Segolene Caboche

Segolene Caboche

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Segolene Caboche

Segolene Caboche

Publications by authors named "Segolene Caboche"

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

J Clin Virol 2020 Jan 16;122:104206. Epub 2019 Nov 16.

Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR8204 - Center for Infection and Immunity of Lille, F-59000, Lille, France. Electronic address:

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http://dx.doi.org/10.1016/j.jcv.2019.104206DOI Listing
January 2020

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

Microorganisms 2019 Sep 26;7(10). Epub 2019 Sep 26.

Université Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019-UMR 8204-CIIL-Centre d'Infection et d'Immunité de Lille, 59000 Lille, France.

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http://dx.doi.org/10.3390/microorganisms7100393DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6843237PMC
September 2019

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

Virology 2019 05 9;531:141-148. Epub 2019 Mar 9.

Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR8204 - CIIL - Center for Infection and Immunity of Lille, F-59000 Lille, France. Electronic address:

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http://dx.doi.org/10.1016/j.virol.2019.03.006DOI Listing
May 2019

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

Arch Toxicol 2018 07 26;92(7):2327-2338. Epub 2018 May 26.

Univ. Lille, Inserm, CHU Lille, U995-LIRIC-Lille Inflammation Research International Center, 59000, Lille, France.

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http://dx.doi.org/10.1007/s00204-018-2228-6DOI Listing
July 2018

[Prospects for applications in human health of nanopore-based sequencing].

Med Sci (Paris) 2018 Apr 16;34(4):319-325. Epub 2018 Apr 16.

Univ Lille, CNRS, Inserm, CHU de Lille, Institut Pasteur de Lille, U1019-UMR 8204-CIIL-Centre d'Infection et d'Immunité de Lille, 1, rue du professeur Calmette, F-59000 Lille, France - Pegase-Biosciences, Institut Pasteur de Lille, 1, rue du professeur Calmette, 59019 Lille, France.

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http://dx.doi.org/10.1051/medsci/20183404012DOI Listing
April 2018

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

Genome Biol 2017 12 19;18(1):233. Epub 2017 Dec 19.

University of Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019-UMR 8204-CIIL-Centre d'Infection et d'Immunité de Lille, F-59000, Lille, France.

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http://dx.doi.org/10.1186/s13059-017-1367-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5738152PMC
December 2017

Assessment of Common and Emerging Bioinformatics Pipelines for Targeted Metagenomics.

PLoS One 2017 4;12(1):e0169563. Epub 2017 Jan 4.

Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Lille, France.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0169563PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5215245PMC
August 2017

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

Sci Data 2017 06 27;4:170081. Epub 2017 Jun 27.

Univ. Lille, CNRS, Inserm, CHU de Lille, Institut Pasteur de Lille, U1019-UMR 8204-CIIL-Centre d'Infection et d'Immunité de Lille, Lille 59019, France.

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http://dx.doi.org/10.1038/sdata.2017.81DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5486356PMC
June 2017

[High-throughput sequencing: towards a genome-based diagnosis in infectious diseases].

Med Sci (Paris) 2014 Dec 24;30(12):1144-51. Epub 2014 Dec 24.

FRE3642, Université de Lille, France - Pegase-Biosciences, Institut Pasteur de Lille, 1, rue du professeur Calmette, 59019 Lille, France.

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http://dx.doi.org/10.1051/medsci/20143012018DOI Listing
December 2014

Biosynthesis: bioinformatics bolster a renaissance.

Nat Chem Biol 2014 Oct;10(10):798-800

Transcriptomics and Applied Genomics CIIL-Institut Pasteur de Lille, FRE 3642 Molecular and Cellular Medecine, CNRS and Université Lille Nord de France, Lille, France.

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http://dx.doi.org/10.1038/nchembio.1634DOI Listing
October 2014

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

BMC Genomics 2014 Apr 5;15:264. Epub 2014 Apr 5.

FRE 3642 Molecular and Cellular Medecine, CNRS, Institut Pasteur de Lille and Univ Lille Nord de France, Lille, France.

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http://dx.doi.org/10.1186/1471-2164-15-264DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4051166PMC
April 2014

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

Pathogens 2014 Apr 2;3(2):258-79. Epub 2014 Apr 2.

FRE 3642 Molecular and Cellular Medecine, CNRS, Institut Pasteur de Lille and University Lille Nord de France, Lille 59019, France.

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http://dx.doi.org/10.3390/pathogens3020258DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4243446PMC
April 2014

LeView: automatic and interactive generation of 2D diagrams for biomacromolecule/ligand interactions.

J Cheminform 2013 Aug 29;5(1):40. Epub 2013 Aug 29.

Protein Data Bank in Europe, EMBL-EBI, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK.

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http://dx.doi.org/10.1186/1758-2946-5-40DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3765711PMC
August 2013

A new fingerprint to predict nonribosomal peptides activity.

J Comput Aided Mol Des 2012 Oct 29;26(10):1187-94. Epub 2012 Sep 29.

LIFL UMR CNRS 8022 Université Lille 1 and INRIA Lille Nord Europe, Villeneuve d'Ascq cedex, France.

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http://dx.doi.org/10.1007/s10822-012-9608-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3482460PMC
October 2012

Diversity of monomers in nonribosomal peptides: towards the prediction of origin and biological activity.

J Bacteriol 2010 Oct 6;192(19):5143-50. Epub 2010 Aug 6.

ProBioGEM (UPRES EA 1026), Université Lille Nord de France, USTL, F59655 Villeneuve d'Ascq, France.

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http://dx.doi.org/10.1128/JB.00315-10DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2944527PMC
October 2010

Structural pattern matching of nonribosomal peptides.

BMC Struct Biol 2009 Mar 18;9:15. Epub 2009 Mar 18.

Computer Science Laboratory of Lille, UMR USTL/CNRS 8022, INRIA, F59655, Villeneuve d'Ascq, France.

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http://dx.doi.org/10.1186/1472-6807-9-15DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2674430PMC
March 2009

NORINE: a database of nonribosomal peptides.

Nucleic Acids Res 2008 Jan 2;36(Database issue):D326-31. Epub 2007 Oct 2.

Computer Science Laboratory of Lille (UMR USTL/CNRS 8022) and INRIA, and ProBioGEM (UPRES EA 1026), University of Sciences and Technologies of Lille, 59655 Villeneuve d'A;scq, France.

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http://dx.doi.org/10.1093/nar/gkm792DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2238963PMC
January 2008