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Maude Pupin

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Kawal: A fermented food as a source of Bacillus strain producing antimicrobial peptides

Blaise Waongo , Maude Pupin , Matthieu Duban , Gabrielle Chataigne , Oumarou Zongo
Scientific African, 2023, 20, pp.e01714. ⟨10.1016/j.sciaf.2023.e01714⟩
Journal articles hal-04426241v1

Turbo prediction: a new approach for bioactivity prediction

Ammar Abdo , Maude Pupin
Journal of Computer-Aided Molecular Design, 2022, 36 (1), pp.77-85. ⟨10.1007/s10822-021-00440-3⟩
Journal articles hal-03833232v1

LINGO-DL: a text-based approach for molecular similarity searching

Maude Pupin , Ammar Abdo
Journal of Computer-Aided Molecular Design, 2021, 35 (5), pp.657-665. ⟨10.1007/s10822-021-00383-9⟩
Journal articles hal-03461046v1

Automatic Annotation and Dereplication of Tandem Mass Spectra of Peptidic Natural Products

Emma Ricart , Maude Pupin , Markus Müller , Frédérique Lisacek
Analytical Chemistry, 2020, 92 (24), pp.15862-15871. ⟨10.1021/acs.analchem.0c03208⟩
Journal articles hal-03082142v1

Monomer structure fingerprints: an extension of the monomer composition version for peptide databases

Ammar Abdo , Eissa Ghaleb , Naser Alajmi , Maude Pupin
Journal of Computer-Aided Molecular Design, 2020, 34 (11), pp.1147-1156. ⟨10.1007/s10822-020-00336-8⟩
Journal articles hal-03081813v1

Palantir: a springboard for the analysis of secondary metabolite gene clusters in large-scale genome mining projects

Loïc Meunier , Pierre Tocquin , Luc Cornet , Damien Sirjacobs , Valérie Leclère
Bioinformatics, 2020, 36 (15), pp.4345-4347. ⟨10.1093/bioinformatics/btaa517⟩
Journal articles hal-03081849v1
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Norine: update of the nonribosomal peptide resource

Areski Flissi , Emma Ricart , Clémentine Campart , Mickael Chevalier , Yoann Dufresne
Nucleic Acids Research, 2019, ⟨10.1093/nar/gkz1000⟩
Journal articles hal-02376009v1
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rBAN: retro-biosynthetic analysis of nonribosomal peptides

Emma Ricart , Valérie Leclère , Areski Flissi , Markus Mueller , Maude Pupin
Journal of Cheminformatics, 2019, 11 (1), pp.1-14. ⟨10.1186/s13321-019-0335-x⟩
Journal articles hal-02167433v1

Kendrick Mass Defect Approach Combined to NORINE Database for Molecular Formula Assignment of Nonribosomal Peptides

Mickael Chevalier , Emma Ricart , Emeline Hanozin , Maude Pupin , Philippe Jacques
Journal of The American Society for Mass Spectrometry, 2019, 30 (12), pp.2608-2616. ⟨10.1007/s13361-019-02314-3⟩
Journal articles hal-02417587v1

Bioinformatics tools for the discovery of new lipopeptides with biocontrol applications

Maude Pupin , Areski Flissi , Philippe Jacques , Valérie Leclère
European Journal of Plant Pathology, 2018, ⟨10.1007/s10658-018-1544-2⟩
Journal articles hal-01937890v1

Nonribosomal peptides and polyketides of Burkholderia: new compounds potentially implicated in biocontrol and pharmaceuticals

Qassim Esmaeel , Maude Pupin , Philippe Jacques , Valérie Leclère
Environmental Science and Pollution Research, 2017, ⟨10.1007/s11356-017-9166-3⟩
Journal articles hal-01548616v1
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Burkholderia genome mining for nonribosomal peptide synthetases reveals a great potential for novel siderophores and lipopeptides synthesis

Qassim Esmaeel , Maude Pupin , Nam Phuong Kieu , Gabrielle Chataigné , Max Béchet
MicrobiologyOpen, 2016, 5 (3), pp.512 - 526. ⟨10.1002/mbo3.347⟩
Journal articles hal-01398944v1
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Smiles2Monomers: a link between chemical and biological structures for polymers

Yoann Dufresne , Laurent Noé , Valérie Leclère , Maude Pupin
Journal of Cheminformatics, 2015, 7, ⟨10.1186/s13321-015-0111-5⟩
Journal articles hal-01250619v1
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Norine, the knowledgebase dedicated to non-ribosomal peptides, is now open to crowdsourcing

Areski Flissi , Yoann Dufresne , Juraj Michalik , Laurie Tonon , Stéphane Janot
Nucleic Acids Research, 2015, ⟨10.1093/nar/gkv1143⟩
Journal articles hal-01235996v1
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Norine: a powerful resource for novel nonribosomal peptide discovery

Maude Pupin , Qassim Esmaeel , Areski Flissi , Yoann Dufresne , Philippe Jacques
Synthetic and Systems Biotechnology, 2015, ⟨10.1016/j.synbio.2015.11.001⟩
Journal articles hal-01250614v1
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Prediction of New Bioactive Molecules using a Bayesian Belief Network

Ammar Abdo , Valérie Leclère , Philippe Jacques , Naomie Salim , Maude Pupin
Journal of Chemical Information and Modeling, 2014, 54 (1), pp.30-36. ⟨10.1021/ci4004909⟩
Journal articles hal-01090611v1
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Prediction of Monomer Isomery in Florine: A Workflow Dedicated to Nonribosomal Peptide Discovery

Thibault Caradec , Maude Pupin , Aurélien Vanvlassenbroeck , Marie-Dominique Devignes , Malika Smaïl-Tabbone
PLoS ONE, 2014, 9 (1), pp.e85667. ⟨10.1371/journal.pone.0085667⟩
Journal articles hal-01090619v1
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Structure, biosynthesis, and properties of kurstakins, nonribosomal lipopeptides from Bacillus spp.

Max Béchet , Thibault Caradec , Walaa Hussein , Ahmed Abderrahmani , Marlène Chollet
Applied Microbiology and Biotechnology, 2012, 95 (3), pp.593-600. ⟨10.1007/s00253-012-4181-2⟩
Journal articles hal-00749819v1
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A new fingerprint to predict nonribosomal peptides activity.

Ammar Hasan Abdo , Ségolène Caboche , Valérie Leclère , Philippe Jacques , Maude Pupin
Journal of Computer-Aided Molecular Design, 2012, 26 (10), pp.1187-94. ⟨10.1007/s10822-012-9608-4⟩
Journal articles hal-00750002v1
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Diversity of monomers in nonribosomal peptides: towards the prediction of origin and biological activity.

Ségolène Caboche , Valérie Leclère , Maude Pupin , Gregory Kucherov , Philippe Jacques
Journal of Bacteriology, 2010, 192 (19), pp.5143-50. ⟨10.1128/JB.00315-10⟩
Journal articles hal-00641488v1

Des peptides à explorer

Maude Pupin
Interstices, 2010
Journal articles hal-01350197v1
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Structural pattern matching of nonribosomal peptides.

Ségolène Caboche , Maude Pupin , Valérie Leclère , Philippe Jacques , Gregory Kucherov
BMC Structural Biology, 2009, 9 (15), ⟨10.1186/1472-6807-9-15⟩
Journal articles hal-00641486v1
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NORINE: a database of nonribosomal peptides.

Ségolène Caboche , Maude Pupin , Valérie Leclère , Arnaud Fontaine , Philippe Jacques
Nucleic Acids Research, 2008, Database issue, 36 (Database issue), pp.D326-31. ⟨10.1093/nar/gkm792⟩
Journal articles inria-00281012v1
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Comparing sequences without using alignments: application to HIV/SIV subtyping

Gilles Didier , Laurent Debomy , Maude Pupin , Ming Zhang , Alexander Grossmann
BMC Bioinformatics, 2007, 8 (1), ⟨10.1186/1471-2105-8-1⟩
Journal articles inria-00289069v1

Local Decoding of Sequences and Alignment-Free Comparison

Gilles Didier , Ivan Laprevotte , Maude Pupin , Alain Hénaut
Journal of Computational Biology, 2006, 13 (8), pp.1465-1476. ⟨10.1089/cmb.2006.13.1465⟩
Journal articles inria-00289089v1
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Les filles qui… et L Codent L Créent : constituer un bien commun de médiation en informatique

Pascale Gautron , Cécile Plaud , Maude Pupin , Vincent Ribaud , Yann Secq
Ludovia#CH - Université de printemps, Apr 2020, Yverdon-les-bains, Suisse
Conference papers hal-02911731v1

Stage d’observation de troisième : “Wi Code, Wi Build”

Laure Bolka-Tabary , Maude Pupin , Yann Secq
DIDAPRO 8 – DIDASTIC L’informatique, objets d’enseignements – enjeux épistémologiques, didactiques et de formation, Feb 2020, Lille, France
Conference papers hal-03081192v1
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L codent, L créent: créations numériques artistiques pour démystifier l'informatique... au féminin! (descriptif d’atelier)

Philippe Marquet , Maude Pupin , Yann Secq
Didapro 7 – DidaSTIC. De 0 à 1 ou l’heure de l’informatique à l’école, Feb 2018, Lausanne, Suisse. pp.1-2
Conference papers hal-01753402v1
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How to make teenage girls love coding using Python and the visual arts orienting language Processing ?

Maude Pupin , Philippe Marquet , Yann Secq
PyParis2017, Systematic Paris Region, Jun 2017, Paris, La Défense, France
Conference papers hal-01552487v1
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How to make teenage girls love coding ?

Tatiana Rocher , Maude Pupin , Philippe Marquet , Yann Secq
womENcourage2017 - 4th ACM Europe Celebration of Women in Computing, ACM, Sep 2017, Barcelona, Spain
Conference papers hal-01552490v1

Nonribosomal peptides and polyketides of Burkholderia: new compounds potentially implicated in biocontrol and pharmaceuticals

Qassim Esmaeel , Maude Pupin , Philippe Jacques , Valérie Leclère
3. Biennial International Congress on Natural Products and Biocontrol, Sep 2016, Perpignan, France. ⟨10.1007/s11356-017-9166-3⟩
Conference papers hal-02737697v1
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Non Ribosomal Peptides : A monomeric puzzle

Yoann Dufresne , Valérie Leclère , Philippe Jacques , Laurent Noé , Maude Pupin
JOBIM - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2013, Toulouse, France. pp.143-150
Conference papers hal-00843827v1
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NRPS toolbox for the discovery of new nonribosomal peptides and synthetases

Maude Pupin , Malika Smaïl-Tabbone , Philippe Jacques , Marie-Dominique Devignes , Valérie Leclère
Journées Ouvertes en Biologie, l'Informatique et les Mathématiques - JOBIM 2012, Jul 2012, Rennes, France. pp.89-93
Conference papers hal-00734312v1

Bioinformatics Tools for the Discovery of New Nonribosomal Peptides

Valérie Leclère , Tilmann Weber , Philippe Jacques , Maude Pupin
Bradley S. Evans. Nonribosomal Peptide and Polyketide Biosynthesis, 1401, Humana Press, pp.209-232, 2016, Methods in Molecular Biology, 978-1-4939-3373-0 978-1-4939-3375-4. ⟨10.1007/978-1-4939-3375-4_14⟩
Book sections hal-01398960v1
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Modèles bio-informatiques pour les peptides non-ribosomiques et leurs synthétases

Maude Pupin
Bio-informatique [q-bio.QM]. Université des Sciences et Technologie de Lille - Lille I, 2013
Habilitation à diriger des recherches tel-00918918v1
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Informatique - Support d'enseignement 1re année de licence, Univ. Lille

Philippe Marquet , Maude Pupin
Licence. Informatique, Université de Lille, Villeneuve d'Ascq, France. 2022, pp.211
Lectures hal-04131704v1