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Computer-Aided Design of Active Pseudoknotted Hammerhead Ribozymes

Methods in molecular biology (Clifton, N.J.), 2021, Vol.2167, p.91

2021

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Cofactor Binding Triggers Rapid Conformational Remodelling of the Active Site of a Methyltransferase Ribozyme

The Journal of biological chemistry, 2024-10, p.107863, Article 107863

2024

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An allosteric ribozyme generator and an inverse folding ribozyme generator: Two computer programs for automated computational design of oligonucleotide-sensing allosteric hammerhead ribozymes with YES Boolean logic function based on experimentally validated algorithms

Computers in biology and medicine, 2022-06, Vol.145, p.105469-105469, Article 105469

2022

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GHOST-NOT and GHOST-YES: Two programs for generating high-speed biosensors with randomized oligonucleotide binding sites with NOT or YES Boolean logic functions based on experimentally validated algorithms

Journal of biotechnology, 2023-08, Vol.373, p.82-89

2023

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Toehold-mediated strand displacement to measure released product from self-cleaving ribozymes

RNA (Cambridge), 2022-02, Vol.28 (2), p.263-273

2022

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Computational design and experimental verification of pseudoknotted ribozymes

RNA (Cambridge), 2023-06, Vol.29 (6), p.764-776

2023

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Computational design of allosteric ribozymes as molecular biosensors

Biotechnology advances, 2014-09, Vol.32 (5), p.1015-1027

Penchovsky, Robert

2014

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Aminoglycoside antibiotics can inhibit or activate twister ribozyme cleavage

The FEBS journal, 2021-03, Vol.288 (5), p.1586-1598

2021

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Discovering riboswitches: the past and the future

Trends in biochemical sciences (Amsterdam. Regular ed.), 2023-02, Vol.48 (2), p.119-141

2023

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Optimal molecular crowding accelerates group II intron folding and maximizes catalysis

Proceedings of the National Academy of Sciences - PNAS, 2018-11, Vol.115 (47), p.11917-11922

2018

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Cryo-EM Structure of the Human Ribonuclease P Holoenzyme

Cell, 2018-11, Vol.175 (5), p.1393-1404.e11

2018

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Two RNA Folds from One Sequence: A Ribozyme with Versatile Substrate Processing Abilities

Angewandte Chemie International Edition, 2024-09, Vol.63 (37), p.e202409047-n/a

International ed. in English, 2024

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Natural languages and RNA virus evolution

The Journal of physiology, 2024-06, Vol.602 (11), p.2565-2580

2024

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Cryo-EM structure and functional landscape of an RNA polymerase ribozyme

Proceedings of the National Academy of Sciences - PNAS, 2024-01, Vol.121 (3), p.e2313332121

2024

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Chemistry and Biology of Self-Cleaving Ribozymes

Trends in biochemical sciences (Amsterdam. Regular ed.), 2015-11, Vol.40 (11), p.648-661

2015

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Origins and evolving functionalities of tRNA-derived small RNAs

Trends in biochemical sciences (Amsterdam. Regular ed.), 2021-10, Vol.46 (10), p.790-804

2021

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Current RNA-based Therapeutics in Clinical Trials

Current gene therapy, 2019-01, Vol.19 (3), p.172-196

2019

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Amplification of RNA by an RNA polymerase ribozyme

Proceedings of the National Academy of Sciences - PNAS, 2016-08, Vol.113 (35), p.9786-9791

2016

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Acquisition of Dual Ribozyme-Functions in Nonfunctional Short Hairpin RNAs through Kissing-Loop Interactions

Life (Basel, Switzerland), 2022-10, Vol.12 (10), p.1561

2022

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Frontispiece: Pushing the Limits of Nucleic Acid Function

Chemistry : a European journal, 2022-12, Vol.28 (71), p.n/a

Curtis, Edward A.

2022

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Molecular dynamics analysis of Mg2+‐dependent cleavage of a pistol ribozyme reveals a fail‐safe secondary ion for catalysis

Journal of computational chemistry, 2020-05, Vol.41 (14), p.1345-1352

2020

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Therapeutic applications of group I intron‐based trans‐splicing ribozymes

Wiley interdisciplinary reviews. RNA, 2018-05, Vol.9 (3), p.e1466-n/a

2018

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Catalysis by the nucleolytic ribozymes

Biochemical Society transactions, 2011-04, Vol.39 (2), p.641-646

Lilley, David M J

2011

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Boronic Acid Assisted Self‐Assembly of Functional RNAs

Chemistry : a European journal, 2023-06, Vol.29 (35), p.e202300196-n/a

2023

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Encapsulation of ribozymes inside model protocells leads to faster evolutionary adaptation

Proceedings of the National Academy of Sciences - PNAS, 2021-05, Vol.118 (21), p.1

2021

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Computer-Aided Design of Active Pseudoknotted Hammerhead Ribozymes

Cofactor Binding Triggers Rapid Conformational Remodelling of the Active Site of a Methyltransferase Ribozyme

An allosteric ribozyme generator and an inverse folding ribozyme generator: Two computer programs for automated computational design of oligonucleotide-sensing allosteric hammerhead ribozymes with YES Boolean logic function based on experimentally validated algorithms

GHOST-NOT and GHOST-YES: Two programs for generating high-speed biosensors with randomized oligonucleotide binding sites with NOT or YES Boolean logic functions based on experimentally validated algorithms

Toehold-mediated strand displacement to measure released product from self-cleaving ribozymes

Computational design and experimental verification of pseudoknotted ribozymes

Computational design of allosteric ribozymes as molecular biosensors

Aminoglycoside antibiotics can inhibit or activate twister ribozyme cleavage

Discovering riboswitches: the past and the future

Optimal molecular crowding accelerates group II intron folding and maximizes catalysis

Cryo-EM Structure of the Human Ribonuclease P Holoenzyme

Two RNA Folds from One Sequence: A Ribozyme with Versatile Substrate Processing Abilities

Natural languages and RNA virus evolution

Cryo-EM structure and functional landscape of an RNA polymerase ribozyme

Chemistry and Biology of Self-Cleaving Ribozymes

Origins and evolving functionalities of tRNA-derived small RNAs

Current RNA-based Therapeutics in Clinical Trials

Amplification of RNA by an RNA polymerase ribozyme

Acquisition of Dual Ribozyme-Functions in Nonfunctional Short Hairpin RNAs through Kissing-Loop Interactions

Frontispiece: Pushing the Limits of Nucleic Acid Function

Molecular dynamics analysis of Mg2+‐dependent cleavage of a pistol ribozyme reveals a fail‐safe secondary ion for catalysis

Therapeutic applications of group I intron‐based trans‐splicing ribozymes

Catalysis by the nucleolytic ribozymes

Boronic Acid Assisted Self‐Assembly of Functional RNAs

Encapsulation of ribozymes inside model protocells leads to faster evolutionary adaptation

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