Evidence map›Paper›PMID 28465481›Full record

ArticleOncotarget2017

Genome-wide screening of DNA methylation associated with lymph node metastasis in esophageal squamous cell carcinoma.

Hiroaki Nagata, Ken-Ichi Kozaki, Tomoki Muramatsu, Hidekazu Hiramoto, Kousuke Tanimoto, Naoto Fujiwara, Seiya Imoto, Daisuke Ichikawa, Eigo Otsuji, Satoru Miyano and 2 more

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

Article in Oncotarget, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
18citing papers in PubMed, 1 pooled it
1.3field-weighted citation impact, top 20% 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

18 citing papers in PubMed, 1 synthesis or guideline pooled it, 24 citations in OpenAlex.

  1. Pooled it
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  3. Review
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  8. Article
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  11. Review
  12. Organoids and Liquid Biopsy in Oral Cancer Research.Journal of clinical medicine · 2020
    Article
  13. Article
  14. Methylation inCells · 2020
    Review
  15. Article
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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

12 authors at 2 institutions in 1 country.

Hiroaki NagataDepartment of Molecular Cytogenetics, Graduate School, Tokyo Medical and Dental University, Tokyo, Japan.
Ken-Ichi KozakiDepartment of Molecular Cytogenetics, Graduate School, Tokyo Medical and Dental University, Tokyo, Japan.
Tomoki MuramatsuDepartment of Molecular Cytogenetics, Graduate School, Tokyo Medical and Dental University, Tokyo, Japan.
Hidekazu HiramotoDepartment of Molecular Cytogenetics, Graduate School, Tokyo Medical and Dental University, Tokyo, Japan.
Kousuke TanimotoGenome Laboratory, Graduate School of Medicine, Graduate School, Tokyo Medical and Dental University, Tokyo, Japan.
Naoto FujiwaraDepartment of Molecular Cytogenetics, Graduate School, Tokyo Medical and Dental University, Tokyo, Japan.
Seiya ImotoHuman Genome Center, Institute of Medical Science, University of Tokyo, Tokyo, Japan.
Daisuke IchikawaDepartment of Digestive Surgery, Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kamigyo-ku, Kyoto, Japan.
Eigo OtsujiDepartment of Digestive Surgery, Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kamigyo-ku, Kyoto, Japan.
Satoru MiyanoHuman Genome Center, Institute of Medical Science, University of Tokyo, Tokyo, Japan.
Tatsuyuki KawanoDepartment of Esophageal and General Surgery, Graduate School, Tokyo Medical and Dental University, Tokyo, Japan.
Johji InazawaDepartment of Molecular Cytogenetics, Graduate School, Tokyo Medical and Dental University, Tokyo, Japan.
Tokyo Medical and Dental University · JPKyoto Prefectural University of Medicine · JP

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Lymph node metastasis (LNM) of esophageal squamous cell carcinoma (ESCC) is well-known to be an early event associated with poor prognosis in patients with ESCC. Recently, tumor-specific aberrant DNA methylation of CpG islands around the promoter regions of tumor-related genes has been investigated as a possible biomarker for use in early diagnosis and prediction of prognosis. However, there are few DNA methylation markers able to predict the presence of LNM in ESCC. To identify DNA methylation markers associated with LNM of ESCC, we performed a genome-wide screening of DNA methylation status in a discovery cohort of 67 primary ESCC tissues and their paired normal esophageal tissues using the Illumina Infinium HumanMethylation450 BeadChip. In this screening, we focused on differentially methylated regions (DMRs) that were associated with LNM of ESCC, as prime candidates for DNA methylation markers. We extracted three genes, HOXB2, SLC15A3, and SEPT9, as candidates predicting LNM of ESCC, using pyrosequencing and several statistical analyses in the discovery cohort. We confirmed that HOXB2 and SEPT9 were highly methylated in LNM-positive tumors in 59 ESCC validation samples. These results suggested that HOXB2 and SEPT9 may be useful epigenetic biomarkers for the prediction of the presence of LNM in ESCC.

Indexed as

AgedAged, 80 and overCarcinoma, Squamous CellCohort StudiesDNA MethylationEpigenesis, GeneticEsophageal NeoplasmsEsophageal Squamous Cell CarcinomaFemaleGenomicsHumansLymphatic MetastasisMaleMiddle AgedDNA methylationesophageal squamous cell carcinomalymph node metastasispredictive biomarkerpyrosequencing analysis

Identifiers

PMID28465481
PMCPMC5514945
OpenAlexW2606566560

What OpenQuestion holds

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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.