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Author Details

Anna Marie Pyle
Yale University, USA Howard Hughes Medical Institute
1989
213
64
Wade Schulz (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36920909A protocol for capturing RNA-sensing innate immune receptors in multiple conformations by single-particle cryo-EM.STAR Protoc2023
37914451End-to-end RT-PCR of long RNA and highly structured RNA.Methods Enzymol2023
37914446Making RNA: Using T7 RNA polymerase to produce high yields of RNA from DNA templates.Methods Enzymol2023
37914445RT-based Sanger sequencing of RNAs containing complex RNA repetitive elements.Methods Enzymol2023
37802215MRT-ModSeq - Rapid Detection of RNA Modifications with MarathonRT.J Mol Biol2023
37852981The SMN complex drives structural changes in human snRNAs to enable snRNP assembly.Nat Commun2023
37951994The E3 ligase Riplet promotes RIG-I signaling independent of RIG-I oligomerization.Nat Commun2023
37479079Arena: Rapid and Accurate Reconstruction of Full Atomic RNA Structures From Coarse-grained Models.J Mol Biol2023
37602469<i>In Silico</i> Discovery of Group II Intron RNA Splicing Inhibitors.ACS Chem Biol2023
37010520PDC: a highly compact file format to store protein 3D coordinates.Database (Oxford)2023
37296103Systematic detection of tertiary structural modules in large RNAs and RNP interfaces by Tb-seq.Nat Commun2023
37356900rMSA: A Sequence Search and Alignment Algorithm to Improve RNA Structure Modeling.J Mol Biol2023
37292902MRT-ModSeq - Rapid detection of RNA modifications with MarathonRT.bioRxiv2023
36857576RSCanner: rapid assessment and visualization of RNA structure content.Bioinformatics2023
36521492A rapid RIG-I signaling relay mediates efficient antiviral response.Mol Cell2023
34757384A stem-loop RNA RIG-I agonist protects against acute and chronic SARS-CoV-2 infection in mice.J Exp Med2022
35353000The <i>In Vivo</i> and <i>In Vitro</i> Architecture of the Hepatitis C Virus RNA Genome Uncovers Functional RNA Secondary and Tertiary Structures.J Virol2022
35438748A molecular beacon assay for monitoring RNA splicing.Nucleic Acids Res2022
35362469CSSR: assignment of secondary structure to coarse-grained RNA tertiary structures.Acta Crystallogr D Struct Biol2022
35561202AMIGOS III: pseudo-torsion angle visualization and motif-based structure comparison of nucleic acids.Bioinformatics2022
35713547Direct tracking of reverse-transcriptase speed and template sensitivity: implications for sequencing and analysis of long RNA molecules.Nucleic Acids Res2022
36248743A unified approach to sequential and non-sequential structure alignment of proteins, RNAs, and DNAs.iScience2022
36272408The RIG-I receptor adopts two different conformations for distinguishing host from viral RNA ligands.Mol Cell2022
36038728US-align: universal structure alignments of proteins, nucleic acids, and macromolecular complexes.Nat Methods2022
35965013Monitoring functional RNA binding of RNA-dependent ATPase enzymes such as SF2 helicases using RNA dependent ATPase assays: A RIG-I case study.Methods Enzymol2022
36356138Structures of a mobile intron retroelement poised to attack its structured DNA target.Science2022
34983933Author Correction: Visualizing group II intron dynamics between the first and second steps of splicing.Nat Commun2022
35301314De novo emergence of a remdesivir resistance mutation during treatment of persistent SARS-CoV-2 infection in an immunocompromised patient: a case report.Nat Commun2022
33268519The global and local distribution of RNA structure throughout the SARS-CoV-2 genome.J Virol2021
33730024Single-cell longitudinal analysis of SARS-CoV-2 infection in human airway epithelium identifies target cells, alterations in gene expression, and cell state changes.PLoS Biol2021
34909781<i>De novo</i> emergence of a remdesivir resistance mutation during treatment of persistent SARS-CoV-2 infection in an immunocompromised patient: A case report.medRxiv2021
34850132Discovery of highly reactive self-splicing group II introns within the mitochondrial genomes of human pathogenic fungi.Nucleic Acids Res2021
34791665Noncoding RNAs: biology and applications-a Keystone Symposia report.Ann N Y Acad Sci2021
34403472Insights into the structure and RNA-binding specificity of Caenorhabditis elegans Dicer-related helicase 3 (DRH-3).Nucleic Acids Res2021
34487794Evolving A RIG-I Antagonist: A Modified DNA Aptamer Mimics Viral RNA.J Mol Biol2021
34514601The molecular mechanism of RIG-I activation and signaling.Immunol Rev2021
34159330A stem-loop RNA RIG-I agonist confers prophylactic and therapeutic protection against acute and chronic SARS-CoV-2 infection in mice.bioRxiv2021
33444546Comprehensive in vivo secondary structure of the SARS-CoV-2 genome reveals novel regulatory motifs and mechanisms.Mol Cell2021
32259542Sequencing and Structure Probing of Long RNAs Using MarathonRT: A Next-Generation Reverse Transcriptase.J Mol Biol2020
31944652Small-Molecule Antagonists of the RIG-I Innate Immune Receptor.ACS Chem Biol2020
33274278Structural Optimization of Polymeric Carriers to Enhance the Immunostimulatory Activity of Molecularly Defined RIG-I Agonists.ACS Cent Sci2020
32503992Visualizing group II intron dynamics between the first and second steps of splicing.Nat Commun2020
30784585RIG-I Selectively Discriminates against 5'-Monophosphate RNA.Cell Rep2019
31851914RIG-I Recognition of RNA Targets: The Influence of Terminal Base Pair Sequence and Overhangs on Affinity and Signaling.Cell Rep2019
31239050Sensitive detection of structural features and rearrangements in long, structured RNA molecules.Methods Enzymol2019
31408339Discovery of <i>N</i>-Substituted 3-Amino-4-(3-boronopropyl)pyrrolidine-3-carboxylic Acids as Highly Potent Third-Generation Inhibitors of Human Arginase I and II.J Med Chem2019
31601678Intratumoral delivery of RIG-I agonist SLR14 induces robust antitumor responses.J Exp Med2019
30890332Phylogenetic Analysis with Improved Parameters Reveals Conservation in lncRNA Structures.J Mol Biol2019
29350913Environmentally Triggerable Retinoic Acid-Inducible Gene I Agonists Using Synthetic Polymer Overhangs.Bioconjug Chem2018
29973597microRNA-122 amplifies hepatitis C virus translation by shaping the structure of the internal ribosomal entry site.Nat Commun2018
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Collaborators

Akiko Iwasaki
Yale University
Co-authored papers 12
Brett D Lindenbach
Yale University School of Medicine
Co-authored papers 10
Craig B Wilen
Yale School of Medicine
Co-authored papers 7
Chengxin Zhang
University of Michigan ann arbor
Co-authored papers 7
Olga Potapova
Co-authored papers 6
Ellen F Foxman
Yale School of Medicine
Co-authored papers 3
Michael Brenowitz
Albert Einstein College of Medicine
Co-authored papers 2
Brenton R Graveley
Co-authored papers 2
Elsio A Wunder
Yale School of Public Health
Co-authored papers 2
Benjamin Israelow
Yale University School of Medicine
Co-authored papers 2
Yang Zhang
University of Michigan ann arbor
Co-authored papers 2
Pavitra Roychoudhury
Fred Hutchinson Cancer Center
Co-authored papers 2
Wade Schulz (CM4AI)
Yale University
Co-authored papers 2
Alexander L Greninger
University of Washington Medical Center
Co-authored papers 2
Onyema Ogbuagu
Yale School of Medicine, Yale University
Co-authored papers 2
Albert I Ko
Instituto Goncalo Moniz, Yale School of Public Health
Co-authored papers 2
Peiwen Lu
Yale University School of Medicine
Co-authored papers 2
Chantal B F Vogels
Yale School of Public Health
Co-authored papers 2
Barry Honig
Columbia University Irving Medical Center
Co-authored papers 2
Carolina Lucas
Yale School of Medicine
Co-authored papers 2
Tianyang Mao
Yale University School of Medicine
Co-authored papers 2
Nathan D Grubaugh
Yale School of Public Health
Co-authored papers 2
Wenshuai Wang
Yale University, USA Howard Hughes Medical Institute
Co-authored papers 2
Paula I Gonzalez-Ericsson
Co-authored papers 1
Howard Y Chang
Center for Personal Dynamic Regulomes, Stanford University
Co-authored papers 1
Richard W Pierce
Yale School of Medicine
Co-authored papers 1
Edith Heard
Institut Curie, PSL Research University, CNRS UMR 5, INSERM U934
Co-authored papers 1
Carlos Bustamante
University of California berkeley
Co-authored papers 1
Pasquale Patrizio
Co-authored papers 1
David Ferguson
Co-authored papers 1
Release 1.2