
MATRiX app
Turnkey solution built with the Shiny Framework to explore transcriptomic data.
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Poster
Here is our poster made for the bioinformatics/biostatistics meeting.

MATRiX app
Transcriptomic is a common tool to asses differential gene expression in order to compare multiple conditions.
Most of the transcriptomic facilities offers a service for acquisition and statistical analysis of transcriptomic data (DNA chips, RNA-seq, ChIP-Seq). The data analyses are performed using R scripts from raw data pretreatments to statistical analysis. It is noted that statistical analyses define arbtirary filtering criteria to select relevant genes. Hence biologists are led to reconsider these criteria according to their own scientific question.
In order to allow biologists to explore their own datasets in autonomy and generate graphical representations, we have deployed a turnkey solution built with the shiny framework.

PCA
Compare your groups
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Volcano Plot
Significance versus fold-change
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Venn Diagram
Compare your list of genes
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Heatmap
Classify your samples and genes
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Functional Analysis
Queries the DAVID database
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Bubble graph
Top 10 of your functional analysis
View moreThe main contributors to MATRiX
Yannick Lippi (Initiator, beta-testing, feature suggestions)
Franck Soubès (Coding, Unit testing, documentation, packaging, deployment of the web service, feature suggestions)
Acknowledgements
Thanks to the Toxalim's team BioToMyc & TIM and especially to the following people for their helps reporting errors, proposing new features and beta testing of MATRiX:
Laura Costes, Anne Fougerat, Claire Naylies, Philippe Pinton, Arnaud Polizzi, Marion Regnier, Sandrine Ellero-Simatos, Sarra Smati.
Special Thanks to Didier Laborie for installing the virtual machine with Ubuntu and for answering my questions.
About MATRiX
MATRiX leverages the cumulative functionalities of 47 R (ggplot2, gplots, RDAVIDWebService ...) and 3 js (Jvenn, Highchart and Jquery) libraries.
The application was deployed with Shiny Open Source.
The source code can be found in the ForgeMIA.
Source codeContact Us
Our Location
ToxAlim UMR 1331 INRA/INP/UPS,180 chemin de Tournefeuille - BP 93173
31027 Toulouse Cedex 3, FRANCE