Evidence map›Paper›PMID 24799664›Full record

ArticleEpigenetics2014

CAHM, a long non-coding RNA gene hypermethylated in colorectal neoplasia.

Susanne K Pedersen, Susan M Mitchell, Lloyd D Graham, Aidan McEvoy, Melissa L Thomas, Rohan T Baker, Jason P Ross, Zheng-Zhou Xu, Thu Ho, Lawrence C LaPointe and 2 more

Open access · hybridAbstract read
In one paragraph

Article in Epigenetics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
27citing papers in PubMed, 1 pooled it
1.9field-weighted citation impact, top 16% 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

27 citing papers in PubMed, 1 synthesis or guideline pooled it, 43 citations in OpenAlex.

  1. Pooled it
  2. Article
  3. Review
  4. Review
  5. Article
  6. Review
  7. Article
  8. Identification of mScientific reports · 2023
    Article
  9. Review
  10. LncRNA model predicts liver cancer drug resistance and validateFrontiers in cell and developmental biology · 2023
    Article
  11. Article
  12. Review
  13. Promoter Methylation ofFrontiers in genetics · 2022
    Article
  14. Article
  15. Article
  16. Review
  17. Article
  18. Article
  19. Review
  20. 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 5 institutions in 4 countries.

Susanne K PedersenClinical Genomics Pty Ltd; North Ryde, NSW Australia.
Susan M MitchellCSIRO Preventative Health Flagship; Animal, Food & Health Sciences Division; North Ryde, NSW Australia.
Lloyd D GrahamCSIRO Preventative Health Flagship; Animal, Food & Health Sciences Division; North Ryde, NSW Australia.
Aidan McEvoyClinical Genomics Pty Ltd; North Ryde, NSW Australia.
Melissa L ThomasClinical Genomics Pty Ltd; North Ryde, NSW Australia.
Rohan T BakerClinical Genomics Pty Ltd; North Ryde, NSW Australia.
Jason P RossCSIRO Preventative Health Flagship; Animal, Food & Health Sciences Division; North Ryde, NSW Australia.
Zheng-Zhou XuCSIRO Preventative Health Flagship; Animal, Food & Health Sciences Division; North Ryde, NSW Australia.
Thu HoCSIRO Preventative Health Flagship; Animal, Food & Health Sciences Division; North Ryde, NSW Australia.
Lawrence C LaPointeClinical Genomics Pty Ltd; North Ryde, NSW Australia.
Graeme P YoungFlinders Centre for Innovation in Cancer; Flinders University (FMC); Adelaide, SA Australia.
Peter L MolloyCSIRO Preventative Health Flagship; Animal, Food & Health Sciences Division; North Ryde, NSW Australia.
Genomics England · GBAnimal, Food and Health Sciences · AUCommonwealth Scientific and Industrial Research Organisation · AUFlinders University · AUID Genomics (United States) · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The CAHM gene (Colorectal Adenocarcinoma HyperMethylated), previously LOC100526820, is located on chromosome 6, hg19 chr6:163 834 097-163 834 982. It lacks introns, encodes a long non-coding RNA (lncRNA) and is located adjacent to the gene QKI, which encodes an RNA binding protein. Deep bisulphite sequencing of ten colorectal cancer (CRC) and matched normal tissues demonstrated frequent hypermethylation within the CAHM gene in cancer. A quantitative methylation-specific PCR (qMSP) was used to characterize additional tissue samples. With a threshold of 5% methylation, the CAHM assay was positive in 2/26 normal colorectal tissues (8%), 17/21 adenomas (81%), and 56/79 CRC samples (71%). A reverse transcriptase-qPCR assay showed that CAHM RNA levels correlated negatively with CAHM % methylation, and therefore CAHM gene expression is typically decreased in CRC. The CAHM qMSP assay was applied to DNA isolated from plasma specimens from 220 colonoscopy-examined patients. Using a threshold of 3 pg methylated genomic DNA per mL plasma, methylated CAHM sequences were detected in the plasma DNA of 40/73 (55%) of CRC patients compared with 3/73 (4%) from subjects with adenomas and 5/74 (7%) from subjects without neoplasia. Both the frequency of detection and the amount of methylated CAHM DNA released into plasma increased with increasing cancer stage. Methylated CAHM DNA shows promise as a plasma biomarker for use in screening for CRC.

Indexed as

DNA MethylationAdenocarcinomaAdenomaAdultAgedBase SequenceBiomarkers, TumorCaco-2 CellsColorectal NeoplasmsFemaleHumansMaleMiddle AgedMolecular Sequence DataNeoplasm StagingRNA, Long NoncodingBiomarkers, TumorCAHM long non-coding RNA, humanRNA, Long NoncodingBiomarkerCAHMgene (LOC100526820)circulating DNAcolorectal neoplasiaDNA methylationLong non-coding RNAQKI

Identifiers

PMID24799664
PMCPMC4164492
OpenAlexW2001527227

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.