ToppGene Suite pipeline

ToppGene Suite specifications


Unique identifier OMICS_06533
Name ToppGene Suite
Alternative name ToppGene
Interface Web user interface
Restrictions to use Academic or non-commercial use
Input data Two gene lists (training and test).
Output data HTML
Computer skills Basic
Stability Stable
Maintained Yes


  • Primates
    • Homo sapiens



  • person_outline Bruce Aronow <>
  • person_outline Anil Jegga <>
  • person_outline Eric Bardes <>

Publications for ToppGene Suite

ToppGene Suite IN pipelines

PMCID: 5059674
PMID: 27708261
DOI: 10.1038/ncomms12997

[…] table 8) and canonical pathway enrichment (supplementary table 9). a total of 47 diseases were output with p values <0.05 and fdr <0.05 (benjamini and hochberg corrected39) using toppgene40 (supplementary table 8). eight positively selected genes within the tarsier lineage were implicated in several diseases associated with eye development and visual disorders (bbs2, bfsp2, […]

PMCID: 4768782
PMID: 26599803
DOI: 10.1262/jrd.2015-131

[…] cpg density was classified as described previously [12]., information regarding the phenotype associated with disruption of the protein-coding genes was obtained from toppgene suite [13], and the p-values of the phenotypes were calculated by a previously reported method [13]., we previously found that most mrnas transcribed at the 1-cell stage are not spliced [9]. […]

ToppGene Suite institution(s)
Department of Environmental Health, University of Cincinnati, Cincinnati, OH, USA; Division of Biomedical Informatics, Cincinnati Children's Hospital Medical Center, Cincinnati, OH, USA; Department of Pediatrics, University of Cincinnati College of Medicine, Cincinnati, OH, USA
ToppGene Suite funding source(s)
Supported by the State of Ohio Computational Medicine Center (ODD TECH 04-042); National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Diseases (NIH/NIDDK) 1U01 DK70219 (Murine Atlas of a Genitourinary Smooth Muscle Development); PHS Grant P30 DK078392 (Cincinnati Digestive Health Center).

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