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Thomas Denecker

21
Documents

Publications

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
Les Journées Ouvertes en Biologie, Informatique et Mathématiques (JOBIM) , 2022, ⟨10.5281/ZENODO.6778707⟩
Journal articles hal-04495542v1
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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⟩
Journal articles hal-02880655v2
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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
NAR Genomics and Bioinformatics, 2020, 2 (2), ⟨10.1093/nargab/lqaa045⟩
Journal articles hal-02929259v1
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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
NAR Genomics and Bioinformatics, 2020, 2 (2), pp.lqaa027. ⟨10.1093/nargab/lqaa027⟩
Journal articles hal-03452211v1
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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
NAR Genomics and Bioinformatics, 2020, 2 (2), ⟨10.1093/nargab/lqaa027⟩
Journal articles hal-03100086v1
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Pixel: a content management platform for quantitative omics data

Thomas Denecker , William Durand , Julien Maupetit , Charles Hébert , Jean-Michel Camadro
PeerJ, 2019, 7, pp.e6623. ⟨10.7717/peerj.6623⟩
Journal articles hal-03100146v1
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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
BMC Research Notes, 2019, 12 (1), pp.470. ⟨10.1186/s13104-019-4505-8⟩
Journal articles hal-02389332v1

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⟩
Journal articles hal-02177599v1

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
Aging, 2017, 9 (12), pp.2695-2716. ⟨10.18632/aging.101356⟩
Journal articles hal-02363044v1

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

Djihad Hadjadj , Thomas Denecker , Chrystelle Maric , Fabien Fauchereau , Giuseppe Baldacci
Genomics Data, 2016, 9, pp.113 - 117. ⟨10.1016/j.gdata.2016.07.003⟩
Journal articles hal-01406426v1
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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
Conference papers hal-04531785v1
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Madbot

Thomas Denecker , Julien Seiler
17ème Atelier de Données bioinformatiques de diversité, Dimitry Khvorostyanov, Mar 2024, Roscoff, France
Conference papers hal-04502839v1

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⟩
Conference papers hal-04027046v1
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A Unix competency framework for learning bioinformatics

Hélène Chiapello , Thomas Denecker , Lucie Khamvongsa Charbonnier , Pierre Poulain , Denis Puthier
JOBIM 2024 - Journées ouvertes en biologie, informatique, et mathématiques 2024, Jun 2024, Toulouse, France.
Conference poster hal-04619317v1
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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.
Conference poster hal-04139284v1
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The IFB e-Learning Working Group

Hélène Chiapello , Thomas Denecker , Gildas Le Corguillé , Pierre Poulain , Denis Puthier
JOBIM (Journées Ouvertes en Biologie, Informatique et Mathématiques) 2021, Jul 2021, Paris, France.
Conference poster hal-03296617v1
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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
Conference poster hal-03071717v1

Iron homeostasisis in C. glabrata at the transcriptomic level

Youfang Zhou-Li , Thomas Denecker , Karine Budin , Cécile Fairhead , Monique Bolotin Fukuhara
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
Conference poster hal-02734714v1