Alan A Chen (Alan Chen)

ResearcherID ORCID

Publication Activity (10 Years)

Years Active: 2016-2024
Publications (10 Years): 29

Top Venues

Nucleic acids research

Nature communications

bioRxiv : the preprint server for biology

ACS chemical biology

University at Albany

Washington University in St. Louis (PHD)

This page only lists publications with an associated author ORCID identifier.

Affiliation History

University at Albany Jan 01 2020

United States

Associate Professor :: Chemistry

University at Albany Department of Chemistry Jan 01 2014 - Dec 31 2019

United States

Assistant Professor :: Chemistry

Rensselaer Polytechnic Institute

United States

Postdoctoral Fellow :: Physics

Education History

Washington University in St. Louis

United States

PHD :: Biophysics

Publications

Zohreh R Nowzari, Rebecca J D'Esposito, Sweta Vangaveti, Alan A Chen
Elucidating the influence of RNA modifications and Magnesium ions on tRNA Phe conformational dynamics in S. cerevisiae : Insights from Replica Exchange Molecular Dynamics simulations. bioRxiv : the preprint server for biology (2024)
Laura M Hertz, Elise N White, Konstantin Kuznedelov, Luyi Cheng, Angela M Yu, Rivaan Kakkaramadam, Konstantin V Severinov, Alan A Chen, Julius B Lucks
The effect of pseudoknot base pairing on cotranscriptional structural switching of the fluoride riboswitch. Nucleic acids research 52 (8) (2024)
Laura M Hertz, Elise N White, Konstantin Kuznedelov, Luyi Cheng, Angela M Yu, Rivaan Kakkaramadam, Konstantin V Severinov, Alan A Chen, Julius B Lucks
The effect of pseudoknot base pairing on cotranscriptional structural switching of the fluoride riboswitch. Nucleic acids research 52 (8) (2024)
Laura M Hertz, Elise N White, Konstantin Kuznedelov, Luyi Cheng, Angela M Yu, Rivaan Kakkaramadam, Konstantin V Severinov, Alan A Chen, Julius B Lucks
The effect of pseudoknot base pairing on cotranscriptional structural switching of the fluoride riboswitch. Nucleic acids research 52 (8) (2024)
Laura M Hertz, Elise N White, Konstantin Kuznedelov, Luyi Cheng, Angela M Yu, Rivaan Kakkaramadam, Konstantin V Severinov, Alan A Chen, Julius B Lucks
The effect of pseudoknot base pairing on cotranscriptional structural switching of the fluoride riboswitch. Nucleic acids research 52 (8) (2024)
Laura M Hertz, Elise N White, Konstantin Kuznedelov, Luyi Cheng, Angela M Yu, Rivaan Kakkaramadam, Konstantin V Severinov, Alan A Chen, Julius B Lucks
The effect of pseudoknot base pairing on cotranscriptional structural switching of the fluoride riboswitch. Nucleic acids research (2024)
Laura M Hertz, Elise N White, Konstantin Kuznedelov, Luyi Cheng, Angela M Yu, Rivaan Kakkaramadam, Konstantin V Severinov, Alan A Chen, Julius B Lucks
The effect of pseudoknot base pairing on cotranscriptional structural switching of the fluoride riboswitch. Nucleic acids research (2024)
Laura M Hertz, Elise N White, Konstantin Kuznedelov, Luyi Cheng, Angela M Yu, Rivaan Kakkaramadam, Konstantin V Severinov, Alan A Chen, Julius B Lucks
The Effect of Pseudoknot Base Pairing on Cotranscriptional Structural Switching of the Fluoride Riboswitch. bioRxiv : the preprint server for biology (2023)
Samadrita Biswas, Simi Kaur, Christopher A Myers, Alan A Chen, John T Welch
Aggregation in Aqueous Solutions of 2-(Tetrafluoro(trifluoromethyl)-λ 6 -sulfanyl-ethan-1-ol (CF 3 SF 4 -ethanol)): A Comparison with Aqueous Trifluoroethanol and Hexafluoroisopropanol Using Molecular Dynamics Simulations and Dynamic Light Scattering Experiments. ACS omega 8 (33) (2023)
Jibin Abraham Punnoose, Kevin J Thomas, Arun Richard Chandrasekaran, Javier Vilcapoma, Andrew Hayden, Kacey Kilpatrick, Sweta Vangaveti, Alan A Chen, Thomas Banco, Ken Halvorsen
High-throughput single-molecule quantification of individual base stacking energies in nucleic acids. Nature communications 14 (1) (2023)
Laura M Hertz, Elise N White, Konstantin Kuznedelov, Luyi Cheng, Angela M Yu, Rivaan Kakkaramadam, Konstantin V Severinov, Alan A Chen, Julius B Lucks
The Effect of Pseudoknot Base Pairing on Cotranscriptional Structural Switching of the Fluoride Riboswitch. bioRxiv : the preprint server for biology (2023)
Jibin Abraham Punnoose, Kevin J Thomas, Arun Richard Chandrasekaran, Javier Vilcapoma, Andrew Hayden, Kacey Kilpatrick, Sweta Vangaveti, Alan A Chen, Thomas Banco, Ken Halvorsen
High-throughput single-molecule quantification of individual base stacking energies in nucleic acids. Nature communications 14 (1) (2023)
Jibin Abraham Punnoose, Kevin J Thomas, Arun Richard Chandrasekaran, Javier Vilcapoma, Andrew Hayden, Kacey Kilpatrick, Sweta Vangaveti, Alan A Chen, Thomas Banco, Ken Halvorsen
High-throughput single-molecule quantification of individual base stacking energies in nucleic acids. Nature communications 14 (1) (2023)
Laura M Hertz, Elise N White, Konstantin Kuznedelov, Luyi Cheng, Angela M Yu, Rivaan Kakkaramadam, Konstantin V Severinov, Alan A Chen, Julius B Lucks
The Effect of Pseudoknot Base Pairing on Cotranscriptional Structural Switching of the Fluoride Riboswitch. bioRxiv : the preprint server for biology (2023)
Rafael Giordano Viegas, Murilo Nogueira Sanches, Alan A Chen, Fernando V Paulovich, Angel E Garcia, Ingrid B S Martins
Characterizing the Folding Transition-State Ensembles in the Energy Landscape of an RNA Tetraloop. Journal of chemical information and modeling (2023)
Jibin Abraham Punnoose, Kevin J Thomas, Arun Richard Chandrasekaran, Javier Vilcapoma, Andrew Hayden, Kacey Kilpatrick, Sweta Vangaveti, Alan A Chen, Thomas Banco, Ken Halvorsen
High-throughput single-molecule quantification of individual base stacking energies in nucleic acids. Nature communications 14 (1) (2023)
Jibin Abraham Punnoose, Kevin J Thomas, Arun Richard Chandrasekaran, Javier Vilcapoma, Andrew Hayden, Kacey Kilpatrick, Sweta Vangaveti, Alan A Chen, Thomas Banco, Ken Halvorsen
High-throughput single-molecule quantification of individual base stacking energies in nucleic acids. Nature communications 14 (1) (2023)
Laura M Hertz, Elise N White, Konstantin Kuznedelov, Luyi Cheng, Angela M Yu, Rivaan Kakkaramadam, Konstantin V Severinov, Alan A Chen, Julius B Lucks
The Effect of Pseudoknot Base Pairing on Cotranscriptional Structural Switching of the Fluoride Riboswitch. bioRxiv : the preprint server for biology (2023)
Jibin Abraham Punnoose, Kevin J Thomas, Arun Richard Chandrasekaran, Javier Vilcapoma, Andrew Hayden, Kacey Kilpatrick, Sweta Vangaveti, Alan A Chen, Thomas Banco, Ken Halvorsen
High-throughput single-molecule quantification of individual base stacking energies in nucleic acids. Nature communications 14 (1) (2023)
Laura M Hertz, Elise N White, Konstantin Kuznedelov, Luyi Cheng, Angela M Yu, Rivaan Kakkaramadam, Konstantin V Severinov, Alan A Chen, Julius B Lucks
The Effect of Pseudoknot Base Pairing on Cotranscriptional Structural Switching of the Fluoride Riboswitch. bioRxiv : the preprint server for biology (2023)
Johnsi Mathivanan, Zhixue Bai, Alan A Chen, Jia Sheng
Design, Synthesis, and Characterization of a Novel 2'-5'-Linked Amikacin-Binding Aptamer: An Experimental and MD Simulation Study. ACS chemical biology (2022)
Hiba Faheem, Johnsi Mathivanan, Hannah Talbot, Hana Zeghal, Sweta Vangaveti, Jia Sheng, Alan A Chen, Arun Richard Chandrasekaran
Toehold clipping: A mechanism for remote control of DNA strand displacement. Nucleic acids research (2022)
Rebecca J D'Esposito, Christopher A Myers, Alan A Chen, Sweta Vangaveti
Challenges with Simulating Modified RNA: Insights into Role and Reciprocity of Experimental and Computational Approaches. Genes 13 (3) (2022)
Vibhav Valsangkar, Sweta Vangaveti, Goh Woon Lee, Walid M Fahssi, Waqas S Awan, Yicheng Huang, Alan A Chen, Jia Sheng
Structural and Binding Effects of Chemical Modifications on Thrombin Binding Aptamer (TBA). Molecules (Basel, Switzerland) 26 (15) (2021)
Lorenzo Baronti, Ileana Guzzetti, Parisa Ebrahimi, Sarah Friebe Sandoz, Emilie Steiner, Judith Schlagnitweit, Bastian Fromm, Luis Silva, Carolina Fontana, Alan A Chen, Katja Petzold
Base-pair conformational switch modulates miR-34a targeting of Sirt1 mRNA. Nature 583 (7814) (2020)
Christopher A Myers, Rebecca J D'Esposito, Daniele Fabris, Srivathsan V Ranganathan, Alan A Chen
CoSIMS: An Optimized Trajectory-Based Collision Simulator for Ion Mobility Spectrometry. The journal of physical chemistry. B 123 (20) (2019)
Leah M Seebald, Christopher M DeMott, Srivathsan Ranganathan, Papa Nii Asare Okai, Anastasia Glazunova, Alan A Chen, Alexander Shekhtman, Maksim Royzen
Cu(II)-Based Paramagnetic Probe to Study RNA-Protein Interactions by NMR. Inorganic chemistry 56 (7) (2017)
Phensinee Haruehanroengra, Sweta Vangaveti, Srivathsan V Ranganathan, Rui Wang, Alan A Chen, Jia Sheng
Nature's Selection of Geranyl Group as a tRNA Modification: The Effects of Chain Length on Base-Pairing Specificity. ACS chemical biology 12 (6) (2017)
Sweta Vangaveti, Srivathsan V Ranganathan, Alan A Chen
Advances in RNA molecular dynamics: a simulator's guide to RNA force fields. Wiley interdisciplinary reviews. RNA 8 (2) (2016)

Alan A Chen.css-eqlu8i{font-size:small;padding-left:4px;} (Alan Chen)

Publication Activity (10 Years)

Top Topics

Top Venues

Alan A Chen (Alan Chen)