Evidence map›Paper›PMID 35169715›Full record

ArticleSTAR protocols2022

Long undecoded transcript isoform (LUTI) detection in meiotic budding yeast by direct RNA and transcript leader sequencing.

Amy Tresenrider, Minghao Chia, Folkert J van Werven, Elçin Ünal

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in STAR protocols, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Article
  2. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

4 authors.

Amy TresenriderDepartment of Molecular and Cell Biology, Barker Hall, University of California, Berkeley, Berkeley, CA 94720, USA.
Minghao ChiaGenome Institute of Singapore, 60 Biopolis Street, Genome, #02-01, Singapore 138672, Singapore.
Folkert J van WervenThe Francis Crick Institute, 1 Midland Road, NW1 1AT London, UK.
Elçin ÜnalDepartment of Molecular and Cell Biology, Barker Hall, University of California, Berkeley, Berkeley, CA 94720, USA.

Funding

ILLUMINATING CELLULAR AGING PATHWAYS THROUGH GAMETOGENESISDP2AG055946 · NIA · UNIVERSITY OF CALIFORNIA BERKELEY · PI UNAL, ELCIN · 2016 to 2016
$2.2M
Developmental Regulation of Gene Expression by Long Undecoded Transcript IsoformsR01GM140005 · NIGMS · UNIVERSITY OF CALIFORNIA BERKELEY · PI UNAL, ELCIN · 2021 to 2024
$1.3M
NIA NIH HHS DP2 AG055946NIGMS NIH HHS R01 GM140005Wellcome Trust FC001203
6 · The paper itself

Abstract

LUTIs (Long Undecoded Transcript Isoforms) are 5'-extended and poorly translated mRNAs that can downregulate transcription from promoters more proximal to a gene's coding sequence (CDS). In this protocol, polyA RNA is extracted from budding yeast cells undergoing highly synchronized meiosis. Using a combination of long-read direct RNA sequencing and transcript leader sequencing (TL-seq), meiosis-specific LUTIs are systematically identified. Following identification, TL-seq is used to quantify the abundance of both LUTI and the more canonical gene-proximal (PROX) transcripts. For complete details on the use and execution of this protocol, please refer to Tresenrider et al. (2021).

Indexed as

SaccharomycetalesProtein IsoformsRNARNA, MessengerSequence Analysis, RNAProtein IsoformsRNARNA, MessengerBioinformaticsGeneticsGenomicsModel OrganismsMolecular BiologySequence analysisSequencing

Identifiers

PMID35169715
PMCPMC8829799

What OpenQuestion holds

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Registered trials

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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.