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RNA structure

Conserved domains and structural motifs that differentiate closely related Rex1 and Rex3 DEDDh exoribonucleases are required for their function in yeast

Peter W. Daniels, Sophie Kelly, Iwan J. Tebbs, Phil Mitchell

published 02 Jun 2025

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RNA degradation patterns in cardiac tissues kept at different time intervals and temperatures before RNA sequencing

Stine Bøttcher Jacobsen, Jacob Tfelt-Hansen, Morten Holdgaard Smerup, Niels Morling, Jeppe Dyrberg Andersen

published 15 May 2025

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Distinct modes of interaction within eIF4F-like complexes and susceptibility to the RocA inhibitor for the Trypanosoma brucei EIF4AI translation initiation factor

Danielle M. N. Moura, Amanda L. Soares, Adalúcia da Silva, João L. A. B. Ribeiro, Jack D. Sunter, Ludmila A. Assis, Mark Carrington, Osvaldo P. de Melo Neto

published 09 May 2025

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Inhibition of xpt Guanine Riboswitch by a synthetic nucleoside analog

Swapan S. Jain, Emily C. McLaughlin, Gabriel G. Perron, Mallikarjunachari Uppuladinne, Seoyoung Kim, Katherina Gindinova, Silvie H. Lundgren, Liad Elmelech, Uddhavesh Sonavane, Rajendra Joshi, Korrapati Narasimhulu

published 05 May 2025

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A divide-and-conquer approach based on deep learning for long RNA secondary structure prediction: Focus on pseudoknots identification

Loïc Omnes, Eric Angel, Pierre Bartet, François Radvanyi, Fariza Tahi

published 25 Apr 2025

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Identification of potential riboswitch elements in Homo sapiens mRNA 5’UTR sequences using positive-unlabeled machine learning

William S Raymond, Jacob DeRoo, Brian Munsky

published 24 Apr 2025

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Assessing interface accuracy in macromolecular complexes

Olgierd Ludwiczak, Maciej Antczak, Marta Szachniuk

published 02 Apr 2025

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Computational analysis of the effect of a binding protein (RbpA) on the dynamics of Mycobacterium tuberculosis RNA polymerase assembly

Sneha Bheemireddy, Ramanathan Sowdhamini, Narayanaswamy Srinivasan

published 30 Jan 2025

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Aligned membranes regulate wound healing via MMP12 secreted by macrophages

Hongli Ma, Limin Gong, Xi Yang, Hui Fang, Jiacai He, Chenbing Wang

published 15 Jan 2025

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Next-generation sequencing protocol of hematopoietic stem cells (HSCs). Step-by-step overview and troubleshooting guide

Justyna Jarczak, Kamila Bujko, Katarzyna Brzeźniakiewicz-Janus, Mariusz Ratajczak, Magdalena Kucia

published 09 Jan 2025

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A physically inspired approach to coarse-graining transcriptomes reveals the dynamics of aging

Tao Li, Madhav Mani

published 29 Oct 2024

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Engineered red Opto-mGluR6 Opsins, a red-shifted optogenetic excitation tool, an in vitro study

Hoda Shamsnajafabadi, Zahra-Soheila Soheili, Mehdi Sadeghi, Shahram Samiee, Pouria Ghasemi, Mohammad Ismail Zibaii, Hamid Gholami Pourbadie, Hamid Ahmadieh, Ehsan Ranaei Pirmardan, Najmeh Salehi, Dorsa Samiee, Ali Kashanian

published 24 Oct 2024

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GenerRNA: A generative pre-trained language model for de novo RNA design

Yichong Zhao, Kenta Oono, Hiroki Takizawa, Masaaki Kotera

published 01 Oct 2024

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