Evidence map›Paper›PMID 34825219›Full record

ArticleSTAR protocols2021

Quantifying the global binding and target-search dynamics of epigenetic regulatory factors using live-cell single-molecule tracking.

Kyle Brown, Samantha Kent, Xiaojun Ren

Abstract read
In one paragraph

Article in STAR protocols, 2021. 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. Article
  2. Article
  3. Article
  4. 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

3 authors.

Kyle BrownUniversity of Colorado Denver Chemistry Department, 1150 12 St., Denver, CO 80204, USA.
Samantha KentUniversity of Colorado Denver Chemistry Department, 1150 12 St., Denver, CO 80204, USA.
Xiaojun RenUniversity of Colorado Denver Chemistry Department, 1150 12 St., Denver, CO 80204, USA.

Funding

Spatial Organization of Epigenetic Complexes and ChromatinR01GM135286 · NIGMS · UNIVERSITY OF COLORADO DENVER · PI PHIEL, CHRISTOPHER J · 2019 to 2022
$1.3M
NIGMS NIH HHS R01 GM135286
6 · The paper itself

Abstract

This protocol provides instructions to track the global dynamics of single epigenetic regulatory factors in live cells. We describe an approach to generate cell lines that stably express HaloTag-fused proteins. We then use live-cell single-molecule tracking to obtain kinetic populations and residence times. The kinetic parameters obtained can be used to determine important aspects of transcriptional regulation such as target-search time, 3D free diffusion time, and number of non-specific sites sampled before reaching a specific site and compare behaviors across different nuclear environments. For complete details on the use and execution of this protocol, please refer to Kent et al. (2020).

Indexed as

Epigenesis, GeneticGene Expression RegulationHEK293 CellsHumansKineticsProtein BindingSingle-Cell AnalysisSingle Molecule ImagingBiophysicsCell-based AssaysCell BiologyGene ExpressionMicroscopyMolecular/Chemical ProbesSingle-molecule Assays

Identifiers

PMID34825219
PMCPMC8605088

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.