Evidence map›Paper›PMID 38617247›Full record

ArticlebioRxiv : the preprint server for biology2024

RNA language models predict mutations that improve RNA function.

Yekaterina Shulgina, Marena I Trinidad, Conner J Langeberg, Hunter Nisonoff, Seyone Chithrananda, Petr Skopintsev, Amos J Nissley, Jaymin Patel, Ron S Boger, Honglue Shi and 6 more

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

16 authors.

Yekaterina ShulginaInnovative Genomics Institute, University of California, Berkeley, CA, USA.ORCID 0000-0001-7658-9294
Marena I TrinidadInnovative Genomics Institute, University of California, Berkeley, CA, USA.ORCID 0000-0001-7839-4642
Conner J LangebergInnovative Genomics Institute, University of California, Berkeley, CA, USA.ORCID 0000-0002-5609-3758
Hunter NisonoffCenter for Computational Biology, University of California, Berkeley, CA, United States.ORCID 0000-0003-1357-8111
Seyone ChithranandaInnovative Genomics Institute, University of California, Berkeley, CA, USA.ORCID 0000-0002-3671-9135
Petr SkopintsevInnovative Genomics Institute, University of California, Berkeley, CA, USA.ORCID 0000-0002-6043-157X
Amos J NissleyDepartment of Chemistry, University of California, Berkeley, CA, USA.ORCID 0000-0003-4829-5373
Jaymin PatelInnovative Genomics Institute, University of California, Berkeley, CA, USA.ORCID 0000-0002-4380-4805
Ron S BogerInnovative Genomics Institute, University of California, Berkeley, CA, USA.ORCID 0000-0002-4467-271X
Honglue ShiInnovative Genomics Institute, University of California, Berkeley, CA, USA.ORCID 0000-0003-3847-1652
Peter H YoonInnovative Genomics Institute, University of California, Berkeley, CA, USA.ORCID 0000-0002-9156-1393
Erin E DohertyInnovative Genomics Institute, University of California, Berkeley, CA, USA.ORCID 0000-0002-1555-4124
Tara PandeDepartment of Electrical Engineering and Computer Sciences, University of California, Berkeley, CA, USA.ORCID 0000-0001-9440-4492
Aditya M IyerDepartment of Physics, University of California, Berkeley, CA, USA.
Jennifer A DoudnaInnovative Genomics Institute, University of California, Berkeley, CA, USA.ORCID 0000-0001-9161-999X
Jamie H D CateInnovative Genomics Institute, University of California, Berkeley, CA, USA.ORCID 0000-0001-5965-7902

Funding

Targeting Viroporins and Coronavirus M ProteinU19AI171110 · NIAID · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Nevan J Krogan · 2022 to 2026
$103.4M
Project 3U54AI170792 · NIAID · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Nevan J Krogan · 2022 to 2026
$35.7M
RESEARCH PROJECT 2U19AI135990 · NIAID · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI ANDREJ SALI · 2018 to 2026
$21.4M
Resource Core II: In Vivo CoreU19NS132303 · NINDS · UNIVERSITY OF CALIFORNIA BERKELEY · PI NIREN MURTHY · 2023 to 2026
$19.7M
Expanding CRISPR-Cas editing technology through exploration of novel Cas proteins and DNA repair systemsU01AI142817 · NIAID · UNIVERSITY OF CALIFORNIA BERKELEY · PI BANFIELD, JILLIAN, DOUDNA, JENNIFER A · 2018 to 2022
$2.0M
Cas9 RNP delivery to immune cells in vivo via molecular targetingUH3AI150552 · NIAID · UNIVERSITY OF CALIFORNIA BERKELEY · PI DOUDNA, JENNIFER A, WILSON, ROSS C · 2022 to 2022
$1.3M
Precision Deaminases to Expand the Scope of Diseases Amenable to CRISPR-mediated CorrectionF32GM153031 · NIGMS · UNIVERSITY OF CALIFORNIA BERKELEY · PI Erin E Doherty · 2024 to 2026
$229k
NIAID NIH HHS U01 AI142817NIAID NIH HHS U19 AI135990NIAID NIH HHS U19 AI171110NIAID NIH HHS U54 AI170792NIAID NIH HHS UH3 AI150552NIGMS NIH HHS F32 GM153031NINDS NIH HHS U19 NS132303
6 · The paper itself

Abstract

Structured RNA lies at the heart of many central biological processes, from gene expression to catalysis. While advances in deep learning enable the prediction of accurate protein structural models, RNA structure prediction is not possible at present due to a lack of abundant high-quality reference data

Identifiers

PMID38617247
PMCPMC11014562

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.