i-GSEA4GWAS v2.0 Home
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Demo Run
Load demo data Job name Email (links to the results will be sent to your mail-box)
  
 
Upload your GWAS data Input File Format
Select data type SNP    Gene

GWAS file   
-logarithm transformation (necessary ONLY for P-value data)
 
Select mapping rules of SNPs->genes Annotation Notes
Specify mapping rule kb upstream and downstream of gene Please input an integer between 0 and 500, default value is 20.
 
Gene set database Gene Set Notes
BioCarta pathways KEGG pathways ( to include pathways representing disease directly NO YES ) 
GO biological process GO molecular function GO cellular component
OR upload your own gene sets file

Number of genes in gene set     Minimum (typical 5-20) Maximum (typical 200-inf)

Advanced options for gene set database

 
Functional analysis Annotation
Yes     No
Select LD data source
1000 Genome population: EUR AMR ASN AFR
HapMap III population: CEU CHB JPT YRI ASW CHD GIH LWK MEX MKK TSI
Select functional data source
Ensembl putative functional variants help
ENCODE regulatory feature peaks:
Data Type: DNase-seq Peaks FAIRE Peaks TFBS Peaks (PeakSeq) TFBS Peaks (SPP) Histone Peaks
Tissue:
Expression quantitative trait loci (eQTLs) help

     
JSP Page

Copyright: Bioinformatics Lab, Institute of Psychology, Chinese Academy of Sciences Feedback
Last update: May 14, 2014