Maud Fagny

Chargée de Recherche INRAE - GQE Le Moulon - IDEEV - Gif-sur-Yvette, France

Documents

Affiliation actuelle

Génétique Quantitative et Evolution - Le Moulon (Génétique Végétale) (GQE-Le Moulon)

Identifiants chercheurs

maud-fagny
0000-0002-7740-2521
189710691
277145003315361300916
PsKD_IsAAAAJ
ResearcherID : http://www.researcherid.com/rid/O-5415-2017

Contact

Présentation

Domaines de recherche

Sciences du Vivant [q-bio] Bio-Informatique, Biologie Systémique [q-bio.QM] Génétique des plantes Génétique des populations [q-bio.PE]

Compétences

Génomique Biologie des systèmes Réseaux de régulation Bioinformatique Analyses de données OMICS Programmation (bash, python, R, perl) Statistiques Épigénomique Transcriptomique Encadrement

Publications

	Nuclear Myosin 1 links genomic architecture to adipose tissue remodeling, metabolic inflammation and obesity in mice Samira Khalaji , Tomas Venit , Zuzana Lukáčová , Valentina Fambri , Rahul Shrestha et al. Cell Death and Disease, 2026, 17 (1), pp.270. ⟨10.1038/s41419-026-08525-3⟩ Article dans une revue hal-05684149v1
	How to be dispensable: genomic and transcriptomic determinants in maize genes Johann Joets , Maëva Mollion , Kevin Baudry , Maud Fagny , Olivier Turc et al. Communications Biology, 2026, 8 (1), pp.1530. ⟨10.64898/2026.04.25.720561⟩ Article dans une revue hal-05684178v1
	Genetics Has Enabled the Improvement of Breeding Strategies: Single-Cell Analysis, Epigenetics, cis-Regulation and Gene Editing to Exploit Genetic Variants Underlying Phenotypes Eduardo D. Munaiz , Maud Fagny , Rafael E. Venado , Jia Shen Crop Breeding,Genetics and Genomics , 2026, 8 (2), ⟨10.20900/cbgg20260015⟩ Article dans une revue hal-05641226v1
	The Importance of Regulatory Network Structure for Complex Trait Heritability and Evolution Katherine L Stone , John Platig , John Quackenbush , Maud Fagny Molecular Biology and Evolution, 2025, 42 (8), pp.msaf174. ⟨10.1093/molbev/msaf174⟩ Article dans une revue hal-05314722v1
	An online notebook resource for reproducible inference, analysis and publication of gene regulatory networks Marouen Ben Guebila , Deborah Weighill , Camila Lopes-Ramos , Rebekka Burkholz , Romana Pop et al. Nature Methods, 2022, 19 (5), pp.511-513. ⟨10.1038/s41592-022-01479-2⟩ Article dans une revue hal-03694550v1
	Connectivity in eQTL networks dictates reproducibility and genomic properties Sheila Gaynor , Maud Fagny , Xihong Lin , John Platig , John Quackenbush Cell Reports Methods, 2022, 2 (5), pp.100218. ⟨10.1016/j.crmeth.2022.100218⟩ Article dans une revue hal-03694556v1
	Editorial: Applications and Methods in Genomic Networks Maud Fagny , Kimberly Glass , Marieke Kuijjer Frontiers in Genetics, 2022, 13, pp.936015. ⟨10.3389/fgene.2022.936015⟩ Article dans une revue hal-03694544v1
	Identification of Key Tissue-Specific, Biological Processes by Integrating Enhancer Information in Maize Gene Regulatory Networks Maud Fagny , Marieke Lydia Kuijjer , Maike Stam , Johann J. Joets , Olivier Turc et al. Frontiers in Genetics, 2021, 11, ⟨10.3389/fgene.2020.606285⟩ Article dans une revue hal-03152056v1
	Polygenic Adaptation: Integrating Population Genetics and Gene Regulatory Networks Maud Fagny , Frederic Austerlitz Trends in Genetics, 2021, 37 (7), pp.631-638. ⟨10.1016/j.tig.2021.03.005⟩ Article dans une revue hal-03100982v1
	Sex Differences in Gene Expression and Regulatory Networks across 29 Human Tissues Camila Lopes-Ramos , Cho-Yi Chen , Marieke Kuijjer , Joseph Paulson , Abhijeet Sonawane et al. Cell Reports, 2020, 31 (12), pp.107795. ⟨10.1016/j.celrep.2020.107795⟩ Article dans une revue hal-03642288v1
	PUMA: PANDA Using MicroRNA Associations Marieke Kuijjer , Maud Fagny , Alessandro Marin , John Quackenbush , Kimberly Glass Bioinformatics, 2020, 36 (18), pp.4765-4773. ⟨10.1093/bioinformatics/btaa571⟩ Article dans une revue hal-03642316v1
	Nongenic cancer-risk SNPs affect oncogenes, tumour-suppressor genes, and immune function Maud Fagny , John Platig , Marieke Lydia Kuijjer , Xihong Lin , John Quackenbush British Journal of Cancer, 2020, 122 (4), pp.569-577. ⟨10.1038/s41416-019-0614-3⟩ Article dans une revue hal-02964020v1
	Deregulation of microRNA expression in monocytes and CD4+ T lymphocytes from patients with axial spondyloarthritis Olivier Fogel , Andreas Bugge Tinggaard , Maud Fagny , Nelly Sigrist , Elodie Roche et al. Arthritis Research & Therapy, 2019, 21 (1), pp.1-14. ⟨10.1186/s13075-019-1829-7⟩ Article dans une revue hal-03642295v1
	Differential DNA methylation in experienced meditators after an intensive day of mindfulness-based practice: implications for immune-related pathways R. Chaix , M. Fagny , M. Cosin-Tomás , M. Alvarez-López , Laure Lemee et al. Brain, Behavior, and Immunity, 2019, pp.30879-7. ⟨10.1016/j.bbi.2019.11.003⟩ Article dans une revue hal-02404337v1
	Effects of anti-TNF on MiR expression in monocytes and CD4(+) T-Lymphocytes in spondyloarthritis Olivier Fogel , Maud Fagny , Elodie Roche , Nelly Sigrist , Jean-François Deleuze et al. Arthritis & rheumatology, 2019, 71 Article dans une revue cea-04457182v1
	Histopathological Image QTL Discovery of Immune Infiltration Variants Joseph Barry , Maud Fagny , Joseph Paulson , Hugo J.W.L. Aerts , John Platig et al. iScience, 2018, 5, pp.80-89. ⟨10.1016/j.isci.2018.07.001⟩ Article dans une revue hal-03642302v1
	Exploring the genetic basis of human population differences in DNA methylation and their causal impact on immune gene regulation Lucas T Husquin , Maxime Rotival , Maud Fagny , Hélène Quach , Nora Zidane et al. Genome Biology, 2018, 19, pp.222. ⟨10.1186/s13059-018-1601-3⟩ Article dans une revue hal-02352909v1
	Epigenome-wide DNA methylation profiling in Progressive Supranuclear Palsy reveals major changes at DLX1 Axel Weber , Sigrid C. Schwarz , Jorg Tost , Dietrich Trümbach , Pia Winter et al. Nature Communications, 2018, 9, pp.2929. ⟨10.1038/s41467-018-05325-y⟩ Article dans une revue cea-01877684v1
	Exploring regulation in tissues with eQTL networks Maud Fagny , Joseph Paulson , Marieke Kuijjer , Abhijeet Sonawane , Cho-Yi Chen et al. Proceedings of the National Academy of Sciences of the United States of America, 2017, 114 (37), ⟨10.1073/pnas.1707375114⟩ Article dans une revue hal-03642025v1
	Epigenetic clock analysis in long-term meditators Raphaëlle Chaix , Maria Jesús Alvarez-López , Maud Fagny , Laure Lemee , Béatrice Regnault et al. Psychoneuroendocrinology, 2017, 85, pp.210-214. ⟨10.1016/j.psyneuen.2017.08.016⟩ Article dans une revue pasteur-02555207v1
	Tissue-aware RNA-Seq processing and normalization for heterogeneous and sparse data Joseph Paulson , Cho-Yi Chen , Camila Lopes-Ramos , Marieke Kuijjer , John Platig et al. BMC Bioinformatics, 2017, 18 (1), pp.437. ⟨10.1186/s12859-017-1847-x⟩ Article dans une revue hal-03642307v1
	Trends in DNA Methylation with Age Replicate Across Diverse Human Populations Shyamalika Gopalan , Oana Carja , Maud Fagny , Etienne Patin , Justin Myrick et al. Molecular Biology and Evolution, 2017, 206 (3), pp.1659-1674. ⟨10.1534/genetics.116.195594⟩ Article dans une revue hal-03642039v1
	Regulatory network changes between cell lines and their tissues of origin Camila Lopes-Ramos , Joseph Paulson , Cho-Yi Chen , Marieke Kuijjer , Maud Fagny et al. BMC Genomics, 2017, 18 (1), pp.723. ⟨10.1186/s12864-017-4111-x⟩ Article dans une revue hal-03642306v1
	Understanding Tissue-Specific Gene Regulation Abhijeet Rajendra Sonawane , John Platig , Maud Fagny , Cho-Yi Chen , Joseph Nathaniel Paulson et al. Cell Reports, 2017, 21 (4), pp.1077-1088. ⟨10.1016/j.celrep.2017.10.001⟩ Article dans une revue hal-04272697v1
	An epigenetic clock analysis of race/ethnicity, sex, and coronary heart disease Steve Horvath , Michael Gurven , Morgan Levine , Benjamin Trumble , Hillard Kaplan et al. Genome Biology, 2016, 17 (1), pp.171. ⟨10.1186/s13059-016-1030-0⟩ Article dans une revue hal-03642312v1
	Genomic Signatures of Selective Pressures and Introgression from Archaic Hominins at Human Innate Immunity Genes Matthieu Deschamps , Guillaume Laval , Maud Fagny , Yuval Itan , Laurent Abel et al. American Journal of Human Genetics, 2016, 98 (1), pp.5-21. ⟨10.1016/j.ajhg.2015.11.014⟩ Article dans une revue hal-03642313v1
	The epigenomic landscape of African rainforest hunter-gatherers and farmers Maud Fagny , Etienne Patin , Maxime Rotival , Julia L. Macisaac , Timothée Flutre et al. Nature Communications, 2015, 6, 11 p. ⟨10.1038/ncomms10047⟩ Article dans une revue pasteur-01238387v1
	Exploring the Occurrence of Classic Selective Sweeps in Humans Using Whole-Genome Sequencing Data Sets Maud Fagny , Etienne Patin , David Enard , Luis Barreiro , Lluis Quintana-Murci et al. Molecular Biology and Evolution, 2014, 31 (7), pp.1850-1868. ⟨10.1093/molbev/msu118⟩ Article dans une revue hal-03642315v1

	The Importance of Regulatory Network Structure for Polygenic Trait Heritability and Evolution Maud Fagny PopGroup 59, Diala Abu Awad; Vincent Castric; Thomas Lesaffre; Camille Roux; Roman Stetsenko, Jan 2026, Lille, France Communication dans un congrès hal-05453388v1
	Polygenic traits adaptation leads to selection of beneficial alleles in local regulatory hubs Maud Fagny SMBE 2026, Tom Gilbert; Hernán Morales; Eline Lorenzen; Hannes Schroeder; MARTIN SIKORA, Jun 2026, Copenhaguen, Denmark Communication dans un congrès hal-05683921v1
	Revisiting the functional features of maize dispensable genes Johann Joets. , Maud Fagny , Kevin Baudry , Maëla Mollion , Olivier Turc et al. PAG32, Jan 2025, San Diego (CA), United States Communication dans un congrès hal-05366305v1
	Identifying the contribution of transposable elements to cis-regulatory elements in plants Maud Fagny , Johann Joets , Basile Leduque , Leandro Quadrana , Hadi Quesneville et al. IBRC2025, Jul 2025, Monte Verità, Switzerland Communication dans un congrès hal-05227710v1
	Gene regulatory network structure help us understand how polygenic phenotypes adapt Katherine Stone , John Platig , Frederic Austerlitz , John Quackenbush , Maud Fagny Evolution 2024 - Virtual, Mark McPeek, Dartmouth; Tracy Heath, Iowa State University; Mike Whitlock, University of British Columbia; Howard Rundle, University of Ottawa; Brian Hollis, University of South Carolina; Alex Wong, Carleton University; April Wright, Southeastern Louisiana University; Mike Wiser, Michigan State University, Jun 2024, Montréal (Québec), Canada Communication dans un congrès hal-04646291v1
	The adaptation of polygenic traits: from genes to phenotypes, are regulatory networks the missing link? Katherine Stone , John Platig , John Quackenbush , Maud Fagny Euro Evo Devo 2024, Claudius Kratochwil, Jun 2024, Helsinki, Finland Communication dans un congrès hal-04646272v1
	MITE-driven dissemenitation of cis-regulatory elements in the maize genome Klaus Von Grafenstein , Abirami Soundiramourtty , Maud Fagny , Karine Alix , Johann Joets et al. CNET2022, Jul 2022, Gif-sur-Yvette, France Communication dans un congrès hal-04478810v1
	Distal cis-regulatory elements regulate tissue-specific water-deficit response Maud Fagny 14th annual RECOMB/ISCB Conference on Regulatory & Systems Genomics with DREAM Challenges RSGDREAM 2022, Nov 2022, online/Las Vegas, Nevada, United States Communication dans un congrès hal-04343921v1
	Deciphering tissue-specific regulation and contribution of transposable elements to cis-regulatory sequences Maud Fagny , Marieke L. Kuijjer , Maike Stam , Johann Joets , Olivier Turc et al. UCLLN invited seminars, May 2022, Louvain- la-Neuve, Belgium Communication dans un congrès hal-04351623v1
	Identifying key tissue-specific, biological processes by integrating enhancer information in maize gene regulatory networks Fagny Maud , Kuijjer Marieke L. , Stam Maike , Joets Johann , Turc Olivier et al. 63. Annual Maize Genetics Conference, Mar 2021, Online, United States Communication dans un congrès hal-04478817v1
	Deciphering tissue-specific regulation and contribution of transposable elements to cis-regulatory sequences Fagny Maud , Kuijer Marieke L. , Stam Maike , Joets Johann , Turc Olivier et al. Epiplant III, Feb 2021, Online, France Communication dans un congrès hal-04351579v1
	Identification of key tissue-specific, biological processes through integration of enhancer information in maize gene regulatory networks Maud Fagny , Marieke Kuijjer , Maike Stam , Johann Joets , Olivier Turc et al. LEPSE invited seminars, Oct 2020, Online, France Communication dans un congrès hal-04351597v1
	Investigating cancer risk germline mutations using eQTL networks Maud Fagny 2018 RECOMB meeting - satellite RECOMB-Genetics, Itsik Pe’er, Columbia University; Eleazar Eskin, University of California, Los Angeles, Apr 2018, Paris, France Communication dans un congrès hal-04330963v1
	Human epigenomic variation is driven by historical and recent changes in habitat and lifestyle Maud Fagny SMBE 2015 Vienna, 2015, Vienne (Austria), Austria Communication dans un congrès hal-04330834v1
	Genetic and epigenetic determinants of human adaptation to different lifestyles and modes of subsistence Maud Fagny 2014 HUMAN GENOME MEETING: GENOME VARIATION AND HUMAN HEALTH, Apr 2014, Genève (Suisse), Switzerland Communication dans un congrès hal-04330923v1

	Regulatory response of maize to water deficit mediated by cis-regulatory elements Thomas-Sylvestre Michau , Tristan Mary-Huard , Maud Fagny Maize Genetics Meeting 2026, Feb 2026, Cologne, Germany Poster de conférence hal-05683982v1
	Gene regulatory network structure help us understand how complex phenotypes adapt Katherine Stone , John Platig , Frederic Austerlitz , John Quackenbush , Maud Fagny Evolution 2024, Jul 2024, Montréal (Québec), Canada Poster de conférence hal-04646904v1
	Identifying key tissue-specific, biological processes by integrating enhancer information in maize gene regulatory networks Maud Fagny , Marieke L. Kuijjer , Maike Stam , Johann Joets , Olivier Turc et al. Symposium "Signaling through Chromatin" from molecules to ecosystems, Oct 2023, Grenoble, France. Poster de conférence hal-04353449v1
	Identifying key tissue-specific, biological processes by integrating enhancer information in maize gene regulatory networks Maud Fagny , Marieke L. Kuijjer , Maike Stam , Johann Joets , Olivier Turc et al. 30. Plant and Animal Genome Conference (PAG 30), Jan 2023, San Diego, United States Poster de conférence hal-04353912v1
	Distal cis-regulatory elements regulate tissue-specific water-deficit response Maud Fagny , Johann Joets , Olivier Turc , Claude Welcker , Anthony Venon et al. 14. annual RECOMB/ISCB Conference on Regulatory & Systems Genomics with DREAM Challenges RSGDREAM 2022, Nov 2022, Online, United States. Poster de conférence hal-04343914v1
	Distal cis-regulatory elements regulate tissue-specific water-deficit response Maud Fagny , Olivier Turc , Claude Welcker , Anthony Venon , Harry Belcram et al. CSHL Network Biology Meeting 2021, Mar 2021, New-York, United States. Poster de conférence hal-04347190v1
	The role of transposable elements on gene expression regulation in maize and its response to drought Maud Fagny , Véronique Jamilloux , Johann Joets , Clémentine Vitte 22nd national congress on transposable elements, Jul 2019, Lyon, France Poster de conférence hal-04330779v1

	Complex Traits Heritability is Highly Clustered in the eQTL Bipartite Network Katherine Stone , John Platig , John Quackenbush , Maud Fagny 2024 Pré-publication, Document de travail hal-04488556v1
	Common DNA sequence variation influences epigenetic aging in African populations Gillian L Meeks , Brooke Scelza , Hana M Asnake , Sean Prall , Etienne Patin et al. 2024 Pré-publication, Document de travail (preprint/prepublication) hal-05289047v1
	Identification of key tissue-specific, biological processes by integrating enhancer information in maize gene regulatory networks Maud Fagny , Marieke Lydia Kuijjer , Maike Stam , Johann J. Joets , Olivier Turc et al. 2020 Pré-publication, Document de travail hal-02872027v1
	Connectivity of variants in eQTL networks dictates reproducibility and functionality Sheila Gaynor , Maud Fagny , Xihong Lin , John Platig , John Quackenbush 2022 Pré-publication, Document de travail hal-03642299v1

	DMP of project "Characterizing network wirings of maize water deficit tolerance for genomic selection enhancement Maud Fagny INRAE. 2026 Rapport (plan de gestion de données/data management plan) hal-05698767v1
	MSCA-EF-IF-ST Project PATTERNS: Periodic Technical Report Part B Maud Fagny , Frederic Austerlitz CNRS. 2021 Rapport (rapport contrat/projet) hal-04709589v1

	L'Homme face à son environnement : une histoire génétique et épigénétique du génome humain Maud Fagny Génétique humaine. Université Pierre et Marie Curie - Paris VI, 2015. Français. ⟨NNT : 2015PA066208⟩ Thèse tel-01234659v1

	Epigenome function and connection to genome structure Maud Fagny Engineering school. 2A, AgroParisTech (Palaiseau), France. 2025 Cours hal-05684109v1
	Bio0 : bases de la biologie. 01. Génétique Maud Fagny Master. Bio0 - Bases de la biologie, Université Paris-Saclay, France. 2025 Cours hal-05684065v1
	Bio0 - Bases de la génétique Maud Fagny Master. Bio 0 - Bases de la génétique, Gif-sur Yvette, France. 2024 Cours hal-04709508v1
	Using eQTL networks to decipher the architecture of complex traits Maud Fagny Doctoral. NCMM PhD Course in Multi-Omics, NCMM, Oslo, Norway. 2023 Cours hal-04330996v1
	Using eQTL networks to functionally characterize regulatory mutations Maud Fagny Doctoral. NCMM PhD Courses in Multi-Omics, NCMM, Oslo, Norway. 2022 Cours hal-04331011v1

Chargement...

Maud Fagny

Présentation

Domaines de recherche

Compétences

Publications

Publications

Nuclear Myosin 1 links genomic architecture to adipose tissue remodeling, metabolic inflammation and obesity in mice

How to be dispensable: genomic and transcriptomic determinants in maize genes

Genetics Has Enabled the Improvement of Breeding Strategies: Single-Cell Analysis, Epigenetics, cis-Regulation and Gene Editing to Exploit Genetic Variants Underlying Phenotypes

The Importance of Regulatory Network Structure for Complex Trait Heritability and Evolution

An online notebook resource for reproducible inference, analysis and publication of gene regulatory networks

Connectivity in eQTL networks dictates reproducibility and genomic properties

Editorial: Applications and Methods in Genomic Networks

Identification of Key Tissue-Specific, Biological Processes by Integrating Enhancer Information in Maize Gene Regulatory Networks

Polygenic Adaptation: Integrating Population Genetics and Gene Regulatory Networks

Sex Differences in Gene Expression and Regulatory Networks across 29 Human Tissues

PUMA: PANDA Using MicroRNA Associations

Nongenic cancer-risk SNPs affect oncogenes, tumour-suppressor genes, and immune function

Deregulation of microRNA expression in monocytes and CD4+ T lymphocytes from patients with axial spondyloarthritis

Differential DNA methylation in experienced meditators after an intensive day of mindfulness-based practice: implications for immune-related pathways

Effects of anti-TNF on MiR expression in monocytes and CD4(+) T-Lymphocytes in spondyloarthritis

Histopathological Image QTL Discovery of Immune Infiltration Variants

Exploring the genetic basis of human population differences in DNA methylation and their causal impact on immune gene regulation

Epigenome-wide DNA methylation profiling in Progressive Supranuclear Palsy reveals major changes at DLX1

Exploring regulation in tissues with eQTL networks

Epigenetic clock analysis in long-term meditators

Tissue-aware RNA-Seq processing and normalization for heterogeneous and sparse data

Trends in DNA Methylation with Age Replicate Across Diverse Human Populations

Regulatory network changes between cell lines and their tissues of origin

Understanding Tissue-Specific Gene Regulation

An epigenetic clock analysis of race/ethnicity, sex, and coronary heart disease

Genomic Signatures of Selective Pressures and Introgression from Archaic Hominins at Human Innate Immunity Genes

The epigenomic landscape of African rainforest hunter-gatherers and farmers

Exploring the Occurrence of Classic Selective Sweeps in Humans Using Whole-Genome Sequencing Data Sets

The Importance of Regulatory Network Structure for Polygenic Trait Heritability and Evolution

Polygenic traits adaptation leads to selection of beneficial alleles in local regulatory hubs

Revisiting the functional features of maize dispensable genes

Identifying the contribution of transposable elements to cis-regulatory elements in plants

Gene regulatory network structure help us understand how polygenic phenotypes adapt

The adaptation of polygenic traits: from genes to phenotypes, are regulatory networks the missing link?

MITE-driven dissemenitation of cis-regulatory elements in the maize genome

Distal cis-regulatory elements regulate tissue-specific water-deficit response

Deciphering tissue-specific regulation and contribution of transposable elements to cis-regulatory sequences

Identifying key tissue-specific, biological processes by integrating enhancer information in maize gene regulatory networks

Deciphering tissue-specific regulation and contribution of transposable elements to cis-regulatory sequences

Identification of key tissue-specific, biological processes through integration of enhancer information in maize gene regulatory networks

Investigating cancer risk germline mutations using eQTL networks

Human epigenomic variation is driven by historical and recent changes in habitat and lifestyle

Genetic and epigenetic determinants of human adaptation to different lifestyles and modes of subsistence

Regulatory response of maize to water deficit mediated by cis-regulatory elements

Gene regulatory network structure help us understand how complex phenotypes adapt

Identifying key tissue-specific, biological processes by integrating enhancer information in maize gene regulatory networks

Identifying key tissue-specific, biological processes by integrating enhancer information in maize gene regulatory networks

Distal cis-regulatory elements regulate tissue-specific water-deficit response

Distal cis-regulatory elements regulate tissue-specific water-deficit response

The role of transposable elements on gene expression regulation in maize and its response to drought

Complex Traits Heritability is Highly Clustered in the eQTL Bipartite Network

Common DNA sequence variation influences epigenetic aging in African populations

Identification of key tissue-specific, biological processes by integrating enhancer information in maize gene regulatory networks

Connectivity of variants in eQTL networks dictates reproducibility and functionality

DMP of project "Characterizing network wirings of maize water deficit tolerance for genomic selection enhancement

MSCA-EF-IF-ST Project PATTERNS: Periodic Technical Report Part B

L'Homme face à son environnement : une histoire génétique et épigénétique du génome humain

Epigenome function and connection to genome structure

Bio0 : bases de la biologie. 01. Génétique

Bio0 - Bases de la génétique

Using eQTL networks to decipher the architecture of complex traits

Using eQTL networks to functionally characterize regulatory mutations