ArticleBioinformatics (Oxford, England)2014
Next maSigPro: updating maSigPro bioconductor package for RNA-seq time series.
Article in Bioinformatics (Oxford, England), 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 213 papers.
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213 citing papers in PubMed.
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153 more citing papers are in PubMed but not listed here.
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Authors and funding
3 authors.
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No grant is acknowledged in the PubMed record.
Abstract
motivationThe widespread adoption of RNA-seq to quantitatively measure gene expression has increased the scope of sequencing experimental designs to include time-course experiments. maSigPro is an R package specifically suited for the analysis of time-course gene expression data, which was developed originally for microarrays and hence was limited in its application to count data.
resultsWe have updated maSigPro to support RNA-seq time series analysis by introducing generalized linear models in the algorithm to support the modeling of count data while maintaining the traditional functionalities of the package. We show a good performance of the maSigPro-GLM method in several simulated time-course scenarios and in a real experimental dataset. AVAILABILITY AND IMPLEMENTATION: The package is freely available under the LGPL license from the Bioconductor Web site (http://bioconductor.org).
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