Gebruikersprofielen voor author:"Jean Géraldine"
Géraldine JeanAssociate Professor, Université of Nantes, LS2N Geverifieerd e-mailadres voor univ-nantes.fr Geciteerd door 2439 |
[HTML][HTML] Multiple reference genomes and transcriptomes for Arabidopsis thaliana
Genetic differences between Arabidopsis thaliana accessions underlie the plant's extensive
phenotypic variation, and until now these have been interpreted largely in the context of the
annotated reference accession Col-0. Here we report the sequencing, assembly and …
phenotypic variation, and until now these have been interpreted largely in the context of the
annotated reference accession Col-0. Here we report the sequencing, assembly and …
[HTML][HTML] Structure and co-occurrence patterns in microbial communities under acute environmental stress reveal ecological factors fostering resilience
D Mandakovic, C Rojas, J Maldonado, M Latorre… - Scientific reports, 2018 - nature.com
Understanding the factors that modulate bacterial community assembly in natural soils is a
longstanding challenge in microbial community ecology. In this work, we compared two
microbial co-occurrence networks representing bacterial soil communities from two different …
longstanding challenge in microbial community ecology. In this work, we compared two
microbial co-occurrence networks representing bacterial soil communities from two different …
RNA‐Seq read alignments with PALMapper
Next‐generation sequencing technologies have revolutionized genome and transcriptome
sequencing. RNA‐Seq experiments are able to generate huge amounts of transcriptome
sequence reads at a fraction of the cost of Sanger sequencing. Reads produced by these …
sequencing. RNA‐Seq experiments are able to generate huge amounts of transcriptome
sequence reads at a fraction of the cost of Sanger sequencing. Reads produced by these …
[HTML][HTML] Algorithms for computing the double cut and join distance on both gene order and intergenic sizes
Combinatorial works on genome rearrangements have so far ignored the influence of
intergene sizes, ie the number of nucleotides between consecutive genes, although it was
recently shown decisive for the accuracy of inference methods (Biller et al. in Genome Biol …
intergene sizes, ie the number of nucleotides between consecutive genes, although it was
recently shown decisive for the accuracy of inference methods (Biller et al. in Genome Biol …
[HTML][HTML] Super short operations on both gene order and intergenic sizes
The evolutionary distance between two genomes can be estimated by computing a
minimum length sequence of operations, called genome rearrangements, that transform one
genome into another. Usually, a genome is modeled as an ordered sequence of genes, and …
minimum length sequence of operations, called genome rearrangements, that transform one
genome into another. Usually, a genome is modeled as an ordered sequence of genes, and …
Sorting by genome rearrangements on both gene order and intergenic sizes
During the evolutionary process, genomes are affected by various genome rearrangements,
that is, events that modify large stretches of the genetic material. In the literature, a large
number of models have been proposed to estimate the number of events that occurred …
that is, events that modify large stretches of the genetic material. In the literature, a large
number of models have been proposed to estimate the number of events that occurred …
Genome rearrangements: a correct algorithm for optimal capping
G Jean, M Nikolski - Information Processing Letters, 2007 - Elsevier
Abstract In this Letter we propose two results in application to rearrangements of multichromosomal
genomes: first, a literature synthesis providing a classification for breakpoint graph
components; and second, a new algorithm for optimal capping with a proof of its correction. © …
genomes: first, a literature synthesis providing a classification for breakpoint graph
components; and second, a new algorithm for optimal capping with a proof of its correction. © …
[HTML][HTML] Hybrid de novo tandem repeat detection using short and long reads
As one of the most studied genome rearrangements, tandem repeats have a considerable
impact on genetic backgrounds of inherited diseases. Many methods designed for tandem
repeat detection on reference sequences obtain high quality results. However, in the case of …
impact on genetic backgrounds of inherited diseases. Many methods designed for tandem
repeat detection on reference sequences obtain high quality results. However, in the case of …
Super short reversals on both gene order and intergenic sizes
The evolutionary distance between two genomes can be estimated by computing the
minimum length sequence of operations, called genome rearrangements, that transform one
genome into another. Usually, a genome is modeled as an ordered sequence of (possibly …
minimum length sequence of operations, called genome rearrangements, that transform one
genome into another. Usually, a genome is modeled as an ordered sequence of (possibly …
A 3.5-Approximation Algorithm for Sorting by Intergenic Transpositions
Genome Rearrangements affect large stretches of genomes during evolution. One of the
most studied genome rearrangement is the transposition, which occurs when a sequence of
genes is moved to another position inside the genome. Mathematical models have been …
most studied genome rearrangement is the transposition, which occurs when a sequence of
genes is moved to another position inside the genome. Mathematical models have been …