Thomas Denecker

22
Documents

Publications

Publications

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FAIR_Bioinfo: a turnkey training course and protocol for reproducible computational biology

Thomas Denecker , Claire Toffano-Nioche
JOSE - Journal of Open Source Education, 2021, ⟨10.21105/jose.00068⟩
Article dans une revue hal-02880655 v2
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Functional networks of co-expressed genes to explore iron homeostasis processes in the pathogenic yeast Candida glabrata

Thomas Denecker , Youfang Zhou Li , Cécile Fairhead , Karine Budin , Jean-Michel Camadro et al.
NAR Genomics and Bioinformatics, 2020, 2 (2), pp.lqaa027. ⟨10.1093/nargab/lqaa027⟩
Article dans une revue hal-03452211 v1
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Functional networks of co-expressed genes to explore iron homeostasis processes in the pathogenic yeast Candida glabrata

Thomas Denecker , Youfang Zhou li , Cécile Fairhead , Karine Budin , Jean-Michel Camadro et al.
NAR Genomics and Bioinformatics, 2020, 2 (2), ⟨10.1093/nargab/lqaa027⟩
Article dans une revue hal-03100086 v1
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Efficient, quick and easy-to-use DNA replication timing analysis with START-R suite

Djihad Hadjadj , Thomas Denecker , Eva Guérin , Su-Jung Kim , Fabien Fauchereau et al.
NAR Genomics and Bioinformatics, 2020, 2 (2), ⟨10.1093/nargab/lqaa045⟩
Article dans une revue hal-02929259 v1
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Pixel: a content management platform for quantitative omics data

Thomas Denecker , William Durand , Julien Maupetit , Charles Hébert , Jean-Michel Camadro et al.
PeerJ, 2019, 7, pp.e6623. ⟨10.7717/peerj.6623⟩
Article dans une revue hal-03100146 v1
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Label-free quantitative proteomics in Candida yeast species: technical and biological replicates to assess data reproducibility

Gaëlle Lelandais , Thomas Denecker , Camille Garcia , Nicolas Danila , Thibaut Léger et al.
BMC Research Notes, 2019, 12 (1), pp.470. ⟨10.1186/s13104-019-4505-8⟩
Article dans une revue hal-02389332 v1

Empowering the detection of ChIP-seq "basic peaks" (bPeaks) in small eukaryotic genomes with a web user-interactive interface

Thomas Denecker , Gaëlle Lelandais
BMC Research Notes, 2018, 11 (1), pp.698. ⟨10.1186/s13104-018-3802-y⟩
Article dans une revue hal-02177599 v1

A hypothesis-driven approach identifies CDK4 and CDK6 inhibitors as candidate drugs for treatments of adrenocortical carcinomas

Djihad Hadjadj , Su-Jung Kim , Thomas Denecker , Laura Ben Driss , Jean-Charles Cadoret et al.
Aging, 2017, 9 (12), pp.2695-2716. ⟨10.18632/aging.101356⟩
Article dans une revue hal-02363044 v1

Characterization of the replication timing program of 6 human model cell lines

Djihad Hadjadj , Thomas Denecker , Chrystelle Maric , Fabien Fauchereau , Giuseppe Baldacci et al.
Genomics Data, 2016, 9, pp.113 - 117. ⟨10.1016/j.gdata.2016.07.003⟩
Article dans une revue hal-01406426 v1
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Madbot

Thomas Denecker , Julien Seiler
17ème Atelier de Données bioinformatiques de diversité, Dimitry Khvorostyanov, Mar 2024, Roscoff, France
Communication dans un congrès hal-04502839 v1
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Madbot

Thomas Denecker , Julien Seiler
Journée "Cycle De Vie / Gestion Des Données De La Biologie", F. Bekkouche; X. Borda; F. Brau; W. Demet, Apr 2024, Sophia Antipolis, France
Communication dans un congrès hal-04531785 v1

Science ouverte et principes FAIR dans un projet de bioinformatique

Thomas Denecker
Journée Science ouverte, Station Biologique de Roscoff, Mar 2023, Roscoff, France. ⟨10.5281/zenodo.7729199⟩
Communication dans un congrès hal-04027046 v1

EMERGEN-BioInfo The digital platform for the French SARS-CoV-2 genomic surveillance and research program

Thomas Denecker , Imane Messak , Anliat Mohamed , Chiara Antoinat , Arthur Le Bars et al.
JOBIM 2022 - Les Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2022, Rennes, France. ⟨10.5281/ZENODO.6778707⟩
Communication dans un congrès hal-04495542 v1
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A Unix competency framework for learning bioinformatics

Hélène Chiapello , Thomas Denecker , Lucie Khamvongsa Charbonnier , Pierre Poulain , Denis Puthier et al.
JOBIM 2024 - Journées ouvertes en biologie, informatique, et mathématiques 2024, Jun 2024, Toulouse, France.
Poster de conférence hal-04619317 v1
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Orchestrating data flows throughout their whole life cycle

Frédéric de Lamotte , Laurent Bouri , Konogan Bourhy , Christophe Bruley , Olivier Collin et al.
JOBIM2024 : Journées Ouvertes en Biologie, Informatique, et Mathématiques - 2024, Jun 2024, Toulouse, France. 2024
Poster de conférence hal-04665629 v1
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Design and production of a plug-in tool facilitating the submission of microbial meta-omics data to an international repository

Baptiste Rousseau , Véronique Jamilloux , Thomas Denecker , Hélène Chiapello , Ariane Bize
JOBIM 2023, Jun 2023, Nancy, France.
Poster de conférence hal-04139284 v1
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The IFB e-Learning Working Group

Hélène Chiapello , Thomas Denecker , Gildas Le Corguillé , Pierre Poulain , Denis Puthier et al.
JOBIM (Journées Ouvertes en Biologie, Informatique et Mathématiques) 2021, Jul 2021, Paris, France.
Poster de conférence hal-03296617 v1
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FAIR_bioinfo : a software perspective of reproducibility of bioinformatics analyses

Thomas Denecker , Céline Hernandez , Claire Toffano-Nioche
Journées Ouvertes de Biologie Informatique et Mathématiques - JOBIM 2020, Jun 2020, Montpellier, France
Poster de conférence hal-03071717 v1

Iron homeostasisis in C. glabrata at the transcriptomic level

Youfang Zhou-Li , Thomas Denecker , Karine Budin , Cécile Fairhead , Monique Bolotin Fukuhara et al.
20. Congress of the International Society for Human and Animal Mycology (ISHAM 2018), Jun 2018, Amsterdam, Netherlands. Oxford University Press, Medical Mycology, 56 (Suppl. 2), 230 p., 2018, Abstracts ISHAM 2018 - Supplement
Poster de conférence hal-02734714 v1