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MycoHit specifications

Information


Unique identifier OMICS_33194
Name MycoHit
Alternative name Mycobacterial Homologue Investigation Tool
Software type Application/Script
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
Computer skills Medium
Stability Stable
Maintained Yes

Versioning


No version available

Maintainers


  • person_outline Marcel Behr
  • person_outline Lynn Dery Capes

Publication for Mycobacterial Homologue Investigation Tool

MycoHit citations

 (4)
library_books

Characterization in Helicobacter pylori of a Nickel Transporter Essential for Colonization That Was Acquired during Evolution by Gastric Helicobacter Species

2016
PLoS Pathog
PMCID: 5140060
PMID: 27923069
DOI: 10.1371/journal.ppat.1006018

[…] re their distribution. We screened full proteomes of available Helicobacter genomes (NCBI) (11 EH species, 8 non-pylori gastric Helicobacter species and the 434 H. pylori strains analyzed in []). The MycoHIT program [,] was used to search for NixA, subunits of NiuBDE, NikABCDE, NikZYXWV, urease (UreB) and hydrogenase (HydA). The identified proteins were then mapped onto a previously-determined phy […]

library_books

Common Cell Shape Evolution of Two Nasopharyngeal Pathogens

2015
PLoS Genet
PMCID: 4498754
PMID: 26162030
DOI: 10.1371/journal.pgen.1005338

[…] . Thus, if the statistical significance ascribed to a comparison is greater than this E value, we assigned a percentage of similarity of 0% to that comparison.To analyze quantitative results, we used MycoHIT [] to assign absence or presence of an orthologue as previously described. “Absence” was defined as lower values and “presence” as higher values, than the 95 percentile of tested species.The p […]

library_books

atpE gene as a new useful specific molecular target to quantify Mycobacterium in environmental samples

2013
BMC Microbiol
PMCID: 4219376
PMID: 24299240
DOI: 10.1186/1471-2180-13-277

[…] In order to perform comparisons of pathogenic (P) and non-pathogenic (NP) mycobacterial genomes with M. tuberculosis H37Rv genome using MycoHit software, sequences were obtained at NCBI web site (http://www.ncbi.nlm.nih.gov) using the accession numbers: M. abscessus ATCC 19977 (CU458896.1) (P), M. avium 104 (CP000479.1) (P), M. avium […]

library_books

Phylogenetic detection of horizontal gene transfer during the step wise genesis of Mycobacterium tuberculosis

2009
BMC Evol Biol
PMCID: 3087520
PMID: 19664275
DOI: 10.1186/1471-2148-9-196

[…] ed after the common ancestor with M. kansasii (see Figure ).To facilitate the process of assembling the matrices of similarities into potential HGT assignments, we developed a software utility called mycoHIT (mycobacterial Homology Investigation Tool). The Software and a help file are available at http://www.molepi.mcgill.ca. Briefly, mycoHIT is a JAVA application presented through a graphical use […]

Citations

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MycoHit institution(s)
Department of Medicine, McGill University, Montreal, QC, Canada
MycoHit funding source(s)
Supported by the Canadian Institutes for Health Research, MOP- 79309.

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