M. Fagny

发表

Histopathological Image QTL Discovery of Immune Infiltration Variants

John Quackenbush, H. Aerts, Joseph D Barry, 2018, iScience.

Exploring the occurrence of classic selective sweeps in humans using whole-genome sequencing data sets.

M. Fagny, L. Quintana-Murci, G. Laval, 2014, Molecular biology and evolution.

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

J. Casanova, M. Fagny, L. Quintana-Murci, 2016, American journal of human genetics.

Understanding Tissue-Specific Gene Regulation

Abhijeet R. Sonawane, D. DeMeo, John Quackenbush, 2017, bioRxiv.

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

Abhijeet R. Sonawane, D. DeMeo, John Quackenbush, 2020, Cell reports.

Exploring regulation in tissues with eQTL networks

Abhijeet R. Sonawane, John Quackenbush, M. Fagny, 2017, Proceedings of the National Academy of Sciences.

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

M. Levine, S. Horvath, Brian H Chen, 2016, Genome Biology.

Transcriptional landscape of cell lines and their tissues of origin

Abhijeet R. Sonawane, D. DeMeo, J. Quackenbush, 2016, bioRxiv.

Histopathological image QTL discovery of thyroid autoimmune disease variants

John Quackenbush, H. Aerts, Joseph D Barry, 2017, bioRxiv.

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

M. Fagny, J. Joets, M. Kuijjer, 2021, Frontiers in Genetics.

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

M. Fagny, J. Joets, M. Kuijjer, 2020, bioRxiv.

Understanding Tissue-Specific Gene Regulation

Abhijeet R. Sonawane, D. DeMeo, John Quackenbush, 2017, bioRxiv.

Connectivity of variants in eQTL networks dictates reproducibility and functionality

Xihong Lin, J. Quackenbush, M. Fagny, 2019, bioRxiv.

Supplemental Information Understanding Tissue-Speci fi c Gene Regulation

Lisa, Camila, Abhijeet R. Sonawane, 2017 .

Connectivity in eQTL networks dictates reproducibility and genomic properties

J. Quackenbush, Xihong Lin, M. Fagny, 2022, Cell reports methods.

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

D. Dickson, W. Wurst, D. Trümbach, 2018, Nature Communications.

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

Xihong Lin, John Quackenbush, M. Fagny, 2019, British Journal of Cancer.

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

Xihong Lin, J. Quackenbush, M. Fagny, 2018, bioRxiv.

Regulatory network changes between cell lines and their tissues of origin

John Quackenbush, Cho-Yi Chen, Joseph N. Paulson, 2017, BMC Genomics.

Polygenic Adaptation: Integrating Population Genetics and Gene Regulatory Networks.

M. Fagny, F. Austerlitz, 2021, Trends in genetics : TIG.

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

Hugues Aschard, Lluis Quintana-Murci, Maud Fagny, 2018, Genome Biology.

A network-based approach to eQTL interpretation and SNP functional characterization

Cho-Yi Chen, Joseph N. Paulson, Kimberly Glass, 2016, bioRxiv.

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

Xihong Lin, John Quackenbush, M. Fagny, 2019, British Journal of Cancer.

Epigenetic clock analysis in long-term meditators

A. Lutz, R. Davidson, M. Fagny, 2017, Psychoneuroendocrinology.

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

Deborah A. Weighill, J. Quackenbush, M. Fagny, 2022, Nature Methods.

PUMA: PANDA Using MicroRNA Associations

John Quackenbush, Alessandro Marin, Kimberly Glass, 2019, bioRxiv.

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

John Quackenbush, Cho-Yi Chen, Joseph N. Paulson, 2016, BMC Bioinformatics.

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

M. Dougados, M. Fagny, J. Deleuze, 2019, Arthritis Research & Therapy.

Trends in DNA Methylation with Age Replicate Across Diverse Human Populations

M. Feldman, B. Henn, M. Fagny, 2016, Genetics.

The epigenomic landscape of African rainforest hunter-gatherers and farmers

G. Perry, T. Flutre, M. Fagny, 2015, Nature Communications.

Sexual dimorphism in gene expression and regulatory networks across human tissues

Cho-Yi Chen, Joseph N. Paulson, Kimberly Glass, 2016, bioRxiv.

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

A. Lutz, R. Davidson, M. Fagny, 2019, Brain, Behavior, and Immunity.

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

M. Levine, D. Absher, T. Assimes, 2016, Genome Biology.

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

D. Dickson, W. Wurst, D. Trümbach, 2018, Nature Communications.

Additional file 5: Table S1. of Tissue-aware RNA-Seq processing and normalization for heterogeneous and sparse data

Abhijeet R. Sonawane, J. Quackenbush, M. Fagny, 2017 .

Common DNA sequence variation influences epigenetic aging in African populations

B. Henn, M. Fagny, B. Scelza, 2024, bioRxiv.

Complex Traits Heritability is Highly Clustered in the eQTL Bipartite Network

J. Quackenbush, M. Fagny, John Platig, 2024, bioRxiv.