Preparation of Nucleoplasmic Extract and Its Application in DNA End Processing.

Daichi Nishiguchi, Kensuke Tatsukawa, Tatsuro S Takahashi

Abstract read

In one paragraph

Article in Methods in molecular biology (Clifton, N.J.), 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.

Daichi NishiguchiGraduate School of Systems Life Sciences, Kyushu University, Fukuoka, Japan.

Kensuke TatsukawaFaculty of Science, Kyushu University, Fukuoka, Japan.

Tatsuro S TakahashiFaculty of Science, Kyushu University, Fukuoka, Japan. takahashi.tatsuro.465@m.kyushu-u.ac.jp.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The nucleoplasmic extract (NPE) of Xenopus laevis eggs contains a physiological concentration of nuclear proteins that recapitulate a functional nuclear environment. This system has been widely used to study key nuclear processes, including DNA replication, repair, transcription, and chromatin assembly. Its soluble nature, free from membrane fractions and insoluble structures, enables direct analysis of nuclear responses to specific DNA structures and lesions. Here, we describe an NPE preparation protocol with our modifications and its application in the processing of DNA double-strand breaks, a critical step in homology-directed repair.

Indexed as

Cell ExtractsCell NucleusDNAAnimalsDNA Breaks, Double-StrandedDNA RepairDNA ReplicationXenopus laevisCell ExtractsDNADNA double-strand breakEnd resectionNucleoplasmic extractXenopus laevis

Identifiers

PMID40833576

DOI10.1007/978-1-59745-000-3_9

What OpenQuestion holds

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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.