Evidence map›Paper›PMID 37226912›Full record

ArticleGigaScience2022

Developmental dynamics of chromatin accessibility during post-implantation development of monkey embryos.

Xi Dai, Honglian Shao, Nianqin Sun, Baiquan Ci, Jun Wu, Chuanyu Liu, Liang Wu, Yue Yuan, Xiaoyu Wei, Huanming Yang and 5 more

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in GigaScience, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
0.1field-weighted citation impact, top 55% 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

1 citing paper in PubMed, 1 citations in OpenAlex.

  1. 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

15 authors at 4 institutions in 3 countries.

Xi DaiCollege of Life Sciences, University of Chinese Academy of Sciences, Beijing 100049, China.ORCID 0000-0002-8240-5487
Honglian ShaoState Key Laboratory of Primate Biomedical Research; Institute of Primate Translational Medicine, Kunming University of Science and Technology, Kunming, Yunnan 650500, China.ORCID 0000-0002-8758-1834
Nianqin SunState Key Laboratory of Primate Biomedical Research; Institute of Primate Translational Medicine, Kunming University of Science and Technology, Kunming, Yunnan 650500, China.ORCID 0000-0001-9461-3307
Baiquan CiState Key Laboratory of Primate Biomedical Research; Institute of Primate Translational Medicine, Kunming University of Science and Technology, Kunming, Yunnan 650500, China.ORCID 0000-0001-8269-8032
Jun WuDepartment of Molecular Biology, University of Texas Southwestern Medical Center, Dallas, TX 75390, USA.ORCID 0000-0001-9863-1668
Chuanyu LiuBGI-Shenzhen, Shenzhen 518083, China.ORCID 0000-0003-2258-0897
Liang WuCollege of Life Sciences, University of Chinese Academy of Sciences, Beijing 100049, China.ORCID 0000-0002-6784-0181
Yue YuanBGI-Shenzhen, Shenzhen 518083, China.
Xiaoyu WeiBGI-Shenzhen, Shenzhen 518083, China.ORCID 0000-0001-9592-3083
Huanming YangBGI-Shenzhen, Shenzhen 518083, China.ORCID 0000-0002-0858-3410
Longqi LiuCollege of Life Sciences, University of Chinese Academy of Sciences, Beijing 100049, China.ORCID 0000-0002-5828-5542
Weizhi JiState Key Laboratory of Primate Biomedical Research; Institute of Primate Translational Medicine, Kunming University of Science and Technology, Kunming, Yunnan 650500, China.ORCID 0000-0003-2550-4224
Bing BaiState Key Laboratory of Primate Biomedical Research; Institute of Primate Translational Medicine, Kunming University of Science and Technology, Kunming, Yunnan 650500, China.
Zhouchun ShangCollege of Life Sciences, University of Chinese Academy of Sciences, Beijing 100049, China.ORCID 0000-0002-1740-7961
Tao TanState Key Laboratory of Primate Biomedical Research; Institute of Primate Translational Medicine, Kunming University of Science and Technology, Kunming, Yunnan 650500, China.ORCID 0000-0001-8650-0388
BGI Group (China) · CNKunming University of Science and Technology · CNThe University of Texas Southwestern Medical Center · USUniversity of Chinese Academy of Sciences · CN

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundEarly post-implantation development, especially gastrulation in primates, is accompanied by extensive drastic chromatin reorganization, which remains largely elusive.

resultsTo delineate the global chromatin landscape and understand the molecular dynamics during this period, a single-cell assay for transposase accessible chromatin sequencing (scATAC-seq) was applied to in vitro cultured cynomolgus monkey (Macaca fascicularis, hereafter referred to as monkey) embryos to investigate the chromatin status. First, we delineated the cis-regulatory interactions and identified the regulatory networks and critical transcription factors involved in the epiblast (EPI), hypoblast, and trophectoderm/trophoblast (TE) lineage specification. Second, we observed that the chromatin opening of some genome regions preceded the gene expression during EPI and trophoblast specification. Third, we identified the opposing roles of FGF and BMP signaling in pluripotency regulation during EPI specification. Finally, we revealed the similarity between EPI and TE in gene expression profiles and demonstrated that PATZ1 and NR2F2 were involved in EPI and trophoblast specification during monkey post-implantation development.

conclusionsOur findings provide a useful resource and insights into dissecting the transcriptional regulatory machinery during primate post-implantation development.

Indexed as

ChromatinTranscription FactorsAnimalsMacaca fascicularisTransposasesChromatinTranscription FactorsTransposaseschromatin dynamicscynomolgus monkeyex vivogastrulationscATAC-seq

Identifiers

PMID37226912
PMCPMC10209733
OpenAlexW4378173131

What Socratic holds

Textmetadata
LicenceCC BY
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 Socratic graph.