Evidence map›Paper›PMID 29644260›Full record

ArticleBio-protocol2018

Biochemical Analysis of Dimethyl Suberimidate-crosslinked Yeast Nucleosomes.

Yuichi Ichiakwa, Paul D Kaufman

Open access · greenAbstract read
In one paragraph

Article in Bio-protocol, 2018. 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, top 98% 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

0 citing papers in PubMed, 1 citations in OpenAlex.

No citing paper in PubMed yet.

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

2 authors at 1 institution in 1 country.

Yuichi IchiakwaDepartment of Molecular, Cell, and Cancer Biology, University of Massachusetts Medical School, Worcester, MA, USA.
Paul D KaufmanDepartment of Molecular, Cell, and Cancer Biology, University of Massachusetts Medical School, Worcester, MA, USA.
University of Massachusetts Chan Medical School · US

Funding

Eukaryotic Nuclear Functions: from Nucleosomes to ChromosomesR35GM127035 · NIGMS · UNIV OF MASSACHUSETTS MED SCH WORCESTER · PI KAUFMAN, PAUL D. · 2018 to 2022
$1.8M
Breaking Nucleosomal SymmetryR01GM100164 · NIGMS · UNIV OF MASSACHUSETTS MED SCH WORCESTER · PI KAUFMAN, PAUL D., RANDO, OLIVER J · 2014 to 2017
$1.3M
NIGMS NIH HHS R01 GM100164NIGMS NIH HHS R35 GM127035
6 · The paper itself

Abstract

Nucleosomes are the fundamental unit of eukaryotic chromosome packaging, comprised of 147 bp of DNA wrapped around two molecules of each of the core histone proteins H2A, H2B, H3, and H4. Nucleosomes are symmetrical, with one axis of symmetry centered on the homodimeric interaction between the C-termini of the H3 molecules. To explore the functional consequences of nucleosome symmetry, we designed an obligate pair of H3 heterodimers, termed H3X and H3Y, allowing us to compare cells with single or double H3 alterations. Our biochemical validation of the heterodimeric X-Y interaction included intra-nucleosomal H3 crosslinking using dimethyl suberimidate (DMS). Here, we provide a detailed protocol for the use of DMS to analyze yeast nucleosomes.

Indexed as

ChromatinCrosslinkHistoneNucleosomeProtein-protein interactionStreptavidin affinity chromatography

Identifiers

PMID29644260
PMCPMC5891137
OpenAlexW2793407463

What OpenQuestion holds

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LicenceCC BY
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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.