A step-by-step guide for isolating soluble and insoluble chromatin followed by next-generation sequencing library preparation.

Shan Hua, Miraz A Sadi, Brandon J Park, Patrick J Murphy

Abstract read

In one paragraph

Article in STAR protocols, 2026. 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

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

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3 · Its place in the literature

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0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

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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.

Shan HuaCornell University, Department of Molecular Biology and Genetics, Ithaca, NY, USA; University of Rochester Medical Center, Department of Biomedical Genetics, Rochester, NY, USA. Electronic address: sh2746@cornell.edu.

Miraz A SadiCornell University, Department of Molecular Biology and Genetics, Ithaca, NY, USA.

Brandon J ParkUniversity of Rochester Medical Center, Department of Biomedical Genetics, Rochester, NY, USA.

Patrick J MurphyCornell University, Department of Molecular Biology and Genetics, Ithaca, NY, USA; University of Rochester Medical Center, Department of Biomedical Genetics, Rochester, NY, USA. Electronic address: pjm249@cornell.edu.

Funding

Function of Chromatin Features in Cellular ProgrammingR35GM137833 · NIGMS · UNIVERSITY OF ROCHESTER · PI Patrick J. Murphy · 2020 to 2026

$2.8M

NIGMS NIH HHS R35 GM137833

6 · The paper itself

Abstract

Mapping epigenetic features is essential for investigating chromatin regulation and gene expression control. We recently found that crosslinking- and sonication-based techniques preferentially exclude insoluble chromatin, restricting the investigation of large portions of eukaryotic genomes. Here, we present a protocol for overcoming this issue. We describe steps for chromatin fractionation, DNA extraction, and preparation of next-generation sequencing (NGS) libraries. This strategy can identify underrepresented heterochromatic regions, including repetitive elements and centromeres, permitting functional investigation of regions that are otherwise undetectable. For complete details on the use and execution of this protocol, please refer to Park et al.

Indexed as

ChIPChIPseqChromatin immunoprecipitationSequencing

Identifiers

PMID42424146

DOI10.1016/j.xpro.2026.104700

PMCPMC13380707

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LicenceCC BY-NC

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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.