Evidence map›Paper›PMID 29263824›Full record

ArticleNPJ genomic medicine2017

Base resolution maps reveal the importance of 5-hydroxymethylcytosine in a human glioblastoma.

Eun-Ang Raiber, Dario Beraldi, Sergio Martínez Cuesta, Gordon R McInroy, Zoya Kingsbury, Jennifer Becq, Terena James, Margarida Lopes, Kieren Allinson, Sarah Field and 5 more

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

Article in NPJ genomic medicine, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.

0numbers the graph read from it
0cells of the map it votes in
17citing papers in PubMed
1.6field-weighted citation impact, top 17% 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

17 citing papers in PubMed, 35 citations in OpenAlex.

  1. Review
  2. Article
  3. Current progress in strategies to profile transcriptomic mFrontiers in cell and developmental biology · 2024
    Review
  4. Review
  5. Article
  6. Article
  7. Article
  8. Review
  9. Article
  10. Article
  11. Article
  12. Review
  13. Epigenetic Deregulation of the Histone MethyltransferaseFrontiers in cell and developmental biology · 2021
    Article
  14. Article
  15. Review
  16. Review
  17. Review
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 3 institutions in 1 country.

Eun-Ang Raiber *Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK.
Dario Beraldi *Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK.
Sergio Martínez Cuesta *Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK.
Gordon R McInroyDepartment of Chemistry, University of Cambridge, Cambridge, UK.
Zoya KingsburyIllumina Ltd., Chesterford Research Park, Little Chesterford, Saffron Walden, UK.
Jennifer BecqIllumina Ltd., Chesterford Research Park, Little Chesterford, Saffron Walden, UK.
Terena JamesIllumina Ltd., Chesterford Research Park, Little Chesterford, Saffron Walden, UK.
Margarida LopesIllumina Ltd., Chesterford Research Park, Little Chesterford, Saffron Walden, UK.
Kieren AllinsonDepartment of Pathology, Addenbrooke's Hospital, Cambridge University Hospitals, Cambridge, UK.
Sarah FieldCancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK.
Sean HumphrayIllumina Ltd., Chesterford Research Park, Little Chesterford, Saffron Walden, UK.
Thomas SantariusDepartment of Clinical Neurosciences, Division of Neurosurgery, University of Cambridge, Cambridge, UK.
Colin WattsDepartment of Clinical Neurosciences, Division of Neurosurgery, University of Cambridge, Cambridge, UK.
David BentleyIllumina Ltd., Chesterford Research Park, Little Chesterford, Saffron Walden, UK.
Shankar BalasubramanianCancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK.
Illumina (United Kingdom) · GBUniversity of Cambridge · GBCancer Research UK · GB

Funding

Wellcome Trust
6 · The paper itself

Abstract

Aberrant genetic and epigenetic variations drive malignant transformation and are hallmarks of cancer. Using PCR-free sample preparation we achieved the first in-depth whole genome (hydroxyl)-methylcytosine, single-base-resolution maps from a glioblastoma tumour/margin sample of a patient. Our data provide new insights into how genetic and epigenetic variations are interrelated. In the tumour, global hypermethylation with a depletion of 5-hydroxymethylcytosine was observed. The majority of single nucleotide variations were identified as cytosine-to-thymine deamination products within CpG context, where cytosine was preferentially methylated in the margin. Notably, we observe that cells neighbouring tumour cells display epigenetic alterations characteristic of the tumour itself although genetically they appear "normal". This shows the potential transfer of epigenetic information between cells that contributes to the intratumour heterogeneity of glioblastoma. Together, our reference (epi)-genome provides a human model system for future studies that aim to explore the link between genetic and epigenetic variations in cancer progression.

Identifiers

PMID29263824
PMCPMC5677956
OpenAlexW2594395841

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.