GeMo: a web-based platform for the visualization and curation of genome ancestry mosaics.
Journal
Database : the journal of biological databases and curation
ISSN: 1758-0463
Titre abrégé: Database (Oxford)
Pays: England
ID NLM: 101517697
Informations de publication
Date de publication:
14 07 2022
14 07 2022
Historique:
received:
06
04
2022
revised:
17
06
2022
accepted:
30
06
2022
entrez:
18
7
2022
pubmed:
19
7
2022
medline:
22
7
2022
Statut:
ppublish
Résumé
In silico chromosome painting is a technique by which contributions of distinct genetic groups are represented along chromosomes of hybrid individuals. This type of analysis is used to study the mechanisms by which these individuals were formed. Such techniques are well adapted to identify genetic groups contributing to these individuals as well as hybridization events. It can also be used to follow chromosomal recombinations that occurred naturally or were generated by selective breeding. Here, we present GeMo, a novel interactive web-based and user-oriented interface to visualize in a linear-based fashion results of in silico chromosome painting. To facilitate data input generation, a script to execute analytical commands is provided and an interactive data curation mode is supported to ensure consistency of the automated procedure. GeMo contains preloaded datasets from published studies on crop domestication but can be applied to other purposes, such as breeding programs Although only applied so far on plants, GeMo can handle data from animals as well. Database URL: https://gemo.southgreen.fr/.
Identifiants
pubmed: 35849014
pii: 6645005
doi: 10.1093/database/baac057
pmc: PMC9290862
pii:
doi:
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Informations de copyright
© The Author(s) 2022. Published by Oxford University Press.
Références
Bioinformatics. 2016 Aug 1;32(15):2366-8
pubmed: 27153580
Nat Genet. 2020 Oct;52(10):1099-1110
pubmed: 32989325
Bioinformatics. 2017 Oct 01;33(19):3088-3090
pubmed: 28575171
Nat Genet. 2017 Aug 30;49(9):1297-1303
pubmed: 28854179
Nat Rev Genet. 2015 Jun;16(6):359-71
pubmed: 25963373
Genome Biol Evol. 2019 May 1;11(5):1358-1373
pubmed: 31002105
Chromosome Res. 2016 May;24(2):217-23
pubmed: 26791998
Sci Rep. 2018 Jan 22;8(1):1353
pubmed: 29358676
Trends Genet. 2020 Jun;36(6):415-428
pubmed: 32396835
G3 (Bethesda). 2020 Feb 6;10(2):569-579
pubmed: 31862786
Bioinformatics. 2018 Apr 1;34(7):1229-1231
pubmed: 29186362
Ann Bot. 2019 Jul 8;123(7):1231-1251
pubmed: 30924905
Brief Bioinform. 2019 Sep 27;20(5):1709-1724
pubmed: 30010715
Natl Sci Rev. 2020 Nov 07;8(5):nwaa277
pubmed: 34691642
Annu Rev Genet. 2021 Nov 23;55:265-283
pubmed: 34579539
J Hered. 2014;105 Suppl 1:795-809
pubmed: 25149255
Mol Biol Evol. 2019 Jan 1;36(1):97-111
pubmed: 30403808
Ann Bot. 2021 Jan 1;127(1):7-20
pubmed: 32104882
Front Plant Sci. 2019 Feb 01;10:4
pubmed: 30774638
New Phytol. 2019 Feb;221(3):1279-1288
pubmed: 30368812
Nat Commun. 2020 Sep 11;11(1):4572
pubmed: 32917907
Plant J. 2020 Jun;102(5):1008-1025
pubmed: 31930580
Gigascience. 2014 May 28;3:8
pubmed: 24872878
PeerJ Comput Sci. 2020 Jan 20;6:e251
pubmed: 33816903