6533b855fe1ef96bd12b0991

RESEARCH PRODUCT

mRNAStab—a web application for mRNA stability analysis

José E. Pérez-ortínJoaquín MorenoVicente ArnauAndrei Alic

subject

Statistics and ProbabilityComputer scienceRNA StabilityCellComputational biologyBioinformaticsBiochemistryTranscription (biology)Gene expressionMRNA degradationmedicineHumansWeb applicationRNA MessengerMolecular BiologyInternetMessenger RNAbusiness.industryRNAGenomicsComputer Science ApplicationsComputational Mathematicsmedicine.anatomical_structureComputational Theory and MathematicsMrna levelbusinessFunctional genomicsAlgorithmsSoftware

description

Abstract Eukaryotic gene expression is regulated both at the transcription and the mRNA degradation levels. The implementation of functional genomics methods that allow the simultaneous measurement of transcription (TR) and degradation (DR) rates for thousands of mRNAs is a huge improvement in this field. One of the best established methods for mRNA stability determination is genomic run-on (GRO). It allows the measurement of DR, TR and mRNA levels during cell dynamic responses. Here, we offer a software package that provides improved algorithms for determination of mRNA stability during dynamic GRO experiments. Availability and implementation: The program mRNAStab is freely accessible at http://mRNAStab.uv.es/. mRNAStab is written in C, PHP and R. Contact:  vicente.arnau@uv.es Supplementary information:  Supplementary data are available at Bioinformatics online.

yearjournalcountryeditionlanguage
2013-01-25Bioinformatics
https://doi.org/10.1093/bioinformatics/btt040