Evidence map›Paper›PMID 36187922›Full record

ArticleComputational and structural biotechnology journal2022

The synergistic interaction landscape of chromatin regulators reveals their epigenetic regulation mechanisms across five cancer cell lines.

Meng Cao, Liqiang Wang, Dahua Xu, Xiaoman Bi, Shengnan Guo, Zhizhou Xu, Liyang Chen, Dehua Zheng, Peihu Li, Jiankai Xu and 5 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Computational and structural biotechnology journal, 2022. 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
–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

4 citing papers in PubMed.

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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

15 authors.

Meng CaoKey Laboratory of Tropical Translational Medicine of Ministry of Education, College of Biomedical Information and Engineering, Hainan General Hospital and Hainan Affiliated Hospital, Hainan Medical University, Haikou, China.
Liqiang WangCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Dahua XuKey Laboratory of Tropical Translational Medicine of Ministry of Education, College of Biomedical Information and Engineering, Hainan General Hospital and Hainan Affiliated Hospital, Hainan Medical University, Haikou, China.
Xiaoman BiKey Laboratory of Tropical Translational Medicine of Ministry of Education, College of Biomedical Information and Engineering, Hainan General Hospital and Hainan Affiliated Hospital, Hainan Medical University, Haikou, China.
Shengnan GuoKey Laboratory of Tropical Translational Medicine of Ministry of Education, College of Biomedical Information and Engineering, Hainan General Hospital and Hainan Affiliated Hospital, Hainan Medical University, Haikou, China.
Zhizhou XuKey Laboratory of Tropical Translational Medicine of Ministry of Education, College of Biomedical Information and Engineering, Hainan General Hospital and Hainan Affiliated Hospital, Hainan Medical University, Haikou, China.
Liyang ChenKey Laboratory of Tropical Translational Medicine of Ministry of Education, College of Biomedical Information and Engineering, Hainan General Hospital and Hainan Affiliated Hospital, Hainan Medical University, Haikou, China.
Dehua ZhengKey Laboratory of Tropical Translational Medicine of Ministry of Education, College of Biomedical Information and Engineering, Hainan General Hospital and Hainan Affiliated Hospital, Hainan Medical University, Haikou, China.
Peihu LiKey Laboratory of Tropical Translational Medicine of Ministry of Education, College of Biomedical Information and Engineering, Hainan General Hospital and Hainan Affiliated Hospital, Hainan Medical University, Haikou, China.
Jiankai XuCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Shaojiang ZhengKey Laboratory of Tropical Translational Medicine of Ministry of Education, College of Biomedical Information and Engineering, Hainan General Hospital and Hainan Affiliated Hospital, Hainan Medical University, Haikou, China.
Hong WangKey Laboratory of Tropical Translational Medicine of Ministry of Education, College of Biomedical Information and Engineering, Hainan General Hospital and Hainan Affiliated Hospital, Hainan Medical University, Haikou, China.
Bo WangKey Laboratory of Tropical Translational Medicine of Ministry of Education, College of Biomedical Information and Engineering, Hainan General Hospital and Hainan Affiliated Hospital, Hainan Medical University, Haikou, China.
Jianping LuCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Kongning LiKey Laboratory of Tropical Translational Medicine of Ministry of Education, College of Biomedical Information and Engineering, Hainan General Hospital and Hainan Affiliated Hospital, Hainan Medical University, Haikou, China.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Chromatin regulators (CRs) regulate the gene transcription process through combinatorial patterns, which currently remain obscure for pan-cancer. This study identified the interaction of CRs and constructed CR-CR interaction networks across five tumor cell lines. The global interaction analysis revealed that CRs tend to function in synergistically. In addition, common and specific CRs in interaction networks were identified, and the epigenetic processes of these CRs in regulating gene transcription were analyzed. Common CRs have conserved binding sites but cooperate with different partners in multiple tumor cell lines. They also participate in gene transcription regulation, through mediation of different histone modifications (HMs). Specific CRs, ATF2 and PRDM10 were found to distinguish liver cancer samples with different prognosis. PRDM10 participates in gene transcription regulation, by exertion of influence on the DNA methylation level of liver cancer. Through analysis of the edges in the CR-CR interaction networks, it was found EP300-TAF1 has genome-wide distinct signaling patterns, which exhibit different effects on downstream targets. This analysis provides novel insights for the understanding of synergistic mechanism of CRs function, as controllers of gene transcription across cancer types.

Indexed as

Chromatin regulatorsCombinatorial patternPan-cancerTranscriptional regulation

Identifiers

PMID36187922
PMCPMC9483781

What OpenQuestion holds

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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.