Evidence map›Paper›PMID 26484165›Full record

ArticleGenomics data2015

Stimulation of the Drosophila immune system alters genome-wide nucleosome occupancy.

Yingxue Ren, Daniel L Vera, Kimberly A Hughes, Jonathan H Dennis

Abstract read
In one paragraph

Article in Genomics data, 2015. 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
–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

1 citing paper in PubMed.

  1. Review
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.

Yingxue RenDepartment of Biological Science, Florida State University, Tallahassee, FL 32306, USA.
Daniel L VeraDepartment of Biological Science, Florida State University, Tallahassee, FL 32306, USA.
Kimberly A HughesDepartment of Biological Science, Florida State University, Tallahassee, FL 32306, USA.
Jonathan H DennisDepartment of Biological Science, Florida State University, Tallahassee, FL 32306, USA.

Funding

Chromatin structural changes linking drugs of abuse with HIV reactivationR01DA033775 · NIDA · FLORIDA STATE UNIVERSITY · PI DENNIS, JONATHAN H · 2012 to 2016
$1.8M
NIDA NIH HHS R01 DA033775
6 · The paper itself

Abstract

In eukaryotes, nucleosomes participate in all DNA-templated events by regulating access to the underlying DNA sequence. However, nucleosome dynamics during a genome response have not been well characterized [1,2]. We stimulated Drosophila S2 cells with heat-killed Gram-negative bacteria Salmonella typhimurium, and mapped genome-wide nucleosome occupancy at high temporal resolution by MNase-seq using Illumina HiSeq 2500. We show widespread nucleosome occupancy change in S2 cells during the immune response, with the significant nucleosomal loss occurring at 4 h after stimulation. Data have been deposited to the Gene Expression Omnibus (GEO) database repository with the dataset identifier GSE64507.

Indexed as

DrosophilaIllumina Hi-SeqMNaseNucleosomeSalmonella

Identifiers

PMID26484165
PMCPMC4535615

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-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.