Literature DB >> 14764550

AmpliBASE MT: a Mycobacterium tuberculosis diversity knowledgebase.

Ahmed A Majeed1, Niyaz Ahmed, K Rajender Rao, S Ghousunnissa, Farhana Kauser, Buddhaditta Bose, H A Nagarajaram, V M Katoch, Debby V Cousins, Leonardo A Sechi, Robert H Gilman, Seyed E Hasnain.   

Abstract

AmpliBASE MT is an online databank of high-resolution DNA fingerprints representing fluorescent amplified fragment length polymorphism (FAFLP) profiles or amplitypes developed for the Mycobacterium tuberculosis complex strains from 48 different countries. AmpliBASE MT is based on a relational database management system that is hyperlinked to visualize genotyping results in the form of DNA fingerprint images for individual strains. A flexible search system based on systematic comparisons of fragment sizes in base pairs allows inter-laboratory comparison of FAFLP profiles. Besides this, the database also displays previously published data on IS6110 profiles, spoligotypes, MIRU-VNTRs and large sequence polymorphisms along with the FAFLP records that will give the overall comparisons. Being the first of its kind, AmpliBASE MT is expected to be a very helpful tool in strengthening the concept of 'geographic genomics' and will be very helpful to molecular epidemiologists and those interested in diagnostic development for tuberculosis.

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Year:  2004        PMID： 14764550     DOI： 10.1093/bioinformatics/bth051

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


  6 in total

1.  Rapid identification of Mycobacterium tuberculosis Beijing genotypes on the basis of the mycobacterial interspersed repetitive unit locus 26 signature.

Authors:  K Rajender Rao; Niyaz Ahmed; Sriramula Srinivas; Leonardo A Sechi; Seyed E Hasnain
Journal:  J Clin Microbiol       Date:  2006-01       Impact factor: 5.948

2.  Identification of Beijing lineage Mycobacterium tuberculosis with combined mycobacterial interspersed repetitive unit loci 26, 31, and ETR-A.

Authors:  Pei-Ju Chin; Chen-Che Chiu; Ruwen Jou
Journal:  J Clin Microbiol       Date:  2007-01-24       Impact factor: 5.948

3.  Discriminatory power and reproducibility of novel DNA typing methods for Mycobacterium tuberculosis complex strains.

Authors:  Kristin Kremer; Catherine Arnold; Angel Cataldi; M Cristina Gutiérrez; Walter H Haas; Stefan Panaiotov; Robin A Skuce; Philip Supply; Adri G M van der Zanden; Dick van Soolingen
Journal:  J Clin Microbiol       Date:  2005-11       Impact factor: 5.948

4.  Analysis of genomic downsizing on the basis of region-of-difference polymorphism profiling of Mycobacterium tuberculosis patient isolates reveals geographic partitioning.

Authors:  K Rajender Rao; Farhana Kauser; Sriramula Srinivas; Stefania Zanetti; Leonardo A Sechi; Niyaz Ahmed; Seyed E Hasnain
Journal:  J Clin Microbiol       Date:  2005-12       Impact factor: 5.948

5.  Molecular genotyping of a large, multicentric collection of tubercle bacilli indicates geographical partitioning of strain variation and has implications for global epidemiology of Mycobacterium tuberculosis.

Authors:  Niyaz Ahmed; Mahfooz Alam; K Rajender Rao; Farhana Kauser; N Ashok Kumar; Nazia N Qazi; Vartul Sangal; V D Sharma; Ram Das; V M Katoch; K J R Murthy; Sujai Suneetha; S K Sharma; Leonardo A Sechi; Robert H Gilman; Seyed E Hasnain
Journal:  J Clin Microbiol       Date:  2004-07       Impact factor: 5.948

6.  Molecular diversity of Mycobacterium tuberculosis complex in Sikkim, India and prediction of dominant spoligotypes using artificial intelligence.

Authors:  Kangjam Rekha Devi; Jagat Pradhan; Rinchenla Bhutia; Peggy Dadul; Atanu Sarkar; Nitumoni Gohain; Kanwar Narain
Journal:  Sci Rep       Date:  2021-04-01       Impact factor: 4.379
  6 in total

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