Protocol to perform assay for chromatin-bound condensates by exploratory sequencing in mouse embryonic stem cells.

Zeran Jia, Jiawei Yu, Yinqing Li

Abstract read

In one paragraph

Article in STAR protocols, 2025. 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

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.

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

3 authors.

Zeran JiaIDG/McGoven Institute for Brain Research, State Key Laboratory of Molecular Oncology, MOE Key Laboratory of Bioinformatics, Center for Synthetic and Systems Biology, School of Pharmaceutical Sciences, Tsinghua University, Beijing 100084, China.

Jiawei YuIDG/McGoven Institute for Brain Research, State Key Laboratory of Molecular Oncology, MOE Key Laboratory of Bioinformatics, Center for Synthetic and Systems Biology, School of Pharmaceutical Sciences, Tsinghua University, Beijing 100084, China.

Yinqing LiIDG/McGoven Institute for Brain Research, State Key Laboratory of Molecular Oncology, MOE Key Laboratory of Bioinformatics, Center for Synthetic and Systems Biology, School of Pharmaceutical Sciences, Tsinghua University, Beijing 100084, China. Electronic address: yinqingl@tsinghua.edu.cn.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Chromatin-related protein condensates are integral to nuclear functions including transcriptional regulation and chromatin structure. Here, we present a protocol for detecting the occupancy of chromatin-associated condensates using the assay for chromatin-bound condensates by exploratory sequencing (ACC-seq) in mouse embryonic stem cells (mESCs). The workflow encompasses cell preparation, condensate modulation, library construction, and comprehensive sequencing analysis, enabling unbiased, genome-wide mapping of potential condensate occupancy across diverse chromatin states. For complete details on the use and execution of this protocol, please refer to He et al.

Indexed as

ChromatinMouse Embryonic Stem CellsSequence Analysis, DNAAnimalsHigh-Throughput Nucleotide SequencingMiceChromatinBioinformaticsCell BiologyCell cultureGenomicsMolecular BiologyMolecular/Chemical ProbesSequence analysisSequencingStem Cells

Identifiers

PMID40934074

DOI10.1016/j.xpro.2025.104067

PMCPMC12491159

What OpenQuestion holds

Textmetadata

LicenceCC BY-NC-ND

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Registered trials

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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.