Differences in miRNA and mRNA Profile of Papillary Thyroid Cancer Variants

Table 1

Selection of 10 top scoring putative miRNA regulations in PTC, fvPTC, and tcPTC. Selected Spearman correlations of mRNAs and miRNAs were calculated independently in cPTC (321 samples), fvPTC (99 samples), and tcPTC (35 samples) datasets. All shown correlations were predicted by two used prediction tools: miRanda and TargetScan as putative miRNA regulations. Top 10 from each type of thyroid cancer (cPTC, fvPTC, and tcPTC) were ranked by correlation coefficient value and 10 lowest correlations are shown for each dataset (cPTC, fvPTC, and tcPTC). In columns from left, “regulation name,” assigned name of correlation; “correlation ,” correlation coefficient value (Spearman); “Correlation FDR,” DR corrected value of correlation; “mature miRNA,” mature miRNA name; “confirmed by TargetRank,” stating that if regulation is confirmed by TargetRank (rank and score in the parenthesis); “gene symbol,” HGNC symbol of gene in correlation; and “gene name,” HGNC official full name.

Regulation name	Correlation	Correlation FDR	Mature miR	Confirmed by TargetRank	Gene symbol	Gene name
PTC_1	−0.750	<1e − 12	hsa-miR-146b-5p	YES (19, 0.48)	PHKB	Phosphorylase kinase, beta
PTC_2	−0.681	<1e − 12	hsa-miR-146b-5p	NO	TMEM164	Transmembrane protein 164
PTC_3	−0.675	<1e − 12	hsa-miR-204-5p	NO	LAD1	Ladinin 1
PTC_4	−0.670	<1e − 12	hsa-miR-21-5p	NO	BTBD11	BTB (POZ) domain containing 11
PTC_5	−0.662	<1e − 12	hsa-miR-874-3p	YES (36, 0.39)	ITGB4	Integrin, beta 4
PTC_6	−0.657	<1e − 12	hsa-miR-204-5p	NO	ERBB3	v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 3
PTC_7	−0.657	<1e − 12	hsa-miR-30c-2-3p	NO	EHBP1L1	EH domain binding protein 1-like 1
PTC_8	−0.655	<1e − 12	hsa-miR-146b-5p	YES (44, 0.41)	IRAK1	Interleukin-1 receptor-associated kinase 1
PTC_9	−0.655	<1e − 12	hsa-miR-30a-3p	NO	TNFSF11	Tumor necrosis factor (ligand) superfamily, member 11
PTC_10	−0.653	<1e − 12	hsa-miR-30c-2-3p	NO	RAP2B	RAP2B, member of RAS oncogene family
PTC_11	−0.653	<1e − 12	hsa-miR-146b-5p	NO	DNTT	DNA nucleotidylexotransferase
PTC_12	−0.653	<1e − 12	hsa-miR-146b-5p	NO	FHOD3	Formin homology 2 domain containing 3
PTC_13	−0.652	<1e − 12	hsa-miR-204-5p	NO	POU2F3	POU class 2 homeobox 3
fvPTC_1	−0.786	<1e − 12	hsa-miR-874-3p	NO	LASP1	LIM and SH3 protein 1
fvPTC_2	−0.729	<1e − 12	hsa-miR-484	NO	MET	met protooncogene
fvPTC_3	−0.724	<1e − 12	hsa-miR-152-3p	NO	LIPH	Lipase, member H
fvPTC_4	−0.714	<1e − 12	hsa-miR-874-3p	NO	SHF	Src homology 2 domain containing F
fvPTC_5	−0.714	<1e − 12	hsa-miR-874-3p	NO	LMNA	Lamin A/C
fvPTC_6	−0.709	3.89e – 12	hsa-miR-152-3p	NO	QSOX1	Quiescin Q6 sulfhydryl oxidase 1
fvPTC_7	−0.708	3.89e − 12	hsa-miR-152-3p	NO	PRR15	Proline rich 15
fvPTC_8	−0.707	6.83e − 12	hsa-miR-148b-3p	NO	CD276	CD276 molecule
fvPTC_9	−0.706	6.83e − 12	hsa-miR-874-3p	NO	PTK7	Protein tyrosine kinase 7
fvPTC_10	−0.704	6.83e − 12	hsa-miR-152-3p	NO	CORO2A	Coronin, actin binding protein, 2A
fvPTC_11	−0.704	6.83e − 12	hsa-miR-874-3p	NO	GNAI2	Guanine nucleotide binding protein (G protein), alpha inhibiting activity polypeptide 2
fvPTC_12	−0.703	6.83e − 12	hsa-miR-152-3p	YES (79, 0.38)	TGFA	Transforming growth factor, alpha
tcPTC_1	−0.874	1.02e − 05	hsa-miR-342-5p	NO	KCNG3	Potassium voltage-gated channel, subfamily G, member 3
tcPTC_2	−0.833	0.00018	hsa-miR-7-2-3p	NO	SDC3	Syndecan 3
tcPTC_3	−0.831	0.00020	hsa-miR-454-3p	NO	TBX10	T-box 10