Literature DB >> 18710872

spolTools: online utilities for analyzing spoligotypes of the Mycobacterium tuberculosis complex.

Chaka Tang1, Josephine F Reyes, Fabio Luciani, Andrew R Francis, Mark M Tanaka.   

Abstract

spolTools is a collection of online programs designed to manipulate and analyze spoligotype datasets of the Mycobacterium tuberculosis complex. These tools are integrated into a repository currently containing 1179 spoligotypes and 6278 isolates across 30 datasets. Users can search this database to export for external use or to pass on to the integrated tools. These tools include the computation of basic population genetic quantities, the visualization of clusters of spoligotype patterns based on an estimated evolutionary history and a procedure to predict emerging strains - genotypes associated with elevated transmission.

Entities:  

Mesh：

Year:  2008        PMID： 18710872     DOI： 10.1093/bioinformatics/btn434

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


  26 in total

Review 1.  Methodological and Clinical Aspects of the Molecular Epidemiology of Mycobacterium tuberculosis and Other Mycobacteria.

Authors:  Tomasz Jagielski; Alina Minias; Jakko van Ingen; Nalin Rastogi; Anna Brzostek; Anna Żaczek; Jarosław Dziadek
Journal:  Clin Microbiol Rev       Date:  2016-04       Impact factor: 26.132

2.  Data-driven insights into deletions of Mycobacterium tuberculosis complex chromosomal DR region using spoligoforests.

Authors:  Cagri Ozcaglar; Amina Shabbeer; Natalia Kurepina; Bülent Yener; Kristin P Bennett
Journal:  Proceedings (IEEE Int Conf Bioinformatics Biomed)       Date:  2011

3.  SITVITBovis-a publicly available database and mapping tool to get an improved overview of animal and human cases caused by Mycobacterium bovis.

Authors:  David Couvin; Iñaki Cervera-Marzal; Audrey David; Yann Reynaud; Nalin Rastogi
Journal:  Database (Oxford)       Date:  2022-01-13       Impact factor: 3.451

4.  Characterization of the Proportion of Clustered Tuberculosis Cases in Guatemala: Insights from a Molecular Epidemiology Study, 2010-2014.

Authors:  María Eugenia Castellanos; Dalia Lau-Bonilla; Anneliese Moller; Eduardo Arathoon; Blanca Samayoa; Frederick Quinn; Mark Ebell; Kevin Dobbin; Christopher Whalen
Journal:  Am J Trop Med Hyg       Date:  2022-02-28       Impact factor: 2.345

5.  Mycobacterium tuberculosis Latin American-Mediterranean family and its sublineages in the light of robust evolutionary markers.

Authors:  Igor Mokrousov; Anna Vyazovaya; Olga Narvskaya
Journal:  J Bacteriol       Date:  2014-02-28       Impact factor: 3.490

6.  MIRU-VNTRplus: a web tool for polyphasic genotyping of Mycobacterium tuberculosis complex bacteria.

Authors:  Thomas Weniger; Justina Krawczyk; Philip Supply; Stefan Niemann; Dag Harmsen
Journal:  Nucleic Acids Res       Date:  2010-05-10       Impact factor: 16.971

7.  Zoonotic transmission of tuberculosis between pastoralists and their livestock in South-East Ethiopia.

Authors:  Balako Gumi; Esther Schelling; Stefan Berg; Rebuma Firdessa; Girume Erenso; Wondale Mekonnen; Elena Hailu; Ermias Melese; Jemal Hussein; Abraham Aseffa; Jakob Zinsstag
Journal:  Ecohealth       Date:  2012-04-17       Impact factor: 3.184

8.  Genetic diversity of Mycobacterium tuberculosis in Peru and exploration of phylogenetic associations with drug resistance.

Authors:  Patricia Sheen; David Couvin; Louis Grandjean; Mirko Zimic; Maria Dominguez; Giannina Luna; Robert H Gilman; Nalin Rastogi; David A J Moore
Journal:  PLoS One       Date:  2013-06-24       Impact factor: 3.240

9.  Genotype diversity of Mycobacterium isolates from children in Jimma, Ethiopia.

Authors:  Bereket Workalemahu; Stefan Berg; Wondewosen Tsegaye; Alemseged Abdissa; Tsinuel Girma; Markos Abebe; Abraham Aseffa
Journal:  BMC Res Notes       Date:  2013-09-04

10.  Supervised learning for the automated transcription of spacer classification from spoligotype films.

Authors:  David J Jeffries; Neil Abernethy; Bouke C de Jong
Journal:  BMC Bioinformatics       Date:  2009-08-12       Impact factor: 3.169
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.