Literature DB >> 15377503

SNPP: automating large-scale SNP genotype data management.

Lan-Juan Zhao1, Miao-Xin Li, Yan-Fang Guo, Fu-Hua Xu, Jin-Long Li, Hong-Wen Deng.   

Abstract

UNLABELLED: To manage high-throughput single nucleotide polymorphism (SNP) genotyping data efficiently, we developed a dynamic general database management system-SNPP (SNP Processor). It provides several functions, including data importing with comparison, Mendelian inheritance check within pedigrees, data compiling and exporting. Furthermore, SNPP may generate files for repeat genotyping and transform them into files that can be executed by a liquid handling system. AVAILABILITY: http://orclinux.creighton.edu/snpp/ CONTACT: lanjuanzhao@creighton.edu

Mesh：

Year:  2004        PMID： 15377503     DOI： 10.1093/bioinformatics/bth486

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  9 in total

1.  A system for exact and approximate genetic linkage analysis of SNP data in large pedigrees.

Authors:  Mark Silberstein; Omer Weissbrod; Lars Otten; Anna Tzemach; Andrei Anisenia; Oren Shtark; Dvir Tuberg; Eddie Galfrin; Irena Gannon; Adel Shalata; Zvi U Borochowitz; Rina Dechter; Elizabeth Thompson; Dan Geiger
Journal:  Bioinformatics       Date:  2012-11-18       Impact factor: 6.937

2.  An integrated system for genetic analysis.

Authors:  Simon Fiddy; David Cattermole; Dong Xie; Xiao Yuan Duan; Richard Mott
Journal:  BMC Bioinformatics       Date:  2006-04-19       Impact factor: 3.169

3.  Laboratory Information Management Software for genotyping workflows: applications in high throughput crop genotyping.

Authors:  B Jayashree; Praveen T Reddy; Y Leeladevi; Jonathan H Crouch; V Mahalakshmi; Hutokshi K Buhariwalla; K E Eshwar; Emma Mace; Rolf Folksterma; S Senthilvel; Rajeev K Varshney; K Seetha; R Rajalakshmi; V P Prasanth; Subhash Chandra; L Swarupa; P Srikalyani; David A Hoisington
Journal:  BMC Bioinformatics       Date:  2006-08-17       Impact factor: 3.169

4.  SNPLims: a data management system for genome wide association studies.

Authors:  Alessandro Orro; Guia Guffanti; Erika Salvi; Fabio Macciardi; Luciano Milanesi
Journal:  BMC Bioinformatics       Date:  2008-03-26       Impact factor: 3.169

5.  snp-search: simple processing, manipulation and searching of SNPs from high-throughput sequencing.

Authors:  Ali Al-Shahib; Anthony Underwood
Journal:  BMC Bioinformatics       Date:  2013-11-19       Impact factor: 3.169

6.  GWAS analyzer: integrating genotype, phenotype and public annotation data for genome-wide association study analysis.

Authors:  Christine Fong; Dennis C Ko; Michael Wasnick; Matthew Radey; Samuel I Miller; Mitchell Brittnacher
Journal:  Bioinformatics       Date:  2010-01-06       Impact factor: 6.937

7.  SNPflow: a lightweight application for the processing, storing and automatic quality checking of genotyping assays.

Authors:  Hansi Weissensteiner; Margot Haun; Sebastian Schönherr; Mathias Neuner; Lukas Forer; Günther Specht; Anita Kloss-Brandstätter; Florian Kronenberg; Stefan Coassin
Journal:  PLoS One       Date:  2013-03-19       Impact factor: 3.240

8.  eCOMPAGT -- efficient combination and management of phenotypes and genotypes for genetic epidemiology.

Authors:  Sebastian Schönherr; Hansi Weissensteiner; Stefan Coassin; Günther Specht; Florian Kronenberg; Anita Brandstätter
Journal:  BMC Bioinformatics       Date:  2009-05-11       Impact factor: 3.169

Review 9.  Pathogen profiling for disease management and surveillance.

Authors:  Vitali Sintchenko; Jonathan R Iredell; Gwendolyn L Gilbert
Journal:  Nat Rev Microbiol       Date:  2007-05-08       Impact factor: 60.633
  9 in total

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