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RedRibbon: A new rank–rank hypergeometric overlap for gene and transcript expression signatures

View ORCID ProfileAnthony Piron  Correspondence email, Florian Szymczak, Theodora Papadopoulou, Maria Inês Alvelos, Matthieu Defrance, Tom Lenaerts, Décio L Eizirik, View ORCID ProfileMiriam Cnop  Correspondence email
Anthony Piron
1ULB Center for Diabetes Research, Medical Faculty, Université Libre de Bruxelles, Brussels, Belgium
2Interuniversity Institute of Bioinformatics in Brussels (IB2), Brussels, Belgium
3Machine Learning Group, Université Libre de Bruxelles, Brussels, Belgium
Roles: Conceptualization, Data curation, Software, Validation, Investigation, Visualization, Methodology, Writing—original draft, Writing—review and editing
  • Find this author on Google Scholar
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  • ORCID record for Anthony Piron
  • For correspondence: anthony.piron@ulb.be
Florian Szymczak
1ULB Center for Diabetes Research, Medical Faculty, Université Libre de Bruxelles, Brussels, Belgium
2Interuniversity Institute of Bioinformatics in Brussels (IB2), Brussels, Belgium
Roles: Conceptualization, Data curation, Software, Validation, Methodology
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Theodora Papadopoulou
1ULB Center for Diabetes Research, Medical Faculty, Université Libre de Bruxelles, Brussels, Belgium
2Interuniversity Institute of Bioinformatics in Brussels (IB2), Brussels, Belgium
Roles: Conceptualization, Data curation, Software, Validation, Investigation, Visualization, Writing—review and editing
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Maria Inês Alvelos
1ULB Center for Diabetes Research, Medical Faculty, Université Libre de Bruxelles, Brussels, Belgium
Roles: Conceptualization, Formal analysis, Validation
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Matthieu Defrance
2Interuniversity Institute of Bioinformatics in Brussels (IB2), Brussels, Belgium
3Machine Learning Group, Université Libre de Bruxelles, Brussels, Belgium
Roles: Conceptualization, Supervision
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Tom Lenaerts
2Interuniversity Institute of Bioinformatics in Brussels (IB2), Brussels, Belgium
3Machine Learning Group, Université Libre de Bruxelles, Brussels, Belgium
4Artificial Intelligence Lab, Vrije Universiteit Brussel, Brussels, Belgium
Roles: Conceptualization, Supervision, Methodology
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Décio L Eizirik
1ULB Center for Diabetes Research, Medical Faculty, Université Libre de Bruxelles, Brussels, Belgium
Roles: Conceptualization, Supervision
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Miriam Cnop
1ULB Center for Diabetes Research, Medical Faculty, Université Libre de Bruxelles, Brussels, Belgium
5Division of Endocrinology, Erasmus Hospital, Université Libre de Bruxelles, Brussels, Belgium
Roles: Conceptualization, Resources, Formal analysis, Supervision, Funding acquisition, Validation, Writing—original draft, Project administration, Writing—review and editing
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  • ORCID record for Miriam Cnop
  • For correspondence: miriam.cnop@ulb.be
Published 8 December 2023. DOI: 10.26508/lsa.202302203
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Article Information

vol. 7 no. 2 e202302203
DOI 
https://doi.org/10.26508/lsa.202302203
PubMed 
38081640

Published By 
Life Science Alliance
Online ISSN 
2575-1077
History 
  • Received June 7, 2023
  • Revision received November 28, 2023
  • Accepted November 29, 2023
  • Published online December 8, 2023.

Copyright & Usage 
© 2023 Piron et al. This article is available under a Creative Commons License (Attribution 4.0 International, as described at https://creativecommons.org/licenses/by/4.0/).

Author Information

  1. Anthony Piron1,2,3, Conceptualization, Data curation, Software, Validation, Investigation, Visualization, Methodology, Writing—original draft, Writing—review and editing⇑,
  2. Florian Szymczak1,2, Conceptualization, Data curation, Software, Validation, Methodology,
  3. Theodora Papadopoulou1,2, Conceptualization, Data curation, Software, Validation, Investigation, Visualization, Writing—review and editing,
  4. Maria Inês Alvelos1, Conceptualization, Formal analysis, Validation,
  5. Matthieu Defrance2,3, Conceptualization, Supervision,
  6. Tom Lenaerts2,3,4, Conceptualization, Supervision, Methodology,
  7. Décio L Eizirik1, Conceptualization, Supervision and
  8. Miriam Cnop1,5, Conceptualization, Resources, Formal analysis, Supervision, Funding acquisition, Validation, Writing—original draft, Project administration, Writing—review and editing⇑
  1. 1ULB Center for Diabetes Research, Medical Faculty, Université Libre de Bruxelles, Brussels, Belgium
  2. 2Interuniversity Institute of Bioinformatics in Brussels (IB2), Brussels, Belgium
  3. 3Machine Learning Group, Université Libre de Bruxelles, Brussels, Belgium
  4. 4Artificial Intelligence Lab, Vrije Universiteit Brussel, Brussels, Belgium
  5. 5Division of Endocrinology, Erasmus Hospital, Université Libre de Bruxelles, Brussels, Belgium
  1. Correspondence: anthony.piron{at}ulb.be
  2. miriam.cnop{at}ulb.be
View Full Text

Funding

  • The European Union’s Horizon 2020 Research and Innovation Program T2DSystems

    667191
    M Cnop, DL Eizirik
  • The Fonds National de la Recherche Scientifique Fonds National de la Recherche Scientifique (FNRS)

    FC 038603
    M Cnop
  • The Foundation Wiener-Anspach

    A Piron
  • The Funds David and Alice Van Buuren, The Foundation Jaumotte-Demoulin, The Foundation Héger-Masson

    A Piron
  • The Walloon Region SPW-EER Win2Wal

    Project BetaSource
    M Cnop
  • Welbio-FNRS, Belgium

    WELBIO-CR-2019C-04
    DL Eizirik
  • The Francophone Foundation for Diabetes Research (FFRD, that is sponsored by the French Diabetes Federation, Abbott, Eli Lilly, Merck Sharp & Dohme and Novo Nordisk)

    M Cnop
  • FWO and FRS-FNRS under the Excellence of Science (EOS) Programme

    Pandarome project 40007487
    M Cnop
  • Innovative Medicines Initiative 2 Joint Undertaking

    grant agreement 115797 (INNODIA), 945268 (INNODIA HARVEST)
    DL Eizirik, M Cnop
  • NIH-HIRN

    5U01DK127786-02
    DL Eizirik
  • Innovate2CureType1-Dutch Diabetes Research Foundation (DDRF)

    2018.10.002
    DL Eizirik
  • The European Federation of Pharmaceutical Industries and Associations

    DL Eizirik
  • JDRF (JDRF International)

    DL Eizirik
  • The Leona M. and Harry B. Helmsley Charitable Trust

    DL Eizirik
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Robust and accurate overlap analyses
Anthony Piron, Florian Szymczak, Theodora Papadopoulou, Maria Inês Alvelos, Matthieu Defrance, Tom Lenaerts, Décio L Eizirik, Miriam Cnop
Life Science Alliance Dec 2023, 7 (2) e202302203; DOI: 10.26508/lsa.202302203

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Robust and accurate overlap analyses
Anthony Piron, Florian Szymczak, Theodora Papadopoulou, Maria Inês Alvelos, Matthieu Defrance, Tom Lenaerts, Décio L Eizirik, Miriam Cnop
Life Science Alliance Dec 2023, 7 (2) e202302203; DOI: 10.26508/lsa.202302203
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