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Protocols

MitoTool specifications

Information


Unique identifier OMICS_07993
Name MitoTool
Interface Web user interface
Restrictions to use None
Computer skills Basic
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Maintainer


  • person_outline Yong-Gang Yao

Publications for MitoTool

MitoTool citations

 (42)
library_books

Deep Coverage MPS Analysis of Heteroplasmic Variants within the mtGenome Allows for Frequent Differentiation of Maternal Relatives

2018
Genes
PMCID: 5867845
PMID: 29495418
DOI: 10.3390/genes9030124

[…] Haplogroups were established using the collated major haplotype data and the Mitotool algorithm [] incorporating Phylotree build 15 or 16 []. […]

call_split

Correlations between mitochondrial DNA haplogroup D5 and chronic hepatitis B virus infection in Yunnan, China

2018
Sci Rep
PMCID: 5772044
PMID: 29343698
DOI: 10.1038/s41598-018-19184-6
call_split See protocol

[…] as assigned according to the latest version of the phylogenetic tree of human mtDNA (mtDNA tree Build 17, http://phylotree.org/tree/index.htm) and reconfirmed by the web-based bioinformatics platform mitotool (http://www.mitotool.org/). […]

library_books

Mitochondrial Mutations in Cholestatic Liver Disease with Biliary Atresia

2018
Sci Rep
PMCID: 5772057
PMID: 29343773
DOI: 10.1038/s41598-017-18958-8

[…] 35”, variant filter of “Ion homopolymer indels” and genetic code “2 vertebrate mitochondrial”. The mitochondrial DNA haplogroups and mutations in encoding regions were determined by using MITOMAP and MitoTool. […]

library_books

Involvement of the Spinal Cord in Mitochondrial Disorders

2018
PMCID: 5912032
PMID: 29725177
DOI: 10.4103/jnrp.jnrp_446_17

[…] MITOMAP (https://www.mitomap.org/foswiki/bin/view/MITOMAP/ClinicalPhenotypesRNA), Neuromuscular Disease Center Database (http://neuromuscular.wustl.edu/mitosyn.html#merrf), and MitoTools (http://www. mitotool.org/database.html). […]

call_split

The complete mitochondrial genome of parasitic nematode Camallanus cotti: extreme discontinuity in the rate of mitogenomic architecture evolution within the Chromadorea class

2017
BMC Genomics
PMCID: 5669012
PMID: 29096600
DOI: 10.1186/s12864-017-4237-x
call_split See protocol

[…] fully examined for the existence of tRNA-like sequences. Ambiguous tRNAs were additionally visually aligned with homologs extracted from all analysed mitogenomes using a custom-made GUI-based program MitoTool []. Annotation of tRNAs proved to very ambiguous, mostly as a result of many tRNA genes with non-standard sequences and/or secondary structures. We have tweaked the annotation several times, […]

call_split

Sequencing of the complete mitochondrial genome of a fish parasitic flatworm Paratetraonchoides inermis (Platyhelminthes: Monogenea): tRNA gene arrangement reshuffling and implications for phylogeny

2017
PMCID: 5633893
PMID: 29017532
DOI: 10.1186/s13071-017-2404-1
call_split See protocol

[…] ise boundaries determined by alignment with closely related orthologs in Geneious. The NCBI submission file and tables with statistics for mt genomes were created using a home-made GUI-based program, MitoTool []. A nucleotide composition table was then used to make the broken line graph of skewness and A + T content in ggplot2 []. Codon usage and relative synonymous codon usage (RSCU) for 12 prote […]

Citations

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MitoTool institution(s)
Key Laboratory of Animal Models and Human Disease Mechanisms of the Chinese Academy of Sciences & Yunnan Province, Kunming Institute of Zoology, Kunming, Yunnan, China
MitoTool funding source(s)
This work was supported by the National Science Foundation of China (30925021), the Top Talents Program of Yunnan Province (2009CI119) and the Chinese Academy of Sciences.

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