S. Caboche

发表

Oral exposure to polyethylene microplastics alters gut morphology, immune response, and microbiota composition in mice.

L. Dubuquoy, M. Djouina, C. Vignal, 2022, Environmental research.

Exposure to atmospheric Ag, TiO2, Ti and SiO2 engineered nanoparticles modulates gut inflammatory response and microbiota in mice.

L. Dubuquoy, M. Choël, K. Deboudt, 2022, Ecotoxicology and environmental safety.

The Impact of Bioinformatics Pipelines on Microbiota Studies: Does the Analytical “Microscope” Affect the Biological Interpretation?

G. Even, S. Caboche, Léa Siegwald, 2019, Microorganisms.

Comparison of mapping algorithms used in high-throughput sequencing: application to Ion Torrent data

S. Caboche, D. Hot, C. Audebert, 2014, BMC Genomics.

Assessment of Common and Emerging Bioinformatics Pipelines for Targeted Metagenomics

Hélène Touzet, Ségolène Caboche, H. Touzet, 2017, PloS one.

High-Throughput Sequencing, a Versatile Weapon to Support Genome-Based Diagnosis in Infectious Diseases: Applications to Clinical Bacteriology

Ségolène Caboche, S. Caboche, D. Hot, 2014, Pathogens.

A complete protocol for whole-genome sequencing of virus from clinical samples: Application to coronavirus OC43

H. Touzet, F. Maurier, A. Goffard, 2019, Virology.

Genetic basis for virulence differences of various Cryptosporidium parvum carcinogenic isolates

C. Creusy, H. Touzet, S. Caboche, 2020, Scientific Reports.

PDBe: Protein Data Bank in Europe

Ingvar C. Lagerstedt, Alan W. Sousa da Silva, Robert A. Slowley, 2010, Nucleic Acids Res..

Biosynthesis: bioinformatics bolster a renaissance.

S. Caboche, 2014, Nature chemical biology.

Murine in utero exposure to simulated complex urban air pollution disturbs offspring gut maturation and microbiota during intestinal suckling-to-weaning transition in a sex-dependent manner

L. Dubuquoy, E. Al Marj, M. Djouina, 2022, Particle and fibre toxicology.

MICRA: an automatic pipeline for fast characterization of microbial genomes from high-throughput sequencing data

G. Even, S. Caboche, D. Hot, 2017, Genome Biology.

Primary transcriptome analysis reveals importance of IS elements for the shaping of the transcriptional landscape of Bordetella pertussis

C. Locht, B. Večerek, R. Antoine, 2018, RNA biology.

Chronic ingestion of deoxynivalenol at human dietary levels impairs intestinal homeostasis and gut microbiota in mice

M. Djouina, C. Vignal, S. Caboche, 2018, Archives of Toxicology.

PREPRINT Comparative assessment of long-read error-correction software applied to RNA-sequencing data

Corinne Da Silva, R. Chikhi, J. Aury, 2019 .

Chronic ingestion of deoxynivalenol at human dietary levels impairs intestinal homeostasis and gut microbiota in mice

M. Djouina, C. Vignal, S. Caboche, 2018, Archives of Toxicology.

Comparison of mapping algorithms used in high-throughput sequencing: application to Ion Torrent data

S. Caboche, D. Hot, C. Audebert, 2014, BMC Genomics.

Rubrolone production by Dactylosporangium vinaceum: biosynthesis, modulation and possible biological function

H. Drobecq, F. Maurier, S. Caboche, 2021, Applied Microbiology and Biotechnology.

PDBe: Protein Data Bank in Europe

Sameer Velankar, Swanand P. Gore, Gerard J. Kleywegt, 2009, Nucleic Acids Res..

Comparative assessment of long-read error correction software applied to Nanopore RNA-sequencing data

Rayan Chikhi, Hélène Touzet, Ségolène Caboche, 2019, Briefings Bioinform..

MICRA: an automatic pipeline for fast characterization of microbial genomes from high-throughput sequencing data

G. Even, S. Caboche, D. Hot, 2017, Genome Biology.

Comparative assessment of long-read error-correction software applied to RNA-sequencing data

Hélène Touzet, Ségolène Caboche, Camille Marchet, 2018, bioRxiv.

In Utero Exposure to Simulated Complex Urban Air Pollution Disturbs Intestinal Suckling-to-Weaning Transition in Mice

L. Dubuquoy, M. Djouina, C. Vignal, 2021 .

A new fingerprint to predict nonribosomal peptides activity

Ammar Abdo, Valérie Leclère, Ségolène Caboche, 2012, Journal of Computer-Aided Molecular Design.

Modelling the Impact of Chronic Cigarette Smoke Exposure in Obese Mice: Metabolic, Pulmonary, Intestinal, and Cardiac Issues

M. Chwastyniak, F. Pinet, E. Dubois-Deruy, 2020, Nutrients.

Use of whole-genome sequencing in the molecular investigation of care-associated HCoV-OC43 infections in a hematopoietic stem cell transplant unit

J. Dubuisson, H. Touzet, F. Maurier, 2019, Journal of Clinical Virology.

NORINE: a database of nonribosomal peptides

Gregory Kucherov, Valérie Leclère, Ségolène Caboche, 2007, Nucleic Acids Res..

Diversity of Monomers in Nonribosomal Peptides: towards the Prediction of Origin and Biological Activity

Gregory Kucherov, Maude Pupin, Philippe Jacques, 2010, Journal of bacteriology.

and Biological Activity Peptides: towards the Prediction of Origin Diversity of Monomers in Nonribosomal

S. Caboche, M. Pupin, P. Jacques, 2014 .

Algorithms for large-scale sequence analysis for molecular biology

Sébastien Le Maguer, Sylvain Guillemot, Gregory Kucherov, 2007 .

PDBe: Protein Data Bank in Europe

Sameer Velankar, Gerard J. Kleywegt, Wim F. Vranken, 2009, Nucleic Acids Res..

Targeted metagenomic sequencing data of human gut microbiota associated with Blastocystis colonization

G. Even, S. Caboche, E. Viscogliosi, 2017, Scientific Data.

Structural pattern matching of nonribosomal peptides

Gregory Kucherov, Valérie Leclère, Ségolène Caboche, 2009, BMC Structural Biology.

CuReSim-LoRM: A Tool to Simulate Metabarcoding Long Reads

S. Caboche, Yasmina Mesloub, Delphine Beury, 2023, International Journal of Molecular Sciences.