Evidence map›Paper›PMID 38585907›Full record

ArticlebioRxiv : the preprint server for biology2024

Deep learning to decode sites of RNA translation in normal and cancerous tissues.

Jim Clauwaert, Zahra McVey, Ramneek Gupta, Ian Yannuzzi, Gerben Menschaert, John R Prensner

Open access · greenAbstract 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, 2 citations in OpenAlex.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

6 authors at 3 institutions in 5 countries.

Jim ClauwaertDivision of Pediatric Hematology/Oncology, Department of Pediatrics, University of Michigan, Ann Arbor, MI, USA.ORCID 0000-0002-5876-1406
Zahra McVeyNovo Nordisk Research Centre Oxford, Novo Nordisk Ltd., Oxford, United Kingdom.ORCID 0000-0002-9936-1564
Ramneek GuptaNovo Nordisk Research Centre Oxford, Novo Nordisk Ltd., Oxford, United Kingdom.ORCID 0000-0001-6841-6676
Ian YannuzziCancer Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA.
Gerben MenschaertDepartment of Data Analysis and Mathematical Modelling, Ghent University, Belgium.ORCID 0000-0002-7575-2085
John R PrensnerDivision of Pediatric Hematology/Oncology, Department of Pediatrics, University of Michigan, Ann Arbor, MI, USA.ORCID 0000-0002-7024-636X
Gaertner (United States) · USNovo Nordisk (Finland) · FIBroad Institute · US

Funding

Deciphering non-canonical translation in high risk medulloblastomaK08CA263552 · NCI · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI John Prensner · 2022 to 2026
$1.2M
NCI NIH HHS K08 CA263552
6 · The paper itself

Abstract

The biological process of RNA translation is fundamental to cellular life and has wide-ranging implications for human disease. Yet, accurately delineating the variation in RNA translation represents a significant challenge. Here, we develop RiboTIE, a transformer model-based approach to map global RNA translation. We find that RiboTIE offers unparalleled precision and sensitivity for ribosome profiling data. Application of RiboTIE to normal brain and medulloblastoma cancer samples enables high-resolution insights into disease regulation of RNA translation.

Indexed as

cancermedulloblastomanon-canonical open reading framesRibo-seqRNA translation

Identifiers

PMID38585907
PMCPMC10996544
OpenAlexW4393196386

What OpenQuestion holds

Textmetadata
LicenceCC BY-ND
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.