Evidence map›Paper›PMID 26462176›Full record

ArticleOncotarget2015

Decrease of 5hmC in gastric cancers is associated with TET1 silencing due to with DNA methylation and bivalent histone marks at TET1 CpG island 3'-shore.

Jong-Lyul Park, Hee-Jin Kim, Eun-Hye Seo, Oh-Hyung Kwon, Byungho Lim, Mirang Kim, Seon-Young Kim, Kyu-Sang Song, Gyeong Hoon Kang, Hyun Ja Kim and 2 more

Open access · diamondAbstract read
In one paragraph

Article in Oncotarget, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
20citing papers in PubMed, 1 pooled it
2.6field-weighted citation impact, top 10% 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

20 citing papers in PubMed, 1 synthesis or guideline pooled it, 31 citations in OpenAlex.

  1. Pooled it
  2. Review
  3. Article
  4. Article
  5. Article
  6. Review
  7. Increased 5-hydroxymethylcytosine is a favorable prognostic factor ofWorld journal of gastrointestinal oncology · 2022
    Article
  8. Review
  9. Article
  10. Article
  11. Article
  12. How to stomach an epigenetic insult: the gastric cancer epigenome.Nature reviews. Gastroenterology & hepatology · 2017
    Review
  13. Review
  14. Article
  15. Article
  16. Article
  17. Article
  18. Article
  19. Article
  20. MiR-183-5p promotes renal cell carcinoma metastasis by targeting TET1.International journal of immunopathology and pharmacology
    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

12 authors at 6 institutions in 1 country.

Jong-Lyul ParkEpigenome Research Center, Genome Institute, KRIBB, Daejeon, Republic of Korea.
Hee-Jin KimEpigenome Research Center, Genome Institute, KRIBB, Daejeon, Republic of Korea.
Eun-Hye SeoEpigenome Research Center, Genome Institute, KRIBB, Daejeon, Republic of Korea.
Oh-Hyung KwonEpigenome Research Center, Genome Institute, KRIBB, Daejeon, Republic of Korea.
Byungho LimEpigenome Research Center, Genome Institute, KRIBB, Daejeon, Republic of Korea.
Mirang KimEpigenome Research Center, Genome Institute, KRIBB, Daejeon, Republic of Korea.
Seon-Young KimEpigenome Research Center, Genome Institute, KRIBB, Daejeon, Republic of Korea.
Kyu-Sang SongDepartment of Pathology, College of Medicine, Chungnam National University, Daejeon, Republic of Korea.
Gyeong Hoon KangDepartment of Pathology, Seoul National University College of Medicine, Seoul, Republic of Korea.
Hyun Ja KimDepartments of Preventive Medicine, College of Medicine, Hanyang University, Seoul, Republic of Korea.
Bo Youl ChoiDepartments of Preventive Medicine, College of Medicine, Hanyang University, Seoul, Republic of Korea.
Yong Sung KimEpigenome Research Center, Genome Institute, KRIBB, Daejeon, Republic of Korea.
Genome Research Foundation · KRKorea University of Science and Technology · KRKorea Research Institute of Bioscience and Biotechnology · KRChungnam National University · KRHanyang University · KRSeoul National University · KR

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Recent evidence has shown that the level of 5-hydroxymethylcytosine (5 hmC) in chromosomal DNA is aberrantly decreased in a variety of cancers, but whether this decrease is a cause or a consequence of tumorigenesis is unclear. Here we show that, in gastric cancers, the 5 hmC decrease correlates with a decrease in ten-eleven translocation 1 (TET1) expression, which is strongly associated with metastasis and poor survival in patients with gastric cancer. In gastric cancer cells, TET1-targeted siRNA induced a decrease in 5 hmC, whereas TET1 overexpression induced an increase in 5 hmC and reduced cell proliferation, thus correlating decreased 5 hmC with gastric carcinogenesis. We also report the epigenetic signatures responsible for regulating TET1 transcription. Methyl-CpG Binding Domain Sequencing and Reduced Representation Bisulfite Sequencing identified unique CpG methylation signatures at the CpG island 3'-shore region located 1.3 kb from the transcription start site of TET1 in gastric tumor cells but not in normal mucosa. The luciferase activity of constructs with a methylated 3'-shore sequence was greatly decreased compared with that of an unmethylated sequence in transformed gastric cancer cells. In gastric cancer cells, dense CpG methylation in the 3'-shore was strongly associated with TET1 silencing and bivalent histone marks. Thus, a decrease in 5 hmC may be a cause of gastric tumorigenesis owing to a decrease in TET1 expression through DNA methylation coupled with bivalent marks in the 3'-shore of TET1.

Indexed as

DNA Methylation3' Untranslated Regions5-MethylcytosineChromatin ImmunoprecipitationCpG IslandsCytosineFemaleGene SilencingHistone CodeHumansImmunoenzyme TechniquesMaleMiddle AgedMixed Function OxygenasesProto-Oncogene ProteinsReal-Time Polymerase Chain Reaction3' Untranslated Regions5-hydroxymethylcytosine5-MethylcytosineCytosineMixed Function OxygenasesProto-Oncogene ProteinsRNA, MessengerTET1 protein, human3′-shore5-hydroxymethylcytosinebivalent markDNA methylationgastric cancerTET1

Identifiers

PMID26462176
PMCPMC4741955
OpenAlexW2214095296

What OpenQuestion holds

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LicenceCC BY
Read underepoch 390

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.