Maud Fagny

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

Documents

Affiliations actuelles

1002313

Identifiants chercheurs

maud-fagny
ResearcherId : O-5415-2017
0000-0002-7740-2521
Google Scholar : https://scholar.google.co.uk/citations?hl=en&user=PsKD_IsAAAAJ
IdRef : 189710691
Google Scholar : 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

	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
	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 Nature Methods, 2022, 19 (5), pp.511-513. ⟨10.1038/s41592-022-01479-2⟩ Article dans une revue hal-03694550v1
	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
	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
	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 Frontiers in Genetics, 2021, 11, ⟨10.3389/fgene.2020.606285⟩ Article dans une revue hal-03152056v1
	Sex Differences in Gene Expression and Regulatory Networks across 29 Human Tissues Camila Lopes-Ramos , Cho-Yi Chen , Marieke Kuijjer , Joseph Paulson , Abhijeet Sonawane Cell Reports, 2020, 31 (12), pp.107795. ⟨10.1016/j.celrep.2020.107795⟩ Article dans une revue hal-03642288v1
	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
	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
	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 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 Brain, Behavior, and Immunity, 2019, pp.30879-7. ⟨10.1016/j.bbi.2019.11.003⟩ Article dans une revue hal-02404337v1
	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 Nature Communications, 2018, 9, pp.2929. ⟨10.1038/s41467-018-05325-y⟩ Article dans une revue cea-01877684v1
	Histopathological Image QTL Discovery of Immune Infiltration Variants Joseph Barry , Maud Fagny , Joseph Paulson , Hugo J.W.L. Aerts , John Platig iScience, 2018, 5, pp.80-89. ⟨10.1016/j.isci.2018.07.001⟩ Article dans une revue hal-04310333v1
	Histopathological Image QTL Discovery of Immune Infiltration Variants Joseph Barry , Maud Fagny , Joseph Paulson , Hugo J.W.L. Aerts , John Platig 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 Genome Biology, 2018, 19, pp.222. ⟨10.1186/s13059-018-1601-3⟩ Article dans une revue hal-02352909v1
	Trends in DNA Methylation with Age Replicate Across Diverse Human Populations Shyamalika Gopalan , Oana Carja , Maud Fagny , Etienne Patin , Justin Myrick 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 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 Cell Reports, 2017, 21 (4), pp.1077-1088. ⟨10.1016/j.celrep.2017.10.001⟩ Article dans une revue hal-04272697v1
	Exploring regulation in tissues with eQTL networks Maud Fagny , Joseph Paulson , Marieke Kuijjer , Abhijeet Sonawane , Cho-Yi Chen 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 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 BMC Bioinformatics, 2017, 18 (1), pp.437. ⟨10.1186/s12859-017-1847-x⟩ Article dans une revue hal-03642307v1
	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 American Journal of Human Genetics, 2016, 98 (1), pp.5-21. ⟨10.1016/j.ajhg.2015.11.014⟩ Article dans une revue hal-03642313v1
	An epigenetic clock analysis of race/ethnicity, sex, and coronary heart disease Steve Horvath , Michael Gurven , Morgan Levine , Benjamin Trumble , Hillard Kaplan Genome Biology, 2016, 17 (1), pp.171. ⟨10.1186/s13059-016-1030-0⟩ Article dans une revue hal-03642312v1
	The epigenomic landscape of African rainforest hunter-gatherers and farmers Maud Fagny , Etienne Patin , Maxime Rotival , Julia L. Macisaac , Timothée Flutre 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 Molecular Biology and Evolution, 2014, 31 (7), pp.1850-1868. ⟨10.1093/molbev/msu118⟩ Article dans une revue hal-03642315v1

	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
	Identifying key tissue-specific, biological processes by integrating enhancer information in maize gene regulatory networks Maud Fagny 2021 63rd Annual Maize Genetics Meeting, Marna Yandeau-Nelson (Chair) - Iowa State University; Erin Sparks (co-Chair) - University of Delaware, Mar 2021, Virtual conference, United States Communication dans un congrès hal-04330808v1
	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

	Distal cis-regulatory elements regulate tissue-specific water-deficit response Maud Fagny , Johann Joets , Olivier Turc , Claude Welcker , Anthony Venon 14th annual RECOMB/ISCB Conference on Regulatory & Systems Genomics with DREAM Challenges RSGDREAM 2022, Nov 2022, Online/Las Vegas, Nevada., 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 CSHL Network Biology Meeting 2021, Mar 2021, Cold Spring Harbor (NY), 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
	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
	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 2020 Pré-publication, Document de travail hal-02872027v1

	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

	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

Maud Fagny

Présentation

Domaines de recherche

Compétences

Publications

Connectivity in eQTL networks dictates reproducibility and genomic properties

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

Editorial: Applications and Methods in Genomic Networks

Polygenic Adaptation: Integrating Population Genetics and Gene Regulatory Networks

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

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

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

PUMA: PANDA Using MicroRNA Associations

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

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

Histopathological Image QTL Discovery of Immune Infiltration Variants

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

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

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

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

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

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

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

Identifying key tissue-specific, biological processes by integrating 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

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

Connectivity of variants in eQTL networks dictates reproducibility and functionality

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

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

Using eQTL networks to decipher the architecture of complex traits

Using eQTL networks to functionally characterize regulatory mutations