Evidence map›Paper›PMID 32762150›Full record

ArticleCurrent protocols in cytometry2020

Optimized Stochastic Optical Reconstruction Microscopy for Imaging Chromatin Structure in Pathological Tissue.

Jianquan Xu, Hongqiang Ma, Yang Liu

Open access · greenAbstract read
In one paragraph

Article in Current protocols in cytometry, 2020. 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
0.7field-weighted citation impact, top 20% 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

4 citing papers in PubMed, 5 citations in OpenAlex.

  1. A Versatile Drift-Free Super-Resolution Imaging Method via Oblique Bright-Field Correlation.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025
    Article
  2. Article
  3. Choosing the Probe for Single-Molecule Fluorescence Microscopy.International journal of molecular sciences · 2022
    Review
  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 at 2 institutions in 1 country.

Jianquan XuBiomedical and Optical Imaging Laboratory, Departments of Medicine and Bioengineering, University of Pittsburgh, Pittsburgh, Pennsylvania.
Hongqiang MaBiomedical and Optical Imaging Laboratory, Departments of Medicine and Bioengineering, University of Pittsburgh, Pittsburgh, Pennsylvania.
Yang LiuBiomedical and Optical Imaging Laboratory, Departments of Medicine and Bioengineering, University of Pittsburgh, Pittsburgh, Pennsylvania.
Optica · USUniversity of Pittsburgh · US

Funding

(PQC2)Nanoscale changes in 3D nuclear architecture during breast tumorigenesisR01CA185363 · NCI · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI LIU, YANG · 2014 to 2017
$1.3M
High-throughput super-resolution imaging of chromatin structures at different epigenetic statesR33CA225494 · NCI · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI LIU, YANG · 2018 to 2020
$1.1M
NCI NIH HHS R01 CA185363NCI NIH HHS R33 CA225494
6 · The paper itself

Abstract

Direct visualization of higher-order chromatin structure at the molecular scale is of great importance for understanding the impact of chromatin organization on gene expression in many biological processes. Understanding the changes in chromatin structure during pathological processes requires the use of in vivo models and clinical samples, and formalin-fixed, paraffin-embedded (FFPE) tissue is the most widespread form of preservation. Here we describe the details of PathSTORM, an optimized stochastic optical reconstruction microscopy (STORM) protocol for high-quality super-resolution imaging of densely packed higher-order chromatin organization in pathological tissue. We discuss detailed methods for fluorescence staining of DNA and histone proteins, as well as the key technical factors for obtaining high-quality STORM images in pathological tissue samples. © 2020 Wiley Periodicals LLC Basic Protocol 1: Fluorescence staining of chromatin in pathological tissue Basic Protocol 2: STORM data processing Support Protocol 1: Drift correction Support Protocol 2: Image reconstruction Support Protocol 3: Hematoxylin & eosin (H&E) staining.

Indexed as

Imaging, Three-DimensionalOrgan SpecificityAnimalsAntigensChromatinComputer SimulationDNAFluorescent Antibody TechniqueIntestinesMiceMicroscopy, FluorescencePhotonsStaining and LabelingStochastic ProcessesAntigensChromatinDNAhigher-order chromatin structurepathological tissuestochastic optical reconstruction microscopy (STORM)super-resolution fluorescence microscopy

Identifiers

PMID32762150
PMCPMC8622137
OpenAlexW3047276203

What OpenQuestion holds

Textmetadata
LicenceTDM
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.