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Gene Overlapper

eagle-i ID

http://eagle-i.itmat.upenn.edu/i/0000013a-c25c-d7b5-d69a-d90d80000000

Resource Type

  1. Algorithmic software component

Properties

  1. Resource Description
    "The Gene Overlapper provides output from genome-wide surveys of host-cell genes linked to HIV infection and allows user-configured exploration of overlaps among studies." Overlap analysis and comparisons to random distributions are carried out using R. The p-values for overlaps between lists are generated by comparison to results of random simulation and by calculation based on the hypergeometric distribution.
  2. Used by
    Bushman Laboratory
  3. Operating System
    Web based
  4. Data Input
    Gene sets from siRNA screens, GWA studies, proteins identified by mass spec, published interactions, etc.
  5. Data Output
    Overlapping genes
  6. Software purpose
    Data analysis objective
  7. Related Publication or Documentation
    Host Cell Factors in HIV Replication: Meta-Analysis of Genome-Wide Studies
  8. Website(s)
    http://www.hivsystemsbiology.org/GeneListOverlapper/
  9. Related Technique
    RNAi screening
  10. Related Technique
    Protein expression profiling
  11. Developed by
    Bushman, Frederic D., PhD
  12. Developed by
    Malani, Nirav, M.S.
  13. Developed by
    Bailey, Aubrey
  14. Developed by
    Barton, Spencer
  15. Algorithm used
    Hypergeometric probability
  16. Coded in
    R language
 
RDFRDF
 
Provenance Metadata About This Resource Record
  1. workflow state
    Published
  2. contributor
    fcoldren
  3. created
    2012-11-02T15:15:16.350-04:00
  4. creator
    fcoldren
  5. modified
    2012-11-30T16:40:27.981-05:00

Copyright © 2016 by the President and Fellows of Harvard College
The eagle-i Consortium is supported by NIH Grant #5U24RR029825-02 / Copyright 2016