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1. Juni 2015 · FunPat pipeline. FunPat takes as input the expression data and the functional annotations organized according to Gene Sets, which can be defined as GO terms, pathways or other sets depending on the annotation database used as input. A summary of FunPat analysis pipeline is displayed in Figure 1.
9. Juni 2015 · Here researchers from the University of Padova present FunPat, an R package for time series RNA sequencing data that integrates gene selection, clustering and functional annotation into a single framework. FunPat exploits functional annotations by performing for each functional term, e.g. a Gene Ontology term, an integrated selection-clustering ...
1. Juni 2015 · Background Dynamic expression data, nowadays obtained using high-throughput RNA sequencing, are essential to monitor transient gene expression changes and to study the dynamics of their transcriptional activity in the cell or response to stimuli. Several methods for data selection, clustering and functional analysis are available; however, these steps are usually performed independently ...
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analysis in each Gene Set. In particular, when a hierarchical structure of the functional annotations is available, as in GO database, FunPat searches for temporal patterns
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