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Results: 1 to 20 of 68

1.

Inferred spoligoforest topology unravels spatially bimodal distribution of mutations in the DR region.

Ozcaglar C, Shabbeer A, Kurepina N, Rastogi N, Yener B, Bennett KP.

IEEE Trans Nanobioscience. 2012 Sep;11(3):191-202. doi: 10.1109/TNB.2012.2213265.

PMID:
22987125
[PubMed - indexed for MEDLINE]
2.

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

Ozcaglar C, Shabbeer A, Kurepina N, Yener B, Bennett KP.

Proceedings (IEEE Int Conf Bioinformatics Biomed). 2011:75-82.

PMID:
22343484
[PubMed]
Free PMC Article
3.

A conformal Bayesian network for classification of Mycobacterium tuberculosis complex lineages.

Aminian M, Shabbeer A, Bennett KP.

BMC Bioinformatics. 2010 Apr 29;11 Suppl 3:S4. doi: 10.1186/1471-2105-11-S3-S4.

PMID:
20438651
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Evaluation and strategy for use of MIRU-VNTRplus, a multifunctional database for online analysis of genotyping data and phylogenetic identification of Mycobacterium tuberculosis complex isolates.

Allix-Béguec C, Harmsen D, Weniger T, Supply P, Niemann S.

J Clin Microbiol. 2008 Aug;46(8):2692-9. doi: 10.1128/JCM.00540-08. Epub 2008 Jun 11.

PMID:
18550737
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Molecular characterization of Mycobacterium tuberculosis isolates from different regions of Bulgaria.

Valcheva V, Mokrousov I, Rastogi N, Narvskaya O, Markova N.

J Clin Microbiol. 2008 Mar;46(3):1014-8. doi: 10.1128/JCM.01841-07. Epub 2008 Jan 16.

PMID:
18199794
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Models of deletion for visualizing bacterial variation: an application to tuberculosis spoligotypes.

Reyes JF, Francis AR, Tanaka MM.

BMC Bioinformatics. 2008 Nov 27;9:496. doi: 10.1186/1471-2105-9-496.

PMID:
19036166
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Large Sequence Polymorphisms of the Euro-American lineage of Mycobacterium tuberculosis: a phylogenetic reconstruction and evidence for convergent evolution in the DR locus.

Rindi L, Lari N, Garzelli C.

Infect Genet Evol. 2012 Oct;12(7):1551-7. doi: 10.1016/j.meegid.2012.06.008. Epub 2012 Jun 21.

PMID:
22728915
[PubMed - indexed for MEDLINE]
8.

Three-year population-based evaluation of standardized mycobacterial interspersed repetitive-unit-variable-number tandem-repeat typing of Mycobacterium tuberculosis.

Allix-Béguec C, Fauville-Dufaux M, Supply P.

J Clin Microbiol. 2008 Apr;46(4):1398-406. doi: 10.1128/JCM.02089-07. Epub 2008 Jan 30.

PMID:
18234864
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Improvement of differentiation and interpretability of spoligotyping for Mycobacterium tuberculosis complex isolates by introduction of new spacer oligonucleotides.

van der Zanden AG, Kremer K, Schouls LM, Caimi K, Cataldi A, Hulleman A, Nagelkerke NJ, van Soolingen D.

J Clin Microbiol. 2002 Dec;40(12):4628-39.

PMID:
12454164
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

"Pseudo-Beijing": evidence for convergent evolution in the direct repeat region of Mycobacterium tuberculosis.

Fenner L, Malla B, Ninet B, Dubuis O, Stucki D, Borrell S, Huna T, Bodmer T, Egger M, Gagneux S.

PLoS One. 2011;6(9):e24737. doi: 10.1371/journal.pone.0024737. Epub 2011 Sep 13.

PMID:
21935448
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Discordance between mycobacterial interspersed repetitive-unit-variable-number tandem-repeat typing and IS6110 restriction fragment length polymorphism genotyping for analysis of Mycobacterium tuberculosis Beijing strains in a setting of high incidence of tuberculosis.

Hanekom M, van der Spuy GD, Gey van Pittius NC, McEvoy CR, Hoek KG, Ndabambi SL, Jordaan AM, Victor TC, van Helden PD, Warren RM.

J Clin Microbiol. 2008 Oct;46(10):3338-45. doi: 10.1128/JCM.00770-08. Epub 2008 Aug 20.

PMID:
18716230
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Characterization of ancestral Mycobacterium tuberculosis by multiple genetic markers and proposal of genotyping strategy.

Sun YJ, Lee AS, Ng ST, Ravindran S, Kremer K, Bellamy R, Wong SY, van Soolingen D, Supply P, Paton NI.

J Clin Microbiol. 2004 Nov;42(11):5058-64.

PMID:
15528696
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Molecular characteristics of strains of the cameroon family, the major group of Mycobacterium tuberculosis in a country with a high prevalence of tuberculosis.

Niobe-Eyangoh SN, Kuaban C, Sorlin P, Thonnon J, Vincent V, Gutierrez MC.

J Clin Microbiol. 2004 Nov;42(11):5029-35.

PMID:
15528691
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Evolutionary pathway of the Beijing lineage of Mycobacterium tuberculosis based on genomic deletions and mutT genes polymorphisms.

Rindi L, Lari N, Cuccu B, Garzelli C.

Infect Genet Evol. 2009 Jan;9(1):48-53. doi: 10.1016/j.meegid.2008.09.006. Epub 2008 Oct 10.

PMID:
18977316
[PubMed - indexed for MEDLINE]
15.

TB-Lineage: an online tool for classification and analysis of strains of Mycobacterium tuberculosis complex.

Shabbeer A, Cowan LS, Ozcaglar C, Rastogi N, Vandenberg SL, Yener B, Bennett KP.

Infect Genet Evol. 2012 Jun;12(4):789-97. doi: 10.1016/j.meegid.2012.02.010. Epub 2012 Mar 3.

PMID:
22406225
[PubMed - indexed for MEDLINE]
16.

Molecular characteristics of "Mycobacterium canettii" the smooth Mycobacterium tuberculosis bacilli.

Fabre M, Hauck Y, Soler C, Koeck JL, van Ingen J, van Soolingen D, Vergnaud G, Pourcel C.

Infect Genet Evol. 2010 Dec;10(8):1165-73. doi: 10.1016/j.meegid.2010.07.016. Epub 2010 Aug 6.

PMID:
20692377
[PubMed - indexed for MEDLINE]
17.

Nature of DNA polymorphism in the direct repeat cluster of Mycobacterium tuberculosis; application for strain differentiation by a novel typing method.

Groenen PM, Bunschoten AE, van Soolingen D, van Embden JD.

Mol Microbiol. 1993 Dec;10(5):1057-65.

PMID:
7934856
[PubMed - indexed for MEDLINE]
18.

[The significance of spoligotyping method in epidemiological investigations of tuberculosis].

Augustynowicz-Kopeć E, Jagielski T, Kozińska M, Zabost A, Zwolska Z.

Pneumonol Alergol Pol. 2007;75(1):22-31. Polish.

PMID:
17541909
[PubMed - indexed for MEDLINE]
19.

Sensitivities and specificities of spoligotyping and mycobacterial interspersed repetitive unit-variable-number tandem repeat typing methods for studying molecular epidemiology of tuberculosis.

Scott AN, Menzies D, Tannenbaum TN, Thibert L, Kozak R, Joseph L, Schwartzman K, Behr MA.

J Clin Microbiol. 2005 Jan;43(1):89-94.

PMID:
15634955
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Sublineage structure analysis of Mycobacterium tuberculosis complex strains using multiple-biomarker tensors.

Ozcaglar C, Shabbeer A, Vandenberg S, Yener B, Bennett KP.

BMC Genomics. 2011;12 Suppl 2:S1. doi: 10.1186/1471-2164-12-S2-S1. Epub 2011 Jul 27.

PMID:
21988942
[PubMed - indexed for MEDLINE]
Free PMC Article

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