Open Access Highly Accessed Research article

Identification of a set of miRNAs differentially expressed in transiently TIA-depleted HeLa cells by genome-wide profiling

Carmen Sánchez-Jiménez1, Isabel Carrascoso1, Juan Barrero2 and José M Izquierdo1*

Author Affiliations

1 Centro de Biología Molecular Severo Ochoa, Consejo Superior de Investigaciones Científicas, Universidad Autónoma de Madrid (CSIC/UAM), C/Nicolás Cabrera 1, Cantoblanco, Madrid 28049, Spain

2 Current address: Programa de Biología de Sistemas, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas, C/Darwin 3, Cantoblanco, Madrid, 28049, Spain

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BMC Molecular Biology 2013, 14:4  doi:10.1186/1471-2199-14-4

Published: 6 February 2013

Additional files

Additional file 1:

Summary of the miRNA array analyses. The following additional data are available in this file: 1) Correlation of Hy3 and Hy5 signals for the spike-in controls between slides. 2) Hy5 vs Hy3 scatter, MA and ratio distribution plots (before and after normalization) and Hy5 vs Hy3 scatter plot for the spike-in controls, for each independent experiments. 3) Statistical test implemented in the limma R.

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Additional file 2:

Update of miRNAs sequences previously identified as miRPlus. The miRPlus sequences are licensed human sequences (Exiqon, Denmark). Many of them are already annotated in the miRBase database version 18.

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Additional file 3:

List of predicted potential target genes associated to up-regulated miRNAs in transiently TIA-depleted HeLa cells. Potential target genes of up-regulated miRNAs identified in TIA-deficient HeLa cells were predicted by TargetScan 5.2, PicTar-Vert and miRDB database downloaded using web-app miRBase (http://www.mirbase.org webcite). The Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) database analyses were conducted using software programmes provided by GenCodis3 (http://genecodis.cnb.csic.es webcite).

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