Search Results - "Perry ZR"

Author Correction: Ligand-specific changes in conformational flexibility mediate long-range allostery in the lac repressor.

Authors: Glasgow A Hobbs HT Perry ZR et al.

Source: Nature communications [Nat Commun] 2023 Jul 14; Vol. 14 (1), pp. 4208. Date of Electronic Publication: 2023 Jul 14.

Publication Type: Published Erratum

Journal Info: Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE; PubMed not MEDLINE

RNAprecis: Prediction of full-detail RNA conformation from the experimentally best-observed sparse parameters.

Authors: Wiechers, Henrik Williams, Christopher J. Eltzner, Benjamin et al.

Source: PLoS Computational Biology. 5/8/2026, Vol. 22 Issue 5, p1-28. 28p.

Conserved structural features of the lncRNA HOTAIR in breast cancer cells.

Authors: Perry ZR Beeram A Lee L et al.

Source: BioRxiv : the preprint server for biology [bioRxiv] 2026 May 20. Date of Electronic Publication: 2026 May 20.

Publication Type: Journal Article; Preprint

Journal Info: Country of Publication: United States NLM ID: 101680187 Publication Model: Electronic Cited Medium: Internet ISSN: 2692-8205 (Electronic) Linking ISSN: 26928205 NLM ISO Abbreviation: bioRxiv Subsets: PubMed not MEDLINE

DynaRNA: accurate dynamic RNA conformation ensemble generation with diffusion model.

Authors: Li, Zhengxin Zhu, Junjie Hong, Xiaokun et al.

Source: Communications Biology. 10/15/2025, Vol. 8 Issue 1, p1-9. 9p.

Computational modeling of a Novel CTX-M β-lactamase Escherichia coli isolated from Yogyakarta, Indonesia Using ITASSER and SWISS-MODEL.

Authors: Kinasih, Anggiresti Retnaningrum, Endah

Source: Indonesian Journal of Medical Laboratory Science & Technology. Apr2026, Vol. 8 Issue 1, p51-66. 16p.

Disrupting quorum sensing by exploring conformational dynamics and active site flexibility of LasR protein in Pseudomonas aeruginosa.

Authors: Manu, Prince Abakah, Arnold Anfu, Paa Kwesi et al.

Source: Discover Chemistry. Dec2025, Vol. 2 Issue 1, p1-24. 24p.

FURNA: A database for functional annotations of RNA structures.

Authors: Zhang, Chengxin Freddolino, Lydia

Source: PLoS Biology. 7/29/2024, Vol. 22 Issue 7, p1-16. 16p.

Arena: Rapid and Accurate Reconstruction of Full Atomic RNA Structures From Coarse-grained Models.

Authors: Perry ZR Pyle AM Zhang C

Source: Journal of molecular biology [J Mol Biol] 2023 Sep 15; Vol. 435 (18), pp. 168210. Date of Electronic Publication: 2023 Jul 20.

Publication Type: Journal Article; Research Support, U.S. Gov't, Non-P.H.S.; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Elsevier Country of Publication: Netherlands NLM ID: 2985088R Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1089-8638 (Electronic) Linking ISSN: 00222836 NLM ISO Abbreviation: J Mol Biol Subsets: MEDLINE

Taking values seriously.

Authors: Bykvist, Krister^1,2, krister.bykvist@philosophy.su.se

Source: Synthese; Dec2021, Vol. 199 Issue 3/4, p6331-6356, 26p

HDX-MS reveals pH and temperature-responsive regions on AAV capsids and the structural basis for DNA release.

Authors: Ye X Hu M Hu Y et al.

Source: Gene therapy [Gene Ther] 2025 Dec; Vol. 32 (6), pp. 621-631. Date of Electronic Publication: 2025 May 09.

Publication Type: Journal Article

Journal Info: Publisher: Nature Publishing Group Country of Publication: England NLM ID: 9421525 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1476-5462 (Electronic) Linking ISSN: 09697128 NLM ISO Abbreviation: Gene Ther Subsets: MEDLINE

A proposal for a minimalist ontology.

Authors: Esfeld, Michael¹, Michael-Andreas.Esfeld@unil.ch

Source: Synthese; May2020, Vol. 197 Issue 5, p1889-1905, 17p

Explaining identity and distinctness.

Authors: Shumener, Erica¹, Ehs20@pitt.edu

Source: Philosophical Studies; Jul2020, Vol. 177 Issue 7, p2073-2096, 24p

Global latitudinal gradients and the evolution of body size in dinosaurs and mammals.

Authors: Wilson LN Gardner JD Wilson JP et al.

Source: Nature communications [Nat Commun] 2024 Apr 05; Vol. 15 (1), pp. 2864. Date of Electronic Publication: 2024 Apr 05.

Publication Type: Journal Article

Journal Info: Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE

Ligand-specific changes in conformational flexibility mediate long-range allostery in the lac repressor.

Authors: Glasgow A Hobbs HT Perry ZR et al.

Source: Nature communications [Nat Commun] 2023 Mar 02; Vol. 14 (1), pp. 1179. Date of Electronic Publication: 2023 Mar 02.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't; Research Support, N.I.H., Extramural; Research Support, U.S. Gov't, Non-P.H.S.

Journal Info: Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE

RSCanner: rapid assessment and visualization of RNA structure content.

Authors: Mahadeshwar G Tavares RCA Wan H et al.

Source: Bioinformatics (Oxford, England) [Bioinformatics] 2023 Mar 01; Vol. 39 (3).

Publication Type: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Oxford University Press Country of Publication: England NLM ID: 9808944 Publication Model: Print Cited Medium: Internet ISSN: 1367-4811 (Electronic) Linking ISSN: 13674803 NLM ISO Abbreviation: Bioinformatics Subsets: MEDLINE

HXMS: a standardized file format for HX-MS data.

Authors: Weber KC Lu C Alvarez RV et al.

Source: Bioinformatics (Oxford, England) [Bioinformatics] 2026 Apr 07; Vol. 42 (4).

Publication Type: Journal Article

Journal Info: Publisher: Oxford University Press Country of Publication: England NLM ID: 9808944 Publication Model: Print Cited Medium: Internet ISSN: 1367-4811 (Electronic) Linking ISSN: 13674803 NLM ISO Abbreviation: Bioinformatics Subsets: MEDLINE

Graph neural network and diffusion model for modeling RNA interatomic interactions.

Authors: Justyna M Zirbel C Antczak M et al.

Source: Bioinformatics (Oxford, England) [Bioinformatics] 2025 Sep 01; Vol. 41 (9).

Publication Type: Journal Article

Journal Info: Publisher: Oxford University Press Country of Publication: England NLM ID: 9808944 Publication Model: Print Cited Medium: Internet ISSN: 1367-4811 (Electronic) Linking ISSN: 13674803 NLM ISO Abbreviation: Bioinformatics Subsets: MEDLINE

Automated detection and de novo structure modeling of nucleic acids from cryo-EM maps.

Authors: Li T Cao H He J et al.

Source: Nature communications [Nat Commun] 2024 Oct 30; Vol. 15 (1), pp. 9367. Date of Electronic Publication: 2024 Oct 30.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE

Native dynamics and allosteric responses in PTP1B probed by high-resolution HDX-MS.

Authors: Woods VA Abzalimov RR Keedy DA

Source: Protein science : a publication of the Protein Society [Protein Sci] 2024 Jun; Vol. 33 (6), pp. e5024.

Publication Type: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Cold Spring Harbor Laboratory Press Country of Publication: United States NLM ID: 9211750 Publication Model: Print Cited Medium: Internet ISSN: 1469-896X (Electronic) Linking ISSN: 09618368 NLM ISO Abbreviation: Protein Sci Subsets: MEDLINE