Macha Nikolski

Macha Nikolski

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Macha Nikolski

Macha Nikolski

Publications by authors named "Macha Nikolski"

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37Publications

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Diversity of HIV-1 in Aquitaine, Southwestern France, 2012-2016.

AIDS Res Hum Retroviruses 2018 05 22;34(5):471-473. Epub 2018 Mar 22.

1 Department of Biology and Pathology, University Hospital of Bordeaux , Bordeaux, France .

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http://dx.doi.org/10.1089/AID.2017.0298DOI Listing
May 2018

MICADo - Looking for Mutations in Targeted PacBio Cancer Data: An Alignment-Free Method.

Front Genet 2016 8;7:214. Epub 2016 Dec 8.

Centre de BioInformatique de Bordeaux, University of BordeauxBordeaux, France; Laboratoire Bordelais de Recherche en Informatique, Centre National de la Recherche Scientifique, University of BordeauxBordeaux, France.

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http://dx.doi.org/10.3389/fgene.2016.00214DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5143680PMC
December 2016

Aptamer selection by direct microfluidic recovery and surface plasmon resonance evaluation.

Biosens Bioelectron 2016 Jun 3;80:418-425. Epub 2016 Feb 3.

University of Bordeaux, Laboratoire ARNA, Bordeaux F-33000, France; INSERM U1212-CNRS UMR 5320, IECB, Pessac F-33600, France. Electronic address:

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http://dx.doi.org/10.1016/j.bios.2016.02.003DOI Listing
June 2016

Genome-wide association links candidate genes to resistance to Plum Pox Virus in apricot (Prunus armeniaca).

New Phytol 2016 Jan 10;209(2):773-84. Epub 2015 Sep 10.

UMR 1332 Biologie du Fruit et Pathologie, Equipe de Virologie, INRA, Université de Bordeaux, CS20032, F-33882, Villenave d'Ornon, France.

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http://dx.doi.org/10.1111/nph.13627DOI Listing
January 2016

xHeinz: an algorithm for mining cross-species network modules under a flexible conservation model.

Bioinformatics 2015 Oct 27;31(19):3147-55. Epub 2015 May 27.

Life Sciences, Centrum Wiskunde & Informatica (CWI), Amsterdam, The Netherlands, Centre for Integrative Bioinformatics VU, VU University Amsterdam, The Netherlands, Erable Team, INRIA, Lyon, France.

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http://bioinformatics.oxfordjournals.org/content/31/19/3147.
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http://bioinformatics.oxfordjournals.org/lookup/doi/10.1093/
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http://dx.doi.org/10.1093/bioinformatics/btv316DOI Listing
October 2015

Finding and identifying the viral needle in the metagenomic haystack: trends and challenges.

Front Microbiol 2014 7;5:739. Epub 2015 Jan 7.

Bordeaux Bioinformatics Center, Université de Bordeaux Bordeaux, France ; Centre National de la Recherche Scientifique/Laboratoire Bordelais de Recherche en Informatique, Université de Bordeaux Talence, France.

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http://dx.doi.org/10.3389/fmicb.2014.00739DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4285800PMC
January 2015

The family based variability in protein family expansion.

Int J Bioinform Res Appl 2013 ;9(2):121-33

CNRS/LaBRI, Universite Bordeaux 1, Talence Cedex, France.

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http://inderscience.metapress.com/index/NR688L207137G0Q3.pdf
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http://www.inderscience.com/link.php?id=52473
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http://dx.doi.org/10.1504/IJBRA.2013.052473DOI Listing
March 2014

Further steps in TANGO: improved taxonomic assignment in metagenomics.

Bioinformatics 2014 Jan 3;30(1):17-23. Epub 2013 May 3.

Department of Software, Technical University of Catalonia, E-08034 Barcelona, Spain, Université Bordeaux, Bordeaux Bioinformatics Center (CBiB), F-33000 Bordeaux, France, Dipartimento di Informatica Sistemistica e Comunicazione, Università Degli Studi di Milano-Bicocca, I-20125 Milan, Italy and Université Bordeaux, Laboratoire Bordelais de Recherche en Informatique (CNRS/LaBRI), F-33405 Talence, France.

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http://dx.doi.org/10.1093/bioinformatics/btt256DOI Listing
January 2014

Identification of conserved gene clusters in multiple genomes based on synteny and homology.

BMC Bioinformatics 2011 Oct 5;12 Suppl 9:S18. Epub 2011 Oct 5.

LaBRI, CNRS/Université Bordeaux 1, 351 crs Libération, 33405 Talence, France.

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http://dx.doi.org/10.1186/1471-2105-12-S9-S18DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3283307PMC
October 2011

SyDiG: uncovering Synteny in Distant Genomes.

Int J Bioinform Res Appl 2011 ;7(1):43-62

Friedrich Miescher Laboratory of the Max Planck Society, Tuebingen, Germany.

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http://dx.doi.org/10.1504/IJBRA.2011.039169DOI Listing
June 2011

MeRy-B: a web knowledgebase for the storage, visualization, analysis and annotation of plant NMR metabolomic profiles.

BMC Plant Biol 2011 Jun 13;11:104. Epub 2011 Jun 13.

Université de Bordeaux, Centre de Bioinformatique de Bordeaux, Génomique Fonctionnelle Bordeaux, F-33076 Bordeaux, France.

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http://dx.doi.org/10.1186/1471-2229-11-104DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3141636PMC
June 2011

Mining the semantics of genome super-blocks to infer ancestral architectures.

J Comput Biol 2009 Sep;16(9):1267-84

Université Bordeaux , CNRS LaBRI, INRIA project-team MAGNOME, 351 cours de la Libération, 33405 Talence, France.

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http://dx.doi.org/10.1089/cmb.2008.0046DOI Listing
September 2009

Exploratory simulation of cell ageing using hierarchical models.

Genome Inform 2008 ;21:114-25

Max-Planck Institute for Molecular Genetics, Berlin, Germany.

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July 2009

Génolevures: protein families and synteny among complete hemiascomycetous yeast proteomes and genomes.

Nucleic Acids Res 2009 Jan 16;37(Database issue):D550-4. Epub 2008 Nov 16.

LaBRI, Laboratoire Bordelais de Recherche en Informatique, UMR CNRS 5800, 33405 Talence cedex, France.

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http://dx.doi.org/10.1093/nar/gkn859DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2686504PMC
January 2009

Fusion and fission of genes define a metric between fungal genomes.

PLoS Comput Biol 2008 Oct 24;4(10):e1000200. Epub 2008 Oct 24.

MAGNOME Team, INRIA Centre de Recherche Bordeaux- Sud-Ouest, Laboratoire Bordelais de Recherche en Informatique, UMR 5800 CNRS, Domaine Universitaire, Talence Cedex, France.

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http://dx.doi.org/10.1371/journal.pcbi.1000200DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2557144PMC
October 2008

Extrapolation of metabolic pathways as an aid to modelling completely sequenced nonSaccharomyces yeasts.

FEMS Yeast Res 2008 Feb 22;8(1):132-9. Epub 2007 Aug 22.

LaBRI - Université Bordeaux 1, France.

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http://dx.doi.org/10.1111/j.1567-1364.2007.00290.xDOI Listing
February 2008

Family relationships: should consensus reign?--consensus clustering for protein families.

Bioinformatics 2007 Jan;23(2):e71-6

CNRS/LaBRI, Université Bordeaux 1 351 cours de la Libération, 33405 Talence Cedex, France.

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http://dx.doi.org/10.1093/bioinformatics/btl314DOI Listing
January 2007

Genolevures complete genomes provide data and tools for comparative genomics of hemiascomycetous yeasts.

Nucleic Acids Res 2006 Jan;34(Database issue):D432-5

LaBRI, Laboratoire Bordelais de Recherche en Informatique, UMR CNRS 5800, 351 cours de la Libération, 33405 Talence cedex, France.

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http://dx.doi.org/10.1093/nar/gkj160DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1347522PMC
January 2006

ProViz: protein interaction visualization and exploration.

Bioinformatics 2005 Jan 3;21(2):272-4. Epub 2004 Sep 3.

LaBRI UMR 5800, Université Bordeaux 1 351 cours de la Libération, 33405 Talence Cedex, France.

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https://academic.oup.com/bioinformatics/article-lookup/doi/1
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http://dx.doi.org/10.1093/bioinformatics/bth494DOI Listing
January 2005

Génolevures: comparative genomics and molecular evolution of hemiascomycetous yeasts.

Nucleic Acids Res 2004 Jan;32(Database issue):D315-8

LaBRI, Laboratoire Bordelais de Recherche en Informatique, UMR CNRS 5800, 351 cours de la Libération, 33405 Talence cedex, France.

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http://dx.doi.org/10.1093/nar/gkh091DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC308825PMC
January 2004