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Author Details

Ryan A Flynn
Boston Children's Hospital
2006
98
48
Nevan J Krogan (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36865202LINE-associated cryptic splicing induces dsRNA-mediated interferon response and tumor immunity.bioRxiv2023
37068783RNA Crossing Membranes: Systems and Mechanisms Contextualizing Extracellular RNA and Cell Surface GlycoRNAs.Annu Rev Genomics Hum Genet2023
37164018Co-transcriptional genome surveillance by HUSH is coupled to termination machinery.Mol Cell2023
36609645A (cross)link in the chains.Nat Chem2023
36608661Glucose dissociates DDX21 dimers to regulate mRNA splicing and tissue differentiation.Cell2023
36603024Nuclear accumulation of host transcripts during Zika Virus Infection.PLoS Pathog2023
35226736BET-bromodomain and EZH2 inhibitor-treated chronic GVHD mice have blunted germinal centers with distinct transcriptomes.Blood2022
35438783An atlas of posttranslational modifications on RNA binding proteins.Nucleic Acids Res2022
35359939Targeting the Retinoid X Receptor Pathway Prevents and Ameliorates Murine Chronic Graft-Versus-Host Disease.Front Immunol2022
35482886Loquacious modulates flaviviral RNA replication in mosquito cells.PLoS Pathog2022
36074821The human disease gene LYSET is essential for lysosomal enzyme transport and viral infection.Science2022
34004145Small RNAs are modified with N-glycans and displayed on the surface of living cells.Cell2021
35008621Analyses and Correlation of Pathologic and Ocular Cutaneous Changes in Murine Graft versus Host Disease.Int J Mol Sci2021
34851695The CD22-IGF2R interaction is a therapeutic target for microglial lysosome dysfunction in Niemann-Pick type C.Sci Transl Med2021
34634799Diverse functional elements in RNA predicted transcriptome-wide by orthogonal RNA structure probing.Nucleic Acids Res2021
34485935fSHAPE, fSHAPE-eCLIP, and SHAPE-eCLIP probe transcript regions that interact with specific proteins.STAR Protoc2021
32231306RNA helicase DDX21 mediates nucleotide stress responses in neural crest and melanoma cells.Nat Cell Biol2020
31697815Inhibition of inositol kinase B controls acute and chronic graft-versus-host disease.Blood2020
32103174DNA-PKcs has KU-dependent function in rRNA processing and haematopoiesis.Nature2020
33052334Systematic discovery and functional interrogation of SARS-CoV-2 viral RNA-host protein interactions during infection.bioRxiv2020
33242392Footprinting SHAPE-eCLIP Reveals Transcriptome-wide Hydrogen Bonds at RNA-Protein Interfaces.Mol Cell2020
33236985Proteomic analysis of young and old mouse hematopoietic stem cells and their progenitors reveals post-transcriptional regulation in stem cells.Elife2020
32743583Progenitor identification and SARS-CoV-2 infection in long-term human distal lung organoid cultures.bioRxiv2020
32463448A memory of eS25 loss drives resistance phenotypes.Nucleic Acids Res2020
30279226Small-molecule BCL6 inhibitor effectively treats mice with nonsclerodermatous chronic graft-versus-host disease.Blood2019
31836708Functional significance of U2AF1 S34F mutations in lung adenocarcinomas.Nat Commun2019
31243040Activated protein C ameliorates chronic graft-versus-host disease by PAR1-dependent biased cell signaling on T cells.Blood2019
31384002An RNA-centric dissection of host complexes controlling flavivirus infection.Nat Microbiol2019
31133759HiChIRP reveals RNA-associated chromosome conformation.Nat Methods2019
30748099Targeting PI3Kδ function for amelioration of murine chronic graft-versus-host disease.Am J Transplant2019
30628890The novel lncRNA <i>lnc-NR2F1</i> is pro-neurogenic and mutated in human neurodevelopmental disorders.Elife2019
29348127Murine chronic graft-versus-host disease proteome profiling discovers CCL15 as a novel biomarker in patients.Blood2018
29973715Retraction Note: DDX5 and its associated lncRNA Rmrp modulate T<sub>H</sub>17 cell effector functions.Nature2018
30181175Notch signaling mediated by Delta-like ligands 1 and 4 controls the pathogenesis of chronic GVHD in mice.Blood2018
30568034C5aR1 regulates T follicular helper differentiation and chronic graft-versus-host disease bronchiolitis obliterans.JCI Insight2018
29364875Tissue-selective effects of nucleolar stress and rDNA damage in developmental disorders.Nature2018
29530952MicroRNA-17-92 is required for T-cell and B-cell pathogenicity in chronic graft-versus-host disease in mice.Blood2018
27879433Comparison of SHAPE reagents for mapping RNA structures inside living cells.RNA2017
28254742Pirfenidone ameliorates murine chronic GVHD through inhibition of macrophage infiltration and TGF-β production.Blood2017
28319368Comparative Analysis Reveals Furoyl in Vivo Selective Hydroxyl Acylation Analyzed by Primer Extension Reagents Form Stable Ribosyl Ester Adducts.Biochemistry2017
28416503Invariant natural killer T cells ameliorate murine chronic GVHD by expanding donor regulatory T cells.Blood2017
29202016Inhibition of NGLY1 Inactivates the Transcription Factor Nrf1 and Potentiates Proteasome Inhibitor Cytotoxicity.ACS Cent Sci2017
28945252Enhancer connectome in primary human cells identifies target genes of disease-associated DNA elements.Nat Genet2017
28614794An activated Th17-prone T cell subset involved in chronic graft-versus-host disease sensitive to pharmacological inhibition.JCI Insight2017
28575669The Mammalian Ribo-interactome Reveals Ribosome Functional Diversity and Heterogeneity.Cell2017
27111506irCLIP platform for efficient characterization of protein-RNA interactions.Nat Methods2016
27643841HiChIP: efficient and sensitive analysis of protein-directed genome architecture.Nat Methods2016
27668660An inducible long noncoding RNA amplifies DNA damage signaling.Nat Genet2016
27829007Novel Gene Expression Profile of Women with Intrinsic Skin Youthfulness by Whole Transcriptome Sequencing.PLoS One2016
27385791Therapeutic regulatory T-cell adoptive transfer ameliorates established murine chronic GVHD in a CXCR5-dependent manner.Blood2016
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Collaborators

Howard Y Chang
Center for Personal Dynamic Regulomes, Stanford University
Co-authored papers 40
Jonathan S Serody
The University of North Carolina School of Medicine
Co-authored papers 13
Jerome Ritz
Dana-Farber Cancer Institute, Harvard Medical School, Brigham and Women's Hospital
Co-authored papers 12
William J Murphy
Co-authored papers 11
Kun Qu
University of Science and Technology of China
Co-authored papers 9
Carolyn R Bertozzi
Stanford University
Co-authored papers 8
Jan E Carette
Stanford University School of Medicine
Co-authored papers 7
Eric T Kool
Co-authored papers 6
Brian T Do
Center for Personal Dynamic Regulomes, Stanford University
Co-authored papers 6
Maxwell R Mumbach
Broad Institute of MIT and Harvard
Co-authored papers 5
Yaw Shin Ooi
Duke-NUS Medical School
Co-authored papers 4
M Ryan Corces
Gladstone Institute of Neurological Disease
Co-authored papers 4
Ying Shen
Center for Personal Dynamic Regulomes, Stanford University School of Medicine
Co-authored papers 3
Ansuman T Satpathy
Stanford University
Co-authored papers 3
Sophie Paczesny
Hollings Cancer Center, Medical University of South Carolina
Co-authored papers 3
Peter T Sage
Transplant Research Center, Brigham and Women's Hospital, Harvard Medical School
Co-authored papers 3
Gene W Yeo
University of California
Co-authored papers 3
William J Greenleaf
Stanford University
Co-authored papers 3
Peter Sarnow
Stanford University School of Medicine
Co-authored papers 3
Frank B Furnari
University of California San Diego
Co-authored papers 2
Richard M Myers
HudsonAlpha Institute for Biotechnology
Co-authored papers 2
Webster K Cavenee
Ludwig Institute for Cancer Research, University of California San Diego
Co-authored papers 2
Steven M Blue
University of California San Diego
Co-authored papers 2
Qing Zhang
Beijing Hospital of Traditional Chinese Medicine, Capital Medical University
Co-authored papers 2
James E Bradner
Co-authored papers 2
Forest M White
Massachusetts Institute of Technology
Co-authored papers 2
Richard Bonneau
Center for Computational Biology (CCB), Flatiron Institute, Simons Foundation
Co-authored papers 2
Jun Qi
Dana-Farber Cancer Institute
Co-authored papers 2
Wendy Huang
Co-authored papers 2
Andreas S Puschnik
Stanford University School of Medicine
Co-authored papers 2
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