Evidence map›Paper›PMID 22363434›Full record

ArticlePloS one2012

Array-comparative genomic hybridization reveals loss of SOCS6 is associated with poor prognosis in primary lung squamous cell carcinoma.

Krishna B Sriram, Jill E Larsen, Santiyagu M Savarimuthu Francis, Casey M Wright, Belinda E Clarke, Edwina E Duhig, Kevin M Brown, Nicholas K Hayward, Ian A Yang, Rayleen V Bowman and 1 more

Open access · goldAbstract read
In one paragraph

Article in PloS one, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.

0numbers the graph read from it
0cells of the map it votes in
22citing papers in PubMed
2.9field-weighted citation impact, top 8% 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

22 citing papers in PubMed, 34 citations in OpenAlex.

  1. Article
  2. Review
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  6. Article
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  10. Review
  11. Global promoter methylation analysis reveals novel candidate tumor suppressor genes in natural killer cell lymphoma.Clinical cancer research : an official journal of the American Association for Cancer Research · 2015
    Article
  12. Article
  13. SOCS6 is a selective suppressor of receptor tyrosine kinase signaling.Tumour biology : the journal of the International Society for Oncodevelopmental Biology and Medicine · 2014
    Review
  14. SOCS proteins in regulation of receptor tyrosine kinase signaling.Cellular and molecular life sciences : CMLS · 2014
    Review
  15. Article
  16. Review
  17. Role of CYB5A in pancreatic cancer prognosis and autophagy modulation.Journal of the National Cancer Institute · 2014
    Article
  18. Review
  19. Article
  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

11 authors at 4 institutions in 2 countries.

Krishna B SriramSchool of Medicine, The University of Queensland, Brisbane, Queensland, Australia. bajee.sriram@uqconnect.edu.au
Jill E Larsen
Santiyagu M Savarimuthu Francis
Casey M Wright
Belinda E Clarke
Edwina E Duhig
Kevin M Brown
Nicholas K Hayward
Ian A Yang
Rayleen V Bowman
Kwun M Fong
University of Queensland · AUPrince Charles Hospital · AUQIMR Berghofer Medical Research Institute · AUTranslational Genomics Research Institute · US

Funding

Laboratory of Translational GenomicsZIACP010201 · NCI · DIVISION OF CANCER EPIDEMIOLOGY AND GENETICS · PI PROKUNINA-OLSSON, LIUDMILA · 2010 to 2025
$91.2M
6 · The paper itself

Abstract

backgroundPrimary tumor recurrence commonly occurs after surgical resection of lung squamous cell carcinoma (SCC). Little is known about the genes driving SCC recurrence.

methodsWe used array comparative genomic hybridization (aCGH) to identify genes affected by copy number alterations that may be involved in SCC recurrence. Training and test sets of resected primary lung SCC were assembled. aCGH was used to determine genomic copy number in a training set of 62 primary lung SCCs (28 with recurrence and 34 with no evidence of recurrence) and the altered copy number of candidate genes was confirmed by quantitative PCR (qPCR). An independent test set of 72 primary lung SCCs (20 with recurrence and 52 with no evidence of recurrence) was used for biological validation. mRNA expression of candidate genes was studied using qRT-PCR. Candidate gene promoter methylation was evaluated using methylation microarrays and Sequenom EpiTYPER analysis.

results18q22.3 loss was identified by aCGH as being significantly associated with recurrence (p = 0.038). Seven genes within 18q22.3 had aCGH copy number loss associated with recurrence but only SOCS6 copy number was both technically replicated by qPCR and biologically validated in the test set. SOCS6 copy number loss correlated with reduced mRNA expression in the study samples and in the samples with copy number loss, there was a trend for increased methylation, albeit non-significant. Overall survival was significantly poorer in patients with SOCS6 loss compared to patients without SOCS6 loss in both the training (30 vs. 43 months, p = 0.023) and test set (27 vs. 43 months, p = 0.010).

conclusionReduced copy number and mRNA expression of SOCS6 are associated with disease recurrence in primary lung SCC and may be useful prognostic biomarkers.

Indexed as

Comparative Genomic HybridizationAdultAgedAged, 80 and overCarcinoma, Squamous CellChromosomes, HumanChromosomes, Human, Pair 18DNA Copy Number VariationsDNA MethylationFemaleFollow-Up StudiesGene DosageGene Expression Regulation, NeoplasticGenes, NeoplasmGenetic Association StudiesGenome, HumanRNA, MessengerSOCS6 protein, humanSuppressor of Cytokine Signaling Proteins

Identifiers

PMID22363434
PMCPMC3281847
OpenAlexW2062885288

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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.