Jason Hingey

De novo design of RNA pseudoknots with deep learning

Jill Townley, Wipapat Kladwang, David Baker, Hamish M. Blair et autres

RNA design has been hindered by the limited accuracy of 3D structure prediction. Here, we show that intricate RNA structures can be generated with current deep learning tools through accurate de novo design of pseudoknot secondary structures. In an Eterna competition involving …

us, gb (code pays fourni par la source)

OpenKnotAI: code for RNA library design, SHAPE data processing, OpenKnot scoring, and RNA design methods

Jill Townley, Wipapat Kladwang, David A. Baker, H. Blair et autres

Code accompanying the OpenKnotAI study, “De novo design of RNA pseudoknots with deep learning” (preprint: https://doi.org/10.64898/2026.05.21.726960). This deposit bundles source-only snapshots (Git history removed) of the software used for RNA library design, SHAPE chemical-mapping data processing, OpenKnot scoring, and the RNA sequence/structure …

us, gb (code pays fourni par la source)

OpenKnotAI: code for RNA library design, SHAPE data processing, OpenKnot scoring, and RNA design methods

Jill Townley, Wipapat Kladwang, David A. Baker, H. Blair et autres

Code accompanying the OpenKnotAI study, “De novo design of RNA pseudoknots with deep learning” (preprint: https://doi.org/10.64898/2026.05.21.726960). This deposit bundles source-only snapshots (Git history removed) of the software used for RNA library design, SHAPE chemical-mapping data processing, OpenKnot scoring, and the RNA sequence/structure …

us, gb (code pays fourni par la source)

Structural evidence for metal ion catalysis in the ribosome

Jason Hingey, Boris Rudolfs, Daniel B. Haack, Frank V. Murphy et autres

Abstract Ribosomes synthesize proteins with an RNA-only active site across all domains of life, yet the details of the catalytic mechanism have remained elusive despite decades of high-resolution ribosome structures. Here, we provide structural evidence for the involvement of two metal ions …

us (code pays fourni par la source)

Cryo-EM Structures of a Group II Intron Reverse Splicing into DNA

Daniel B. Haack, Xiaodong Yan, Cheng Zhang, Jason Hingey et autres

us (code pays fourni par la source)

Structure of a group II intron retroelement prior to DNA integration

Daniel B. Haack, Yan Xu, Cheng Zhang, Jason Hingey et autres