how to analyse list of genes raymond ripp 19 février 2013
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How to analyse list of genes
Raymond Ripp
19 février 2013
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Data and Tools
GxDb ImAnno Gscope GO SM2PH EvoluCode …
/biolo/… PHP programs
PipeWork DoOnlist HtmlTable RadarGenerator StringInteractome GoGet CytoscapeWeb DecoreTree
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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, …
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sievesCochleaSacculusUtriculus
Select Storecochleasacculusutriculus
other
Select DiseaseJaxIhr
SangerAll
ISHAnnotation
Intersection
GenePaintGenesInformation
Intersection
Transcriptomic
Diseases
… more details
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Output
cadre
sievesCochleaSacculusUtriculus
action
UnionInter
AnotBBnotA
organ
key
action
UnionInter
AnotBBnotA
Select StoreEGEcochEGEsacEGEutri
EGEother
action
UnionInter
AnotBBnotA
Select DiseaseJaxIhr
SangerAll
What to display
name,descript,entrez,ege,go
FromSieves
UnionInterAnotBnotA
GenePaintgenes
UnionInterAnotBnotA
HtmlTable
FromStore
FromStore
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ImAnno Gene List
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PipeWork … merci à
Laëtitia Poidevin Nicolas Gagnière Guillaume Berthommier
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organism=Mus_musculus
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http://lbgi.fr/fed
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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 user’s data Allow multi sessions Add new functionalities Use it intensively.
merci.