Toehold clipping: A mechanism for remote control of DNA strand displacement
Faheem, Hiba, Mathivanan, Johnsi, Talbot, Hannah, Zeghal, Hana, Vangaveti, Sweta, Sheng, Jia, Chen, Alan A, Chandrasekaran, Arun Richard
Published in Nucleic acids research (08.05.2023)
Published in Nucleic acids research (08.05.2023)
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Journal Article
Base-pair conformational switch modulates miR-34a targeting of Sirt1 mRNA
Baronti, Lorenzo, Guzzetti, Ileana, Ebrahimi, Parisa, Friebe Sandoz, Sarah, Steiner, Emilie, Schlagnitweit, Judith, Fromm, Bastian, Silva, Luis, Fontana, Carolina, Chen, Alan A, Petzold, Katja
Published in Nature (London) (02.07.2020)
Published in Nature (London) (02.07.2020)
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Journal Article
Characterizing the Folding Transition-State Ensembles in the Energy Landscape of an RNA Tetraloop
Viegas, Rafael G., Sanches, Murilo N., Chen, Alan A., Paulovich, Fernando V., Garcia, Angel E., Leite, Vitor B. P.
Published in Journal of chemical information and modeling (11.09.2023)
Published in Journal of chemical information and modeling (11.09.2023)
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Journal Article
Structural and Binding Effects of Chemical Modifications on Thrombin Binding Aptamer (TBA)
Valsangkar, Vibhav, Vangaveti, Sweta, Lee, Goh Woon, Fahssi, Walid M, Awan, Waqas S, Huang, Yicheng, Chen, Alan A, Sheng, Jia
Published in Molecules (Basel, Switzerland) (30.07.2021)
Published in Molecules (Basel, Switzerland) (30.07.2021)
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Journal Article
tRNA Modification Detection Using Graphene Nanopores: A Simulation Study
Onanuga, Khadijah, Begley, Thomas, Chen, Alan, Ranganathan, Srivathsan
Published in Biomolecules (Basel, Switzerland) (25.08.2017)
Published in Biomolecules (Basel, Switzerland) (25.08.2017)
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Journal Article
Computationally reconstructing cotranscriptional RNA folding from experimental data reveals rearrangement of non-native folding intermediates
Yu, Angela M, Gasper, Paul M., Cheng, Luyi, Lai, Lien B., Kaur, Simi, Gopalan, Venkat, Chen, Alan A., Lucks, Julius B.
Published in Molecular cell (18.02.2021)
Published in Molecular cell (18.02.2021)
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Journal Article
Free-energy landscape of a hyperstable RNA tetraloop
Miner, Jacob C., Chen, Alan A., García, Angel E.
Published in Proceedings of the National Academy of Sciences - PNAS (14.06.2016)
Published in Proceedings of the National Academy of Sciences - PNAS (14.06.2016)
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Journal Article
Advances in RNA molecular dynamics: a simulator's guide to RNA force fields
Vangaveti, Sweta, Ranganathan, Srivathsan V, Chen, Alan A
Published in Wiley interdisciplinary reviews. RNA (01.03.2017)
Published in Wiley interdisciplinary reviews. RNA (01.03.2017)
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Journal Article
Complex Thermodynamic Behavior of Single-Stranded Nucleic Acid Adsorption to Graphene Surfaces
Ranganathan, Srivathsan V, Halvorsen, Ken, Myers, Chris A, Robertson, Neil M, Yigit, Mehmet V, Chen, Alan A
Published in Langmuir (21.06.2016)
Published in Langmuir (21.06.2016)
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Journal Article
Hybrid DNA/RNA nanostructures with 2′-5′ linkages
Chandrasekaran, Arun Richard, Mathivanan, Johnsi, Ebrahimi, Parisa, Vilcapoma, Javier, Chen, Alan A, Halvorsen, Ken, Sheng, Jia
Published in Nanoscale (05.11.2020)
Published in Nanoscale (05.11.2020)
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Journal Article
Using in-cell SHAPE-Seq and simulations to probe structure-function design principles of RNA transcriptional regulators
Takahashi, Melissa K, Watters, Kyle E, Gasper, Paul M, Abbott, Timothy R, Carlson, Paul D, Chen, Alan A, Lucks, Julius B
Published in RNA (Cambridge) (01.06.2016)
Published in RNA (Cambridge) (01.06.2016)
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