Evidence map›Paper›PMID 32077696›Full record

ArticleJournal of the American Chemical Society2020

DNA 5-Methylcytosine-Specific Amplification and Sequencing.

Chang Liu, Xiaolong Cui, Boxuan Simen Zhao, Pradnya Narkhede, Yawei Gao, Jun Liu, Xiaoyang Dou, Qing Dai, Li-Sheng Zhang, Chuan He

Erratum issuedAbstract read
In one paragraph

Article in Journal of the American Chemical Society, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 9 papers.

0numbers the graph read from it
0cells of the map it votes in
9citing 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

9 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Mammalian DNA NMolecular cell · 2023
    Review
  6. Article
  7. Article
  8. RNA mInnovation (Cambridge (Mass.)) · 2020
    Review
  9. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

10 authors.

Chang LiuDepartment of Chemistry, Department of Biochemistry and Molecular Biology, and Institute for Biophysical Dynamics, The University of Chicago, Chicago, Illinois 60637, United States.
Xiaolong CuiDepartment of Chemistry, Department of Biochemistry and Molecular Biology, and Institute for Biophysical Dynamics, The University of Chicago, Chicago, Illinois 60637, United States.
Boxuan Simen ZhaoDepartment of Genetics, Stanford University, Stanford, California 94305, United States.
Pradnya NarkhedeDepartment of Chemistry, University of Cambridge, Cambridge CB2 0SP, U.K.
Yawei GaoClinical and Translational Research Center of Shanghai First Maternity and Infant Hospital, Shanghai Key Laboratory of Signaling and Disease Research, School of Life Sciences and Technology, Tongji University, Shanghai 200092, China.
Jun LiuDepartment of Chemistry, Department of Biochemistry and Molecular Biology, and Institute for Biophysical Dynamics, The University of Chicago, Chicago, Illinois 60637, United States.
Xiaoyang DouDepartment of Chemistry, Department of Biochemistry and Molecular Biology, and Institute for Biophysical Dynamics, The University of Chicago, Chicago, Illinois 60637, United States.
Qing DaiDepartment of Chemistry, Department of Biochemistry and Molecular Biology, and Institute for Biophysical Dynamics, The University of Chicago, Chicago, Illinois 60637, United States.
Li-Sheng ZhangDepartment of Chemistry, Department of Biochemistry and Molecular Biology, and Institute for Biophysical Dynamics, The University of Chicago, Chicago, Illinois 60637, United States.
Chuan HeDepartment of Chemistry, Department of Biochemistry and Molecular Biology, and Institute for Biophysical Dynamics, The University of Chicago, Chicago, Illinois 60637, United States.ORCID 0000-0003-4319-7424

Funding

Transcriptome-wide base-resolution sequencing of pseudouridine in human normal and AD brain tissues-CEGS Admin supplement 2020-2021RM1HG008935 · NHGRI · UNIVERSITY OF CHICAGO · PI HE, CHUAN · 2016 to 2025
$24.4M
NHGRI NIH HHS RM1 HG008935
6 · The paper itself

Abstract

DNA 5-methylcytosine (5mC)-specific mapping has been hampered by severe DNA degradation and the presence of 5-hydroxymethylcytosine (5hmC) using the conventional bisulfite sequencing approach. Here, we present a 5mC-specific whole-genome amplification method (5mC-WGA), with which we achieved 5mC retention during DNA amplification from limited input down to 10 pg scale with limited interference from 5hmC signals, providing DNA 5mC methylome with high reproducibility and accuracy.

Indexed as

5-MethylcytosineAnimalsDNADNA MethylationHumansMiceNucleic Acid Amplification TechniquesSequence Analysis, DNASulfitesWhole Genome Sequencing5-MethylcytosineDNAhydrogen sulfiteSulfites

Identifiers

PMID32077696
PMCPMC7216556

What OpenQuestion holds

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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.