GERP specifications

Information


Unique identifier OMICS_00174
Name GERP
Alternative name Genomic Evolutionary Rate Profiling
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Source code URL http://mendel.stanford.edu/SidowLab/downloads/gerp/gerp++.tar.gz
Maintained Yes

Taxon


  • Animals
    • Homo sapiens

Versioning


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Maintainer


  • person_outline Arend Sidow <>

GERP articles

GERP citations

 (2)
2016
PMCID: 5022205

[…] allele between 10 and 90 %, comparing non-coding with coding variants we found a significantly higher proportion were novel (p-value = 2.87e-175) and selectively constrained variants based on genomic evolutionary rate profiling (gerp++ ≥1 p-value = 3.57e-60 and gerp++ ≥ 2 p-value = 3.06e-47) (fig. 2a). using gerp++ [32] and combined annotation dependant depletion (cadd) scores [33], […]

2016
PMCID: 4766752

[…] project phase 3 eur population) [37]. prediction of histone marks, dnase hypersensitivity sites and expression quantitative trait locus (eqtl) associations was performed using haploreg v4.0 [38] and genomic evolutionary rate profiling (gerp) scores were obtained using gwava (genome wide annotation of variants) [39]. variants of interest were also queried using the human osteoblast eqtl dataset […]

GERP institution(s)
Department of Computer Science, Stanford University, Stanford, CA, USA; Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA; Biomedical Informatics Program, Stanford University, Stanford, CA, USA; Department of Genome Sciences, University of Washington, Seattle, WA, USA; Howard Hughes Medical Institute, University of Washington, Seattle, WA, USA; Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA
GERP funding source(s)
Supported in part by an Encode subcontract (PI, Richard Myers), NIH/NHGRI, US National Library of Medicine (K22 LM008261 and T15 LM007033), andin part by NSF grant #0347952.

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