Marilyne Summo
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View article: SynFlow: an interactive online genome structural variants viewer
SynFlow: an interactive online genome structural variants viewer Open
Motivation: Structural variations (SVs), including inversions, translocations, duplications, and large insertions or deletions, are key drivers of genome evolution and phenotypic diversity. With the increasing number of high-quality, chro…
View article: Construction of a comprehensive library of repeated sequences for the annotation of Citrus genomes
Construction of a comprehensive library of repeated sequences for the annotation of Citrus genomes Open
Combining multiple repeat detection methods enables the comprehensive annotation of all repeated sequences in Citrus genomes. Using the final reference library reported in this work will improve our understanding of the dynamics of repeate…
View article: PanExplorer: a web-based tool for exploratory analysis and visualization of bacterial pan-genomes
PanExplorer: a web-based tool for exploratory analysis and visualization of bacterial pan-genomes Open
Motivation As pan-genome approaches are largely employed for bacterial comparative genomics and evolution analyses, but still difficult to be carried out by non-bioinformatician biologists, there is a need for an innovative tool facilitati…
View article: GeMo : a web-based platform for the visualization and curation of mosaic genomes
GeMo : a web-based platform for the visualization and curation of mosaic genomes Open
Dataset to perform TraceAncestor or VCFHunter
View article: GeMo : a web-based platform for the visualization and curation of mosaic genomes
GeMo : a web-based platform for the visualization and curation of mosaic genomes Open
Dataset to perform TraceAncestor or VCFHunter
View article: GeMo : a web-based platform for the visualization and curation of mosaic genomes
GeMo : a web-based platform for the visualization and curation of mosaic genomes Open
Dataset that will be used by TraceAncestor or by VCFHunter. Reference for dataset Baurens,F.-C. et al.(2019) Recombination and Large Structural Variations Shape Interspecific Edible Bananas Genomes. Mol Biol Evol, 36, 97–111. Martin et al.…
View article: GeMo : a web-based platform for the visualization and curation of mosaic genomes
GeMo : a web-based platform for the visualization and curation of mosaic genomes Open
Dataset that will be used by TraceAncestor or by VCFHunter. Reference for dataset Baurens,F.-C. et al.(2019) Recombination and Large Structural Variations Shape Interspecific Edible Bananas Genomes. Mol Biol Evol, 36, 97–111. Martin et al.…
View article: GeMo: a web-based platform for the visualization and curation of genome ancestry mosaics
GeMo: a web-based platform for the visualization and curation of genome ancestry mosaics Open
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 f…
View article: The banana genome hub: a community database for genomics in the Musaceae
The banana genome hub: a community database for genomics in the Musaceae Open
The Banana Genome Hub provides centralized access for genome assemblies, annotations, and the extensive related omics resources available for bananas and banana relatives. A series of tools and unique interfaces are implemented to harness …
View article: A new comprehensive annotation of leucine‐rich repeat‐containing receptors in rice
A new comprehensive annotation of leucine‐rich repeat‐containing receptors in rice Open
SUMMARY Oryza sativa (rice) plays an essential food security role for more than half of the world’s population. Obtaining crops with high levels of disease resistance is a major challenge for breeders, especially today, given the urgent ne…
View article: A New Comprehensive Annotation of Leucine-Rich Repeat-Containing Receptors in Rice
A New Comprehensive Annotation of Leucine-Rich Repeat-Containing Receptors in Rice Open
Datasets for preprint (https://doi.org/10.1101/2021.01.29.428842) entitled "A new comprehensive Annotation of Leucine-Rich Repeat-Containing Receptors in Rice". This paper describes an in-depth manual curation of LRR-CR annotations includi…
View article: A New Comprehensive Annotation of Leucine-Rich Repeat-Containing Receptors in Rice
A New Comprehensive Annotation of Leucine-Rich Repeat-Containing Receptors in Rice Open
Datasets for preprint (https://doi.org/10.1101/2021.01.29.428842) entitled "A new comprehensive Annotation of Leucine-Rich Repeat-Containing Receptors in Rice". This paper describes an in-depth manual curation of LRR-CR annotations includi…
View article: A New ‘Comprehensive’ Annotation of Leucine-Rich Repeat-Containing Receptors in Rice
A New ‘Comprehensive’ Annotation of Leucine-Rich Repeat-Containing Receptors in Rice Open
Rice plays an essential food security role for more than half of the world’s population. Obtaining crops with high levels of disease resistance is a major challenge for breeders, especially today given the urgent need for agriculture to be…
View article: Genetic effect in leaf and xylem transcriptome variations among Eucalyptus urophylla x grandis hybrids in field conditions
Genetic effect in leaf and xylem transcriptome variations among Eucalyptus urophylla x grandis hybrids in field conditions Open
To assess the genetic and environmental components of gene-expression variation among trees we used RNA-seq technology and Eucalyptus urophylla x grandis hybrid clones tested in field conditions. Leaf and xylem transcriptomes of three 20 m…
View article: The South Green Bioinformatics platform, a comprehensive resource for crop genomics
The South Green Bioinformatics platform, a comprehensive resource for crop genomics Open
Analysis and visualization of massive genomics datasets are an ongoing trend in plant sciences. The South Green Bioinformatics platform provides an ecosystem of tools that were originally developed as independent entities to fulfill the ne…
View article: South Green bioinformatics platform: Update 2015
South Green bioinformatics platform: Update 2015 Open
In 2015, the South Green Bioinformatics Platform http://www.southgreen.fr/ is a network of 35 bioinformaticians from five biology research institutes working with two High - Performance Computing Data Centres to develop and use new tools f…