Publications by authors named "Joseph D Yesselman"

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Self-Assembling Nanostructures are Highly Sensitive to Environmental Conditions.
Jordan Aposhian, Surya Pratap S Deopa, Scott Horowitz, Joseph D Yesselman

J Mol Biol· December 2025

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Quantitative Thermodynamic Characterization of Self-Assembling RNA Nanostructures.
Jordan Aposhian, Surya Pratap S Deopa, Scott Horowitz, Joseph D Yesselman

bioRxiv· July 2025

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Analysis of natural structures and chemical mapping data reveals local stability compensation in RNA.
Robert L Cornwell-Arquitt, Riley Nigh, Michael T Hathaway, Joseph D Yesselman, David A Hendrix

Nucleic Acids Res· June 2025

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Analysis of natural structures and chemical mapping data reveals local stability compensation in RNA.
Robert L Cornwell-Arquitt, Riley Nigh, Michael T Hathaway, Joseph D Yesselman, David A Hendrix

bioRxiv· April 2025

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Characterizing 3D RNA structural features from DMS reactivity.
D H Sanduni Deenalattha, Chris P Jurich, Bret Lange, Darren Armstrong, Kaitlyn Nein, Joseph D Yesselman

bioRxiv· February 2025

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RNA-Puzzles Round V: blind predictions of 23 RNA structures.
Fan Bu, Yagoub Adam, Ryszard W Adamiak, Maciej Antczak, Belisa Rebeca H de Aquino, Joseph David Yesselman

Nat Methods· February 2025

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High-throughput determination of RNA tertiary contact thermodynamics by quantitative DMS chemical mapping.
Bret Lange, Ricardo G Gil, Gavin S Anderson, Joseph D Yesselman

Nucleic Acids Res· September 2024

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Simulated LC-MS Data Set for Assessing the Metabolomics Data Processing Pipeline Implemented into MVAPACK.
Christopher P Jurich, Micah J Jeppesen, Isin T Sakallioglu, Aline De Lima Leite, Joseph D Yesselman

Anal Chem· August 2024

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Visualizing a two-state conformational ensemble in stem-loop 3 of the transcriptional regulator 7SK RNA.
Momodou B Camara, Bret Lange, Joseph D Yesselman, Catherine D Eichhorn

Nucleic Acids Res· January 2024

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Visualizing a two-state conformational ensemble in stem-loop 3 of the transcriptional regulator 7SK RNA.
Momodou B Camara, Bret Lange, Joseph D Yesselman, Catherine D Eichhorn

bioRxiv· August 2023

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Automated 3D Design and Evaluation of RNA Nanostructures with RNAMake.
Chris P Jurich, Joseph D Yesselman

Methods Mol Biol· January 2023

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Web-based platform for analysis of RNA folding from high throughput chemical probing data.
Christopher P Jurich, Amir Brivanlou, Silvi Rouskin, Joseph D Yesselman

Nucleic Acids Res· July 2022

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Chemical reversible crosslinking enables measurement of RNA 3D distances and alternative conformations in cells.
Ryan Van Damme, Kongpan Li, Minjie Zhang, Jianhui Bai, Wilson H Lee, Joseph D Yesselman

Nat Commun· February 2022

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Amilorides inhibit SARS-CoV-2 replication in vitro by targeting RNA structures.
Martina Zafferani, Christina Haddad, Le Luo, Jesse Davila-Calderon, Liang-Yuan Chiu, Joseph D Yesselman

Sci Adv· November 2021

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Amilorides inhibit SARS-CoV-2 replication in vitro by targeting RNA structures.
Zafferani Martina, Haddad Christina, Luo Le, Davila-Calderon Jesse, Yuan-Chiu Liang, Joseph D Yesselman

bioRxiv· December 2020

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Rapid and accurate determination of atomistic RNA dynamic ensemble models using NMR and structure prediction.
Honglue Shi, Atul Rangadurai, Hala Abou Assi, Rohit Roy, David A Case, Joseph D Yesselman

Nat Commun· November 2020

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RNA-Puzzles Round IV: 3D structure predictions of four ribozymes and two aptamers.
Zhichao Miao, Ryszard W Adamiak, Maciej Antczak, Michał J Boniecki, Janusz Bujnicki, Joseph D Yesselman

RNA· August 2020

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Accelerated cryo-EM-guided determination of three-dimensional RNA-only structures.
Kalli Kappel, Kaiming Zhang, Zhaoming Su, Andrew M Watkins, Wipapat Kladwang, Joseph D Yesselman

Nat Methods· July 2020

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Computational design of three-dimensional RNA structure and function.
Joseph D Yesselman, Daniel Eiler, Erik D Carlson, Michael R Gotrik, Anne E d'Aquino

Nat Nanotechnol· September 2019

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Sequence-dependent RNA helix conformational preferences predictably impact tertiary structure formation.
Joseph D Yesselman, Sarah K Denny, Namita Bisaria, Daniel Herschlag, William J Greenleaf

Proc Natl Acad Sci U S A· August 2019

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High-Throughput Investigation of Diverse Junction Elements in RNA Tertiary Folding.
Sarah Knight Denny, Namita Bisaria, Joseph David Yesselman, Rhiju Das, Daniel Herschlag

Cell· July 2018

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Modeling Small Noncanonical RNA Motifs with the Rosetta FARFAR Server.
Joseph D Yesselman, Rhiju Das

Methods Mol Biol· January 2018

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Updates to the RNA mapping database (RMDB), version 2.
Joseph D Yesselman, Siqi Tian, Xin Liu, Lei Shi, Jin Billy Li

Nucleic Acids Res· January 2018

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RNA structure inference through chemical mapping after accidental or intentional mutations.
Clarence Y Cheng, Wipapat Kladwang, Joseph D Yesselman, Rhiju Das

Proc Natl Acad Sci U S A· September 2017

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Structural conservation in the template/pseudoknot domain of vertebrate telomerase RNA from teleost fish to human.
Yaqiang Wang, Joseph D Yesselman, Qi Zhang, Mijeong Kang, Juli Feigon

Proc Natl Acad Sci U S A· August 2016

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