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mGenomeSubtractor

Allows parallel genome-scale in silico ‘subtractive hybridization’ analyses of reference genomes. mGenomeSubtractor can compare a reference genome and a set of subject genomes from a full listing of complete bacterial genomes, regularly updated by NCBI Microbial Genome Resources. The software allows users to obtain the core/accessory regions, using an mpiBLAST-based procedure. It includes options such as pre-definition of certain genomic regions as core or accessory or the matching to whole or partial subject set genomes.

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1 user review

1 user review

Thomas Guiraud's avatar image Thomas Guiraud's country flag

Thomas Guiraud

Easy to use but some features doesn't work.

mGenomeSubtractor forum

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mGenomeSubtractor classification

  • Eubacteria

mGenomeSubtractor specifications

Interface:
Web user interface
Output data:
mGenomeSubtractor-generated ‘core’ and/or ‘accessory’ reference genome regions by merging adjacent genes classified as ‘conserved’ or ‘strain-specific and a graphical output comprising a circular map of the reference genome that highlights the locations and sizes of identified core and accessory regions within this reference template.
Version:
1.5
Maintained:
Yes
Restrictions to use:
None
Computer skills:
Basic
Stability:
Stable

mGenomeSubtractor support

Maintainer

  • Hong-Yu Ou <>

Additional information

http://202.120.12.134/mGS2/Instruction_mGenomeSubtractor.htm#partial

Credits

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Publications

Institution(s)

Laboratory of Microbial Metabolism and School of Life Sciences & Biotechnology, Shanghai Jiaotong University, China; Department of Infection, Immunity and Inflammation, Leicester Medical School, University of Leicester, Leicester, UK; Department of Clinical Microbiology, University Hospitals of Leicester NHS Trust, Leicester, UK

Funding source(s)

Supported by National Natural Science Foundation of China (30871345, 30700013, 30970080 and 30821005); a Royal Society—National Natural Science Foundation of China International Joint Project grant (2007/R3); Chen Xing young scholars programme, Shanghai Jiaotong University.

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