNAs were enriched for genes involved in transcriptional regulation but also encompassed an unexpectedly broad range of other functions.