KGGSeq protocols

KGGSeq specifications

Information


Unique identifier OMICS_02260
Name KGGSeq
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Medium
Version 0.8
Stability Stable
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Subtool


  • ISPP

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Versioning


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Maintainer


  • person_outline Miaoxin Li <>

Publications for KGGSeq

KGGSeq IN pipelines

 (3)
2017
PMCID: 5412354
PMID: 28379183
DOI: 10.3390/ijms18040770

[…] analysable alterations (some variants mapped to more than one transcript) and three variants were predicted to be disease-causing. only one variant was predicted to be mendelian disease-causing by kggseq (table 2)., among the shortlisted variants, only the hspb1 non-synonymous snp variant has a homozygous genotype and is compatible with the autosomal recessive inheritance demonstrated […]

2017
PMCID: 5435951
PMID: 28115622
DOI: 10.1093/nar/gkx019

[…] are implemented in c++), this algorithm substantially improved the speed of loading and parsing text data. we believe this algorithm will also be useful for other bioinformatics analysis tools., kggseq was designed to integrate multiple methods and resources for wgs downstream analysis. although it has integrated abundant functions for a comprehensive downstream analysis into five main […]

2016
PMCID: 4926250
PMID: 27353517
DOI: 10.1038/srep29088

[…] and clinvar database41 (http://www.ncbi.nlm.nih.gov/clinvar/) as well as capitalbio gedd database (capitalbio, beijing, china). the potentially pathogenic variants were evaluated with kggseq (version v0.5)21 using a logit model to combine prediction scores from multiple methods and to compute an unbiased estimate of the probability of a rare nonsynonymous snv being pathogenic. […]

KGGSeq institution(s)
Department of Psychiatry; State Key Laboratory for Cognitive and Brain Sciences; Centre for Reproduction, Development and Growth; Genome Research Centre; Department of Medicine; Department of Biochemistry, University of Hong Kong, Pokfulam, Hong Kong, China

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