Evidence map›Paper›PMID 34607457›Full record

ArticlemBio2021

Charting Shifts in Saccharomyces cerevisiae Gene Expression across Asynchronous Time Trajectories with Diffusion Maps.

Taylor Reiter, Rachel Montpetit, Ron Runnebaum, C Titus Brown, Ben Montpetit

Open access · goldAbstract readEvaluation Study
PubMed Full text at PMC Publisher
In one paragraph

Article in mBio, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
0.5field-weighted citation impact, top 31% of its field
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

1 citing paper in PubMed, 3 citations in OpenAlex.

  1. 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

5 authors at 1 institution in 1 country.

Taylor ReiterFood Science Graduate Group, University of California-Davis, Davis, California, USA.ORCID 0000-0002-7388-421X
Rachel MontpetitDepartment of Viticulture and Enology, University of California-Davis, Davis, California, USA.
Ron RunnebaumDepartment of Viticulture and Enology, University of California-Davis, Davis, California, USA.ORCID 0000-0001-5872-8596
C Titus BrownDepartment of Population Health and Reproduction, University of California-Davis, Davis, California, USA.ORCID 0000-0001-6001-2677
Ben MontpetitFood Science Graduate Group, University of California-Davis, Davis, California, USA.ORCID 0000-0002-8317-983X
University of California, Davis · US

Funding

Function and Regulation of a DEAD-box protein in mRNA ExportR01GM124120 · NIGMS · UNIVERSITY OF CALIFORNIA AT DAVIS · PI MONTPETIT, BENJAMEN H.W. · 2017 to 2021
$2.0M
NIGMS NIH HHS R01 GM124120
6 · The paper itself

Abstract

During fermentation, Saccharomyces cerevisiae metabolizes sugars and other nutrients to obtain energy for growth and survival, while also modulating these activities in response to cell-environment interactions. Here, differences in S. cerevisiae gene expression were explored over a time course of fermentation and used to differentiate fermentations, using Pinot noir grapes from 15 unique sites. Data analysis was complicated by the fact that the fermentations proceeded at different rates, making a direct comparison of time series gene expression data difficult with conventional differential expression tools. This led to the development of a novel approach combining

Indexed as

Computational BiologyFermentationGene Expression Regulation, FungalHanseniasporaRNA-SeqSaccharomyces cerevisiaeSaccharomyces cerevisiae ProteinsVitisSaccharomyces cerevisiae Proteinsdiffusion mappingenvironmental microbiologyfermentationgene expressionHanseniaspora uvarumSaccharomyces cerevisiaetranscriptional regulation

Identifiers

PMID34607457
PMCPMC8546541
OpenAlexW3204942768

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.