Interactive analysis of lists …on the web Raymond Ripp 19 février 2013.

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Presentation transcript:

Interactive analysis of lists …on the web Raymond Ripp 19 février 2013

Data and Tools  GxDb  ImAnno  Gscope  GO  SM2PH  EvoluCode  …  /biolo/…  PHP programs PipeWork DoOnlist HtmlTable RadarGenerator StringInteractome GoGet CytoscapeWeb DecoreTree

Example 1 : a PipeWork to Combine Lists of Genes  How to combine lists of genes from ImAnno sieves (search tool using SQL queries) Transcriptomic Expression (GxDb Web Service) Diseases related genes (from previously stored lists)  With Union, Intersection, AnotB, …

sieves Cochlea Sacculus Utriculus url Select Store cochlea sacculus utriculus other Select Disease Jax Ihr Sanger All ISH Annotation Intersection GenePaintGenes Information Intersection Transcriptomic Diseases … more details

Output cadre sieves Cochlea Sacculus Utriculus url action Union Inter AnotB BnotA organ key action Union Inter AnotB BnotA Select Store EGEcoch EGEsac EGEutri EGEother action Union Inter AnotB BnotA Select Disease Jax Ihr Sanger All What to display name,descript,entrez,ege,go FromSieves UnionInter AnotBnotA GenePaintgenes UnionInter AnotBnotA HtmlTable FromStore

ImAnno Gene List

HtmlTable as output of the PipeWork

PipeWork … merci à  Laetitia Poidevin  Nicolas Gagnière  Guillaume Berthommier

Example2 : PipeWork ClusterComposition

HtmlTable

From an HtmlTable to DoOnList

DoOnList

DoOnList Help

From DoOnList to RadarGenerator

RadarGenerator

From DoOnList to GO

From DoOnList to StringInteractome

organism=Mus_musculus … don’t forget to specify the organism

StringInteractome Summary

From DoOnList to EvoluCode

DoOnList Help

From ImAnno to Itol From Itol to DecoreTree

Paste your gene list to StringInteractome

Conclusion … and To Do  It works …  The user can start with his own lists  The analysis tools create new lists  It allows to combine different web sites and systems  The user can store, restore and download his data  Test it on real cases We have to :  Organize user’s data  Allow multi sessions  Add new functionalities  Use it intensively. merci.