Antagonism pattern detection between microRNA and target expression in Ewing's sarcoma.

MicroRNAs (miRNAs) have emerged as fundamental regulators that silence gene expression at the post-transcriptional and translational levels. The identification of their targets is a major challenge to elucidate the regulated biological processes. The overall effect of miRNA is reflected on target mR...

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Autores principales:	Loredana Martignetti, Karine Laud-Duval, Franck Tirode, Gaelle Pierron, Stéphanie Reynaud, Emmanuel Barillot, Olivier Delattre, Andrei Zinovyev
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2012
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/11f0bc8dd6654de98c9d6bcd921e229d
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id	oai:doaj.org-article:11f0bc8dd6654de98c9d6bcd921e229d
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spelling	oai:doaj.org-article:11f0bc8dd6654de98c9d6bcd921e229d2021-11-18T07:11:03ZAntagonism pattern detection between microRNA and target expression in Ewing's sarcoma.1932-620310.1371/journal.pone.0041770https://doaj.org/article/11f0bc8dd6654de98c9d6bcd921e229d2012-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/22848594/?tool=EBIhttps://doaj.org/toc/1932-6203MicroRNAs (miRNAs) have emerged as fundamental regulators that silence gene expression at the post-transcriptional and translational levels. The identification of their targets is a major challenge to elucidate the regulated biological processes. The overall effect of miRNA is reflected on target mRNA expression, suggesting the design of new investigative methods based on high-throughput experimental data such as miRNA and transcriptome profiles. We propose a novel statistical measure of non-linear dependence between miRNA and mRNA expression, in order to infer miRNA-target interactions. This approach, which we name antagonism pattern detection, is based on the statistical recognition of a triangular-shaped pattern in miRNA-target expression profiles. This pattern is observed in miRNA-target expression measurements since their simultaneously elevated expression is statistically under-represented in the case of miRNA silencing effect. The proposed method enables miRNA target prediction to strongly rely on cellular context and physiological conditions reflected by expression data. The procedure has been assessed on synthetic datasets and tested on a set of real positive controls. Then it has been applied to analyze expression data from Ewing's sarcoma patients. The antagonism relationship is evaluated as a good indicator of real miRNA-target biological interaction. The predicted targets are consistently enriched for miRNA binding site motifs in their 3'UTR. Moreover, we reveal sets of predicted targets for each miRNA sharing important biological function. The procedure allows us to infer crucial miRNA regulators and their potential targets in Ewing's sarcoma disease. It can be considered as a valid statistical approach to discover new insights in the miRNA regulatory mechanisms.Loredana MartignettiKarine Laud-DuvalFranck TirodeGaelle PierronStéphanie ReynaudEmmanuel BarillotOlivier DelattreAndrei ZinovyevPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 7, Iss 7, p e41770 (2012)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Loredana Martignetti Karine Laud-Duval Franck Tirode Gaelle Pierron Stéphanie Reynaud Emmanuel Barillot Olivier Delattre Andrei Zinovyev Antagonism pattern detection between microRNA and target expression in Ewing's sarcoma.
description	MicroRNAs (miRNAs) have emerged as fundamental regulators that silence gene expression at the post-transcriptional and translational levels. The identification of their targets is a major challenge to elucidate the regulated biological processes. The overall effect of miRNA is reflected on target mRNA expression, suggesting the design of new investigative methods based on high-throughput experimental data such as miRNA and transcriptome profiles. We propose a novel statistical measure of non-linear dependence between miRNA and mRNA expression, in order to infer miRNA-target interactions. This approach, which we name antagonism pattern detection, is based on the statistical recognition of a triangular-shaped pattern in miRNA-target expression profiles. This pattern is observed in miRNA-target expression measurements since their simultaneously elevated expression is statistically under-represented in the case of miRNA silencing effect. The proposed method enables miRNA target prediction to strongly rely on cellular context and physiological conditions reflected by expression data. The procedure has been assessed on synthetic datasets and tested on a set of real positive controls. Then it has been applied to analyze expression data from Ewing's sarcoma patients. The antagonism relationship is evaluated as a good indicator of real miRNA-target biological interaction. The predicted targets are consistently enriched for miRNA binding site motifs in their 3'UTR. Moreover, we reveal sets of predicted targets for each miRNA sharing important biological function. The procedure allows us to infer crucial miRNA regulators and their potential targets in Ewing's sarcoma disease. It can be considered as a valid statistical approach to discover new insights in the miRNA regulatory mechanisms.
format	article
author	Loredana Martignetti Karine Laud-Duval Franck Tirode Gaelle Pierron Stéphanie Reynaud Emmanuel Barillot Olivier Delattre Andrei Zinovyev
author_facet	Loredana Martignetti Karine Laud-Duval Franck Tirode Gaelle Pierron Stéphanie Reynaud Emmanuel Barillot Olivier Delattre Andrei Zinovyev
author_sort	Loredana Martignetti
title	Antagonism pattern detection between microRNA and target expression in Ewing's sarcoma.
title_short	Antagonism pattern detection between microRNA and target expression in Ewing's sarcoma.
title_full	Antagonism pattern detection between microRNA and target expression in Ewing's sarcoma.
title_fullStr	Antagonism pattern detection between microRNA and target expression in Ewing's sarcoma.
title_full_unstemmed	Antagonism pattern detection between microRNA and target expression in Ewing's sarcoma.
title_sort	antagonism pattern detection between microrna and target expression in ewing's sarcoma.
publisher	Public Library of Science (PLoS)
publishDate	2012
url	https://doaj.org/article/11f0bc8dd6654de98c9d6bcd921e229d
work_keys_str_mv	AT loredanamartignetti antagonismpatterndetectionbetweenmicrornaandtargetexpressioninewingssarcoma AT karinelaudduval antagonismpatterndetectionbetweenmicrornaandtargetexpressioninewingssarcoma AT francktirode antagonismpatterndetectionbetweenmicrornaandtargetexpressioninewingssarcoma AT gaellepierron antagonismpatterndetectionbetweenmicrornaandtargetexpressioninewingssarcoma AT stephaniereynaud antagonismpatterndetectionbetweenmicrornaandtargetexpressioninewingssarcoma AT emmanuelbarillot antagonismpatterndetectionbetweenmicrornaandtargetexpressioninewingssarcoma AT olivierdelattre antagonismpatterndetectionbetweenmicrornaandtargetexpressioninewingssarcoma AT andreizinovyev antagonismpatterndetectionbetweenmicrornaandtargetexpressioninewingssarcoma
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Antagonism pattern detection between microRNA and target expression in Ewing's sarcoma.

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