Evidence map›Paper›PMID 35635707›Full record

ArticleMethods in molecular biology (Clifton, N.J.)2022

Studying the Dynamics of Chromatin-Binding Proteins in Mammalian Cells Using Single-Molecule Localization Microscopy.

Maike Steindel, Igor Orsine de Almeida, Stanley Strawbridge, Valentyna Chernova, David Holcman, Aleks Ponjavic, Srinjan Basu

Abstract read
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In one paragraph

Article in Methods in molecular biology (Clifton, N.J.), 2022. 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
1.5field-weighted citation impact, top 17% 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, 2 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

7 authors at 4 institutions in 2 countries.

Maike SteindelWellcome-MRC Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK.
Igor Orsine de AlmeidaWellcome-MRC Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK.
Stanley StrawbridgeWellcome-MRC Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK.
Valentyna ChernovaWellcome-MRC Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK.
David HolcmanGroup of Computational Biology and Applied Mathematics, Institute of Biology, Ecole Normale Supérieure, Paris, France.
Aleks PonjavicSchool of Physics and Astronomy and School of Food Science and Nutrition, University of Leeds, Leeds, UK. A.Ponjavic@leeds.ac.uk.
Srinjan BasuWellcome-MRC Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK. sb451@cam.ac.uk.
Wellcome/MRC Cambridge Stem Cell Institute · GBUniversity of Cambridge · GBInstitut de Biologie de l'École Normale Supérieure · FRUniversity of Leeds · GB

Funding

Medical Research Council MC_PC_17230Wellcome Trust
6 · The paper itself

Abstract

Single-molecule localization microscopy (SMLM) allows the super-resolved imaging of proteins within mammalian nuclei at spatial resolutions comparable to that of a nucleosome itself (~20 nm). The technique is therefore well suited to the study of chromatin structure. Fixed-cell SMLM has already allowed temporal "snapshots" of how proteins are arranged on chromatin within mammalian nuclei. In this chapter, we focus on how recent developments, for example in selective plane illumination, 3D SMLM, and protein labeling, have led to a range of live-cell SMLM studies. We describe how to carry out single-particle tracking (SPT) of single proteins and, by analyzing their diffusion parameters, how to determine whether proteins interact with chromatin, diffuse freely, or do both. We can study the numbers of proteins that interact with chromatin and also determine their residence time on chromatin. We can determine whether these proteins form functional clusters within the nucleus as well as whether they form specific nuclear structures.

Indexed as

Carrier ProteinsChromatinAnimalsChromosomesMammalsMicroscopySingle Molecule ImagingCarrier ProteinsChromatinAnomalous exponentChromatinDiffusion coefficientFluorescence imagingJump distanceMean squared displacementPALMResidence timeSPIMSPTSTORMSuper-resolution microscopy

Identifiers

PMID35635707
OpenAlexW4285253060

What OpenQuestion holds

Textmetadata
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.