Evidence map›Paper›PMID 42911493›Full record

ArticleMethods in molecular biology (Clifton, N.J.)2027

A Bioinformatic Framework for Enhancer RNAs Identification in Cancer Based on RNA-Seq and ChIP-Seq.

Chenyang Zhang, Yuxiang Wang, Zhao Zhang

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Article in Methods in molecular biology (Clifton, N.J.), 2027. 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
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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.

Chenyang ZhangDepartment of Biochemistry and Molecular Biology, School of Basic Medical Sciences, MOE Key Laboratory of Metabolism and Molecular Medicine, Fudan University, Shanghai, China.ORCID http://orcid.org/0009-0009-1375-8981
Yuxiang WangDepartment of Pathology, School of Basic Medical Sciences, Fudan University, Shanghai, China.ORCID http://orcid.org/0000-0002-1261-3985
Zhao ZhangDepartment of Biochemistry and Molecular Biology, School of Basic Medical Sciences, MOE Key Laboratory of Metabolism and Molecular Medicine, Fudan University, Shanghai, China. ZhaoZhang@fudan.edu.cn.ORCID http://orcid.org/0000-0002-3757-8469

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Enhancer RNAs (eRNAs) are noncoding RNAs transcribed from the genomic regions of enhancers. eRNAs are increasingly recognized to play an important role in gene regulation, and they can associate with various traits in humans. Here, we provide a bioinformatic pipeline to identify eRNA expression profiles using either an in-house dataset or public datasets from large-scale samples. We also summarized approaches for the identification of eRNAs' putative regulatory network, and eRNA-correlated traits and clinical features. This workflow provides guidance for readers to use bioinformatic tools for analyzing eRNA expression and eRNA-associated traits.

Indexed as

Chromatin Immunoprecipitation SequencingComputational BiologyEnhancer Elements, GeneticEnhancer RNAsNeoplasmsRNA-SeqGene Expression ProfilingGene Expression Regulation, NeoplasticGene Regulatory NetworksHumansSoftwareEnhancer RNAsBioinformaticsEnhancer RNA (eRNA)Gene expressionNoncoding RNARegulatory networkTranscriptome

Identifiers

PMID42911493

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.