Post hoc deconvolution of human mitochondrial DNA mixtures by EMMA 2 using fine-tuned Phylotree nomenclature

In this paper we present a new algorithm for splitting (partial) human mitogenomes into components with high similarity to haplogroup motifs of Phylotree. The algorithm reads a (partial) mitogenome coded by the differences to the reference (rCRS) and outputs the estimated haplogroups of the putative...

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Autores principales: Dür, Arne, Huber, Nicole, Röck, Alexander, Berger, Cordula, Amory, Christina, Parson, Walther
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Research Network of Computational and Structural Biotechnology 2022
Materias:
Research Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9283771/
https://www.ncbi.nlm.nih.gov/pubmed/35860401
http://dx.doi.org/10.1016/j.csbj.2022.06.053
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author Dür, Arne
Huber, Nicole
Röck, Alexander
Berger, Cordula
Amory, Christina
Parson, Walther
author_facet Dür, Arne
Huber, Nicole
Röck, Alexander
Berger, Cordula
Amory, Christina
Parson, Walther
author_sort Dür, Arne
collection PubMed
description In this paper we present a new algorithm for splitting (partial) human mitogenomes into components with high similarity to haplogroup motifs of Phylotree. The algorithm reads a (partial) mitogenome coded by the differences to the reference (rCRS) and outputs the estimated haplogroups of the putative components. The algorithm requires no special information on the raw data of the sequencing process and is therefore suited for the post hoc analysis of mixtures of any sequencing technology. The software EMMA 2 implementing the algorithm will be made available via the EMPOP (https://empop.online) database and extends the nine years old software EMMA for haplogrouping single mitogenomes to mixtures with at most three components.
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spelling pubmed-92837712022-07-19 Post hoc deconvolution of human mitochondrial DNA mixtures by EMMA 2 using fine-tuned Phylotree nomenclature Dür, Arne Huber, Nicole Röck, Alexander Berger, Cordula Amory, Christina Parson, Walther Comput Struct Biotechnol J Research Article In this paper we present a new algorithm for splitting (partial) human mitogenomes into components with high similarity to haplogroup motifs of Phylotree. The algorithm reads a (partial) mitogenome coded by the differences to the reference (rCRS) and outputs the estimated haplogroups of the putative components. The algorithm requires no special information on the raw data of the sequencing process and is therefore suited for the post hoc analysis of mixtures of any sequencing technology. The software EMMA 2 implementing the algorithm will be made available via the EMPOP (https://empop.online) database and extends the nine years old software EMMA for haplogrouping single mitogenomes to mixtures with at most three components. Research Network of Computational and Structural Biotechnology 2022-07-02 /pmc/articles/PMC9283771/ /pubmed/35860401 http://dx.doi.org/10.1016/j.csbj.2022.06.053 Text en © 2022 The Authors https://creativecommons.org/licenses/by/4.0/This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Research Article
Dür, Arne
Huber, Nicole
Röck, Alexander
Berger, Cordula
Amory, Christina
Parson, Walther
Post hoc deconvolution of human mitochondrial DNA mixtures by EMMA 2 using fine-tuned Phylotree nomenclature
title Post hoc deconvolution of human mitochondrial DNA mixtures by EMMA 2 using fine-tuned Phylotree nomenclature
title_full Post hoc deconvolution of human mitochondrial DNA mixtures by EMMA 2 using fine-tuned Phylotree nomenclature
title_fullStr Post hoc deconvolution of human mitochondrial DNA mixtures by EMMA 2 using fine-tuned Phylotree nomenclature
title_full_unstemmed Post hoc deconvolution of human mitochondrial DNA mixtures by EMMA 2 using fine-tuned Phylotree nomenclature
title_short Post hoc deconvolution of human mitochondrial DNA mixtures by EMMA 2 using fine-tuned Phylotree nomenclature
title_sort post hoc deconvolution of human mitochondrial dna mixtures by emma 2 using fine-tuned phylotree nomenclature
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9283771/
https://www.ncbi.nlm.nih.gov/pubmed/35860401
http://dx.doi.org/10.1016/j.csbj.2022.06.053
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