How to analyse list of genes Raymond Ripp 19 février 2013.

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Presentation transcript:

How to analyse list of genes 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

PipeWork to Combine Gene Lists 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

PipeWork … merci à Laëtitia Poidevin Nicolas Gagnière Guillaume Berthommier

organism=Mus_musculus

Conclusions … and To Do It works … The user has his own lists The analysis tools create new lists It allows to combine different web sites and systems We have to add more and more tools. Test it on real cases We have to : Organize users data Allow multi sessions Add new functionalities Use it intensively. merci.