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The gastrin and cholecystokinin receptors mediated signaling network: a scaffold for data analysis and new hypotheses on regulatory mechanisms.

Sushil Tripathi , Åsmund Flobak , Konika Chawla , Anaïs Baudot , Torunn Bruland et al.
BMC Systems Biology, 2014, 9, pp.40
Journal articles hal-01221589v1
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A molecular hypothesis to explain direct and inverse co-morbidities between Alzheimer’s Disease, Glioblastoma and Lung cancer

Jon Sánchez-Valle , Hector Tejero , Kristina Ibáñez , José Luis Portero , Martin Krallinger et al.
Scientific Reports, 2017, 7 (1), ⟨10.1038/s41598-017-04400-6⟩
Journal articles hal-01610984v1

Network analysis and protein function prediction with the PRODISTIN Web site

Anaïs Baudot , Ouissem Souiai , C. Brun
Methods in Molecular Biology, 2012, 804, pp.313-26
Journal articles hal-01596219v1
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Molecular Evidence for the Inverse Comorbidity between Central Nervous System Disorders and Cancers Detected by Transcriptomic Meta-analyses

Kristina Ibáñez , César Boullosa , Rafael Tabarés-Seisdedos , Anaïs Baudot , Alfonso Valencia et al.
PLoS Genetics, 2014, 10 (2), pp.e1004173. ⟨10.1371/journal.pgen.1004173⟩
Journal articles hal-01266780v1
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Integrative proteomic and phosphoproteomic profiling of prostate cell lines

Maria Katsogiannou , Jean-Baptiste Boyer , Alberto Valdeolivas , Elisabeth Remy , Laurence Calzone et al.
PLoS ONE, 2019, 14 (11), pp.e0224148. ⟨10.1371/journal.pone.0224148⟩
Journal articles hal-03614575v1

AKT Signaling Modifies the Balance between Cell Proliferation and Migration in Neural Crest Cells from Patients Affected with Bosma Arhinia and Microphthalmia Syndrome

Camille Laberthonnière , Elva-María Novoa-Del-Toro , Raphaël Chevalier , Natacha Broucqsault , Vanitha Venkoba Rao et al.
Biomedicines, 2021, 9 (7), pp.751. ⟨10.3390/biomedicines9070751⟩
Journal articles hal-03280671v1
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Random walk with restart on multiplex and heterogeneous biological networks

Alberto Valdeolivas , Laurent Tichit , Claire L. Navarro , Sophie Perrin , Gaelle Odelin et al.
Bioinformatics, 2018, ⟨10.1101/134734⟩
Journal articles hal-01946427v1

No paradox, no progress: inverse cancer comorbidity in people with other complex diseases

Rafael Tabarés-Seisdedos , Nancy Dumont , Anaïs Baudot , Jose M Valderas , Joan Climent et al.
Lancet Oncology, 2011, 12 (6), ⟨10.1016/S1470-2045(11)70041-9⟩
Journal articles hal-01266785v1
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MultiVERSE: a multiplex and multiplex-heterogeneous network embedding approach

Léo Pio-Lopez , Alberto Valdeolivas , Laurent Tichit , Élisabeth Remy , Anaïs Baudot et al.
Scientific Reports, 2021, 11 (1), ⟨10.1038/s41598-021-87987-1⟩
Journal articles hal-03359094v2

The functional landscape of Hsp27 reveals new cellular processes such as DNA repair and alternative splicing and proposes novel anticancer targets.

Maria Katsogiannou , Claudia Andrieu , Virginie Baylot , Anaïs Baudot , Nelson J Dusetti et al.
Molecular and Cellular Proteomics, 2014, pp.3585-601. ⟨10.1074/mcp.M114.041228⟩
Journal articles hal-01104661v1

Editorial: Direct and Inverse Comorbidities Between Complex Disorders

Rafael Tabarés-Seisdedos , Anaïs Baudot
Frontiers in Physiology, 2016, 7, ⟨10.3389/fphys.2016.00117⟩
Journal articles hal-01352722v1
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miR-376a-3p and miR-376b-3p overexpression in Hutchinson-Gilford progeria fibroblasts inhibits cell proliferation and induces premature senescence

Diane Frankel , Valerie Delecourt , Elva-María Novoa-Del-Toro , Jérôme Robin-Ducellier , Coraline Airault et al.
iScience, 2022, 25 (2), pp.103757. ⟨10.1016/j.isci.2022.103757⟩
Journal articles hal-03788582v1

Assessment of network module identification across complex diseases

Sarvenaz Choobdar , Mehmet Ahsen , Jake Crawford , Mattia Tomasoni , Tao Fang et al.
Nature Methods, 2019, 16 (9), pp.843-852. ⟨10.1038/s41592-019-0509-5⟩
Journal articles hal-02333148v1
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Prediction of Disease-associated Genes by advanced Random Walk with Restart on Multiplex and Heterogeneous Biological Networks

Alberto Valdeolivas , Elisabeth Remy , Laurent Tichit , Gaëlle Odelin , Claire Navarro et al.
JOBIM 2017, Jul 2017, Lille, France
Conference papers hal-03582849v1

SMCHD1 variants may induce variegated expression in Facio Scapulo Humeral Dystophy and Bosma Arhinia and microphtalmia syndrome

Camille Laberthonnière , Raphaël Chevalier , Camille Dion , Mégane Delourme , David Hirst et al.
2022
Preprints, Working Papers, ... hal-03634209v1
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Interpreting molecular similarity between patients as a determinant of disease comorbidity relationships

Jon Sánchez-Valle , Hector Tejero , José María Fernández , David Juan , Beatriz Urda-García et al.
Nature Communications, 2020, 11 (1), pp.2854. ⟨10.1038/s41467-020-16540-x⟩
Journal articles inserm-02878879v1
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Clust&See: A Cytoscape plugin for the identification, visualization and manipulation of network clusters

Lionel Spinelli , Philippe Gambette , Charles E. Chapple , Benoît Robisson , Anaïs Baudot et al.
BioSystems, 2013, 113 (2), pp.91-93. ⟨10.1016/j.biosystems.2013.05.010⟩
Journal articles hal-00832028v2
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A Multi-Objective Genetic Algorithm to Find Active Modules in Multiplex Biological Networks

Elva-María Novoa-Del-Toro , Efrén Mezura-Montes , Matthieu Vignes , Frédérique Magdinier , Laurent Tichit et al.
2020
Preprints, Working Papers, ... hal-02997031v1
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Universal multilayer network exploration by random walk with restart

Anthony Baptista , Aitor Gonzalez , Anaïs Baudot
Communications Physics, 2022, 5 (1), pp.170. ⟨10.1038/s42005-022-00937-9⟩
Journal articles hal-03800682v1
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A multi-objective genetic algorithm to find active modules in multiplex biological networks

Elva-María Novoa-Del-Toro , Efrén Mezura-Montes , Matthieu Vignes , Morgane Térézol , Frédérique Magdinier et al.
PLoS Computational Biology, 2021, 17 (8), pp.e1009263. ⟨10.1371/journal.pcbi.1009263⟩
Journal articles hal-03372492v1

Facioscapulohumeral dystrophy weakened sarcomeric contractility is mimicked in induced pluripotent stem cells‐derived innervated muscle fibres

Camille Laberthonnière , Elva-María Novoa-Del-Toro , Mégane Delourme , Raphaël Chevalier , Natacha Broucqsault et al.
Journal of Cachexia, Sarcopenia and Muscle, 2022, 13 (1), pp.621-635. ⟨10.1002/jcsm.12835⟩
Journal articles hal-03586975v1
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Tracking patient clusters over time enables to extract all the information available in the medico-administrative databases

Judith Lambert , Anne-Louise Leutenegger , Anne-Sophie Jannot , Anaïs Baudot
2022
Preprints, Working Papers, ... hal-03796086v1
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Orsum: a Python package for filtering and comparing enrichment analyses using a simple principle

Ozan Ozisik , Morgane Térézol , Anaïs Baudot
BMC Bioinformatics, 2022, 23 (1), ⟨10.1186/s12859-022-04828-2⟩
Journal articles hal-03780220v1
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Benchmarking joint multi-omics dimensionality reduction approaches for the study of cancer

Laura Cantini , Pooya Zakeri , Céline Hernandez , Aurelien Naldi , Denis Thieffry et al.
Nature Communications, 2021, 12, ⟨10.1038/s41467-020-20430-7⟩
Journal articles hal-03102088v1
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Overlap of vitamin A and vitamin D target genes with CAKUT-related processes

Ozan Ozisik , Friederike Ehrhart , Chris Evelo , Alberto Mantovani , Anaïs Baudot et al.
F1000Research, 2021, 10, pp.395. ⟨10.12688/f1000research.51018.2⟩
Journal articles hal-03654274v1

Identifying communities from multiplex biological networks.

Gilles Didier , Christine Brun , Anaïs Baudot
PeerJ, 2015, 3:e1525, ⟨10.7717/peerj.1525⟩
Journal articles hal-01255282v1
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Discovery of Drug Synergies in Gastric Cancer Cells Predicted by Logical Modeling

Åsmund Flobak , Anaïs Baudot , Elisabeth Remy , Liv Thommesen , Denis Thieffry et al.
PLoS Computational Biology, 2015, 11 (8), pp.e1004426. ⟨10.1371/journal.pcbi.1004426⟩
Journal articles hal-01221572v1

Interactome mapping of PI3K-mTOR pathway identifies DEAF1 as a new interactor

Fanny Pilot-Storck , Emilie Chopin , Jean-François Rual , Anaïs Baudot , Pavel Dobrokhotov et al.
Molecular and Cellular Proteomics, 2010, 9 (7), pp.1578-1593. ⟨10.1074/mcp.M900568-MCP200⟩
Journal articles hal-02668075v1
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Molecular Inverse Comorbidity between Alzheimer’s Disease and Lung Cancer: New Insights from Matrix Factorization

Alessandro Greco , Jon Sanchez Valle , Vera Pancaldi , Anaïs Baudot , Emmanuel Barillot et al.
International Journal of Molecular Sciences, 2019, 20 (13), pp.3114. ⟨10.3390/ijms20133114⟩
Journal articles hal-02277045v2
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Benchmarking joint multi-omics dimensionality reduction approaches for cancer study

Laura Cantini , Pooya Zakeri , Céline Hernandez , Aurelien Naldi , Denis Thieffry et al.
2020
Preprints, Working Papers, ... hal-02998156v1