Evidence map›Paper›PMID 38914436›Full record

ArticleGenome research2024

Delineating yeast cleavage and polyadenylation signals using deep learning.

Emily Kunce Stroup, Zhe Ji

Abstract read
In one paragraph

Article in Genome research, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing 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

4 citing papers in PubMed.

  1. Review
  2. Review
  3. Review
  4. Review
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

2 authors.

Emily Kunce StroupDepartment of Pharmacology, Feinberg School of Medicine, Northwestern University, Chicago, Illinois 60611, USA.
Zhe JiDepartment of Pharmacology, Feinberg School of Medicine, Northwestern University, Chicago, Illinois 60611, USA; zhe.ji@northwestern.edu.ORCID 0000-0002-1809-8099

Funding

Characterizing functional translation in putative 'noncoding' regions of a genome: Admin SupplR35GM138192 · NIGMS · NORTHWESTERN UNIVERSITY AT CHICAGO · PI JI, ZHE · 2020 to 2024
$2.1M
An ultra-low-input RNase footprinting assay to quantify cytosolic and mitochondrial translation simultaneouslyR01HL161389 · NHLBI · NORTHWESTERN UNIVERSITY AT CHICAGO · PI JI, ZHE · 2022 to 2025
$1.9M
Predoctoral Training Program in Biomedical Data Driven Discovery (BD3)T32LM012203 · NLM · NORTHWESTERN UNIVERSITY AT CHICAGO · PI KLABJAN, DIEGO, STARREN, JUSTIN B. · 2015 to 2019
$1.1M
NHLBI NIH HHS R01 HL161389NIGMS NIH HHS R35 GM138192NLM NIH HHS T32 LM012203
6 · The paper itself

Abstract

3'-end cleavage and polyadenylation is an essential process for eukaryotic mRNA maturation. In yeast species, the polyadenylation signals that recruit the processing machinery are degenerate and remain poorly characterized compared with the well-defined regulatory elements in mammals. Here we address this issue by developing deep learning models to deconvolute degenerate

Indexed as

Deep LearningPolyadenylationSaccharomyces cerevisiaeSchizosaccharomycesPoly ARNA, MessengerPoly ARNA, Messenger

Identifiers

PMID38914436
PMCPMC11368178

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC
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.