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Series GSE65074 Query DataSets for GSE65074
Status Public on Jan 20, 2015
Title Gene expression classifier in papillary thyroid carcinoma: validation and application of a classifier for prognostication
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Background: With the incidence of papillary thyroid carcinoma rising worldwide, the decision about lobectomy versus total thyroidectomy will become relevant for an increasing number of patients. There exists no reliable biomarker for metastatic potential or tendency of recurrence that could assist in the risk stratification of patients.

Objective: To develop a gene expression classifier for metastatic potential by measuring RNA expression in the primary tumor at the time of cancer surgery. Further, to investigate the ability of the gene expression classifier to identify metastatic and recurrent cases.

Method: Genome-wide expression analyses. The development cohort consisted of freshly frozen tissues from 38 patients collected between the years 1986 and 2009. Validation was performed on a consecutive cohort of formalin fixated paraffin embedded surgical tissue specimens from 183 patients treated at Odense and Aarhus University Hospitals.

Results: A 17 gene classifier (ADAMTS1, ANTXR1, C7, CXCL12, EBF1, FBLN2, FOSL2, GGT5, GPR124, JAM3, LRIG1, NDRG1, PRRX1, ROBO1, SORL1, TCF4, and ZEB1) was identified based on the expression values of these genes in the groups with and without metastasis in the development cohort. The 17 gene classifier for regional and/or distant metastasis identified was tested against the clinical status in the validation cohort. Sensitivity was 51.6% (95% CI 41.2%-61.8) and specificity 61.6 % (95% CI 50.5%-71.9%). Further, the Kaplan-Meyer method was used to estimate whether the classifier was useful as a prognostic marker for recurrences. Log-rank testing failed to identify any significance (p=0.32).

Conclusion: A 17 gene classifier for metastatic potential was developed, and the results showed a clear biological difference between groups. However, through validation, the prognostic significance of this classifier could not be shown in identifying metastatic cases or in the ability of dichotomizing patients according to risk of recurrence after primary treatment.
 
Overall design 38 patients with papillary thyroid carcinoma from a consecutive cohort of patients, no replicates
 
Contributor(s) Londero SC, Jespersen ML, Krogdahl A, Bastholt L, Overgaard J, Schytte S, Godballe C, Alsner J
Citation(s) 26851034
Submission date Jan 18, 2015
Last update date Nov 21, 2022
Contact name Jan Alsner
E-mail(s) jan@oncology.au.dk
Organization name Aarhus University Hospital
Department Experimental clinical Oncology
Street address Nørrebrogade 44, Bldg. 5
City Aarhus C
ZIP/Postal code 8000
Country Denmark
 
Platforms (1)
GPL13667 [HG-U219] Affymetrix Human Genome U219 Array
Samples (38)
GSM1586814 TC002
GSM1586815 TC003
GSM1586816 TC004
Relations
BioProject PRJNA272877

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE65074_RAW.tar 80.0 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table

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