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2018
The pan-genome of a species is comprised of genes/sequences that are present in all individuals in the species (core genome) and genes/sequences that are present in only a subset of individuals within the species (dispensable genome). In maize, the study of the pan-genome began in the 1940s through cytogenetic experiments and has seen an increased ...
Alex B. Brohammer +2 more
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The pan-genome of a species is comprised of genes/sequences that are present in all individuals in the species (core genome) and genes/sequences that are present in only a subset of individuals within the species (dispensable genome). In maize, the study of the pan-genome began in the 1940s through cytogenetic experiments and has seen an increased ...
Alex B. Brohammer +2 more
openaire +1 more source
Pan-Genome of Brucella Species
Indian Journal of Microbiology, 2014Whole-genome sequencing of bacterial pathogens has high impact on diagnosis and development of prophylaxis to human and veterinary disease. To study the genetic variations and relatedness among Brucella spp., we have examined the pan-genomic content of 18 Brucella complete genomes from NCBI using GView and Panseq server.
Jagadesan Sankarasubramanian +4 more
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Exploring Frequented Regions in Pan-Genomic Graphs
IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2017We consider the problem of identifying regions within a pan-genome De Bruijn graph that are traversed by many sequence paths. We define such regions and the subpaths that traverse them as frequented regions (FRs). In this work, we formalize the FR problem and describe an efficient algorithm for finding FRs. Subsequently, we propose some applications of
Alan Cleary +4 more
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Transposable elements and the plant pan-genomes
Current Opinion in Plant Biology, 2007The comparative sequencing of several grass genomes has revealed that transposable elements are largely responsible for extensive variation in both intergenic and local genic content, not only between closely related species but also among individuals within a species.
MORGANTE, Michele +2 more
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2019
The notion of pan-genome or genome graph, understood as the representation of all variant genomes of one or more closely related species, is gaining attractiveness to replace the classical, sequence-based, linear reference genome. Indeed, one of main reasons why most analyses are based on the linear reference genome is simplicity: simplicity of ...
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The notion of pan-genome or genome graph, understood as the representation of all variant genomes of one or more closely related species, is gaining attractiveness to replace the classical, sequence-based, linear reference genome. Indeed, one of main reasons why most analyses are based on the linear reference genome is simplicity: simplicity of ...
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lettuce pan genome construction
This project includes 12 lettuce assembly genomes, then constructs a graph-based pan genome.openaire +1 more source
The Danish reference pan genome
2014Sequencing of Danish parent-offspring trios to determine genomic variation within the Danish population. First release comprises of ten trios sequenced to 50X using libraries of insert sizes from 180nt to 800nt.
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Pan-genome analysis of 33 genetically diverse rice accessions reveals hidden genomic variations
Cell, 2021Peng Qin, Huilong Du, Zhuo Chen
exaly