Comprehensive transcriptomic analysis of papillary thyroid cancer: potential biomarkers associated with tumor progression

N Hosseinkhan, M Honardoost, Kevin Blighe, Tara C. B. Moore, M E Khamseh

Research output: Contribution to journalArticlepeer-review

14 Citations (Scopus)
256 Downloads (Pure)


Identification of stage-specific prognostic/predictive biomarkers in papillary thyroid carcinoma (PTC) could lead to its more efficient clinical management. The main objective of this study was to characterize the stage-specific deregulation in genes and miRNA expression in PTC to identify potential prognostic biomarkers.
495 RNASeq and 499 miRNASeq PTC samples (stage I-IV) as well as, respectively, 56 and 57 normal samples were retrieved from The Cancer Genome Atlas (TCGA). Differential expression analysis was performed using DESeq 2 to identify deregulation of genes and miRNAs between sequential stages. To identify the minority of patients who progress to higher stages, we performed clustering analysis on stage I RNASeq data. An independent PTC RNASeq data set (BioProject accession PRJEB11591) was also used for the validation of the results.
LTF and PLA2R1 were identified as two promising biomarkers down-regulated in a subgroup of stage I (both in TCGA and in the validation data set) and in the majority of stage IV of PTC (in TCGA data set). hsa-miR-205, hsa-miR-509-2, hsa-miR-514-1 and hsa-miR-514-2 were also detected as up-regulated miRNAs in both PTC patients with stage I and stage III. Hierarchical clustering of stage I samples showed substantial heterogeneity in the expression pattern of PTC indicating the necessity of categorizing stage I patients based on the expressional alterations of specific biomarkers.
Stage I PTC patients showed large amount of expressional heterogeneity. Therefore, risk stratification based on the expressional alterations of candidate biomarkers could be an important step toward personalized management of these patients.
Original languageEnglish
Pages (from-to)911-923
Number of pages13
JournalJournal of Endocrinological Investigation
Issue number7
Early online date21 Jan 2020
Publication statusPublished (in print/issue) - 1 Jul 2020

Bibliographical note

Funding Information:
The authors gratefully acknowledge the supports provided by Iran University of Medical Sciences (Grant number 33444).

Publisher Copyright:
© 2020, Italian Society of Endocrinology (SIE).

Copyright 2020 Elsevier B.V., All rights reserved.


  • Biomarkers
  • Papillary thyroid cancer
  • Patient stratification
  • Tumor progression


Dive into the research topics of 'Comprehensive transcriptomic analysis of papillary thyroid cancer: potential biomarkers associated with tumor progression'. Together they form a unique fingerprint.

Cite this