Document Details

Document Type : Article In Journal 
Document Title :
Comparison of microarray expression profiles between follicular variant of papillary thyroid carcinomas and follicular adenomas of the thyroid
Comparison of microarray expression profiles between follicular variant of papillary thyroid carcinomas and follicular adenomas of the thyroid
 
Document Language : English 
Abstract : Background: Follicular variant of papillary thyroid carcinoma (FVPTC) and follicular adenoma (FA) are histologically closely related tumors and differential diagnosis remains challenging. RNA expression profiling is an established method to unravel molecular mechanisms underlying the histopathology of diseases. Methods: BRAF mutational status was established by direct sequencing the hotspot region of exon 15 in six FVPTCs and seven FAs. Whole-transcript arrays were employed to generate expression profiles in six FVPTCs, seven FAs and seven normal thyroid tissue samples. The threshold of significance for differential expression on the gene and exon level was a p-value with a false discovery rate (FDR) < 0.05 and a fold change cutoff > 2. Two dimensional average linkage hierarchical clustering was generated using differentially expressed genes. Network, pathway, and alternative splicing utilities were employed to interpret significance of expression data on the gene and exon level. Results: Expression profiling in FVPTCs and FAs, all of which were negative for a BRAF mutation, revealed 55 transcripts that were significantly differentially expressed, 40 of which were upregulated and 15 downregulated in FVPTCs vs. FAs. Amongst the most significantly upregulated genes in FVPTCs were GABA B receptor, 2 (GABBR2), neuronal cell adhesion molecule (NRCAM), extracellular matrix protein 1 (ECM1), heparan sulfate 6-O-sulfotransferase 2 (HS6ST2), and retinoid X receptor, gamma (RXRG). The most significantly downregulated genes in FVPTCs included interaction protein for cytohesin exchange factors 1 (IPCEF1), G protein-coupled receptor 155 (GPR155), Purkinje cell protein 4 (PCP4), chondroitin sulfate N-acetylgalactosaminyltransferase 1 (CSGALNACT1), and glutamate receptor interacting protein 1 (GRIP1). Alternative splicing analysis detected 87 genes, 52 of which were also included in the list of 55 differentially expressed genes. Network analysis demonstrated multiple interactions for a number of differentially expressed molecules including vitamin D (1,25- dihydroxyvitamin D3) receptor (VDR), SMAD family member 9 (SMAD9), v-kit Hardy-Zuckerman 4 feline sarcoma viral oncogene homolog (KIT), and RXRG. Conclusions: This is one of the first studies using whole-transcript expression arrays to compare expression profiles between FVPTCs and FAs. A set of differentially expressed genes has been identified that contains valuable candidate genes to differentiate both histopathologically related tumor types on the molecular level. 
ISSN : 1471-2164 
Journal Name : BMC genomics 
Volume : 16 
Issue Number : 1 
Publishing Year : 1437 AH
2016 AD 
Article Type : Article 
Added Date : Wednesday, October 5, 2016 

Researchers

Researcher Name (Arabic)Researcher Name (English)Researcher TypeDr GradeEmail
Hans-Juergen SchultenSchulten, Hans-Juergen InvestigatorDoctoratehschulten@kau.edu.sa
Ibtisam BaghallabBaghallab, Ibtisam ResearcherMaster 
Nadia BagatianBagatian, Nadia ResearcherMaster 
Ohoud SubhiSubhi, Ohoud Researcher  
Sajjad KarimKarim, Sajjad ResearcherDoctorate 
Mohammad Al-QahtaniAl-Qahtani, Mohammad ResearcherDoctorate 
Zuhoor Al-MansouriAl-Mansouri, Zuhoor Researcher  
Hosam Al-AradatiAl-Aradati, Hosam Researcher  
Abdulmonem Al-MutawaAl-Mutawa, Abdulmonem Researcher  
Jaudah Al-MaghrabiAl-Maghrabi, Jaudah ResearcherDoctorate 
Adel JoharyJohary, Adel Researcher  
Abdulrahman MeccawyMeccawy, Abdulrahman Researcher  
Khalid Al-GhamdiAl-Ghamdi, Khalid Researcher  
Osman Al-HamourAl-Hamour, Osman Researcher  

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