Evidence map›Paper›PMID 30930929›Full record

ArticleFrontiers in genetics2019

Evolution and Comprehensive Analysis of DNaseI Hypersensitive Sites in Regulatory Regions of Primate Brain-Related Genes.

Yueer Lu, Xiao Wang, Hang Yu, Jianlin Li, Zhiqiang Jiang, Bangwei Chen, Yueqi Lu, Wei Wang, Chongyin Han, Ying Ouyang and 4 more

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

Article in Frontiers in genetics, 2019. 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
0.5field-weighted citation impact, top 36% 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

4 citing papers in PubMed, 6 citations in OpenAlex.

  1. Review
  2. Review
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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

14 authors at 3 institutions in 1 country.

Yueer LuSchool of Biology and Biological Engineering, South China University of Technology, Guangzhou, China.
Xiao WangState Key Laboratory of Genetic Engineering, Department of Biostatistics and Computational Biology, Collaborative Innovation Center of Genetics and Development, School of Life Sciences, Fudan University, Shanghai, China.
Hang YuSchool of Biology and Biological Engineering, South China University of Technology, Guangzhou, China.
Jianlin LiSchool of Biology and Biological Engineering, South China University of Technology, Guangzhou, China.
Zhiqiang JiangSchool of Biology and Biological Engineering, South China University of Technology, Guangzhou, China.
Bangwei ChenSchool of Biology and Biological Engineering, South China University of Technology, Guangzhou, China.
Yueqi LuSchool of Biology and Biological Engineering, South China University of Technology, Guangzhou, China.
Wei WangSchool of Biology and Biological Engineering, South China University of Technology, Guangzhou, China.
Chongyin HanSchool of Biology and Biological Engineering, South China University of Technology, Guangzhou, China.
Ying OuyangSchool of Biology and Biological Engineering, South China University of Technology, Guangzhou, China.
Lizhen HuangSchool of Biology and Biological Engineering, South China University of Technology, Guangzhou, China.
Chunbo ChenDepartment of Critical Care Medicine, Guangdong General Hospital, Guangdong Academy of Medical Sciences, Guangzhou, China.
Weidong TianState Key Laboratory of Genetic Engineering, Department of Biostatistics and Computational Biology, Collaborative Innovation Center of Genetics and Development, School of Life Sciences, Fudan University, Shanghai, China.
Fei LingSchool of Biology and Biological Engineering, South China University of Technology, Guangzhou, China.
South China University of Technology · CNState Key Laboratory of Genetic EngineeringGuangdong General Hospital · CN

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

How the human brain differs from those of non-human primates is largely unknown and the complex drivers underlying such differences at the genomic level remain unclear. In this study, we selected 243 brain-related genes, based on Gene Ontology, and identified 184,113 DNaseI hypersensitive sites (DHSs) within their regulatory regions. To performed comprehensive evolutionary analyses, we set strict filtering criteria for alignment quality and filtered 39,132 DHSs for inclusion in the investigation and found that 2,397 (~6%) exhibited evidence of accelerated evolution (aceDHSs), which was a much higher proportion that DHSs genome-wide. Target genes predicted to be regulated by brain-aceDHSs were functionally enriched for brain development and exhibited differential expression between human and chimpanzee. Alignments indicated 61 potential human-specific transcription factor binding sites in brain-aceDHSs, including for CTCF, FOXH1, and FOXQ1. Furthermore, based on GWAS, Hi-C, and eQTL data, 16 GWAS SNPs, and 82 eQTL SNPs were in brain-aceDHSs that regulate genes related to brain development or disease. Among these brain-aceDHSs, we confirmed that one enhanced the expression of GPR133, using CRISPR-Cas9 and western blotting. The

Indexed as

brainDNaseI hypersensitive sitesevolutionprimatesregulatory region

Identifiers

PMID30930929
PMCPMC6423895
OpenAlexW2921944860

What OpenQuestion 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 OpenQuestion graph.