Integration of genome scale data for identifying new players in colorectal cancer

Table 2 Studies that integrated gene and miRNA expression data when studying colorectal cancer

Ref.	Case series		Modulated genes	Modulated miRNA	miRNA/mRNA pairs with opposite expression
	mRNA	miRNA			Predicted	Confirmed
Fu et al[39]	8 couples (1 I, 4 II, 3 III1)	8 couples (1 I, 4 II, 3 III1)	2916 N vs T	32 N vs T	72 miRNA/mRNA	mir-29a/KLF4, miR-224/SFRP2
Vishnubalaji et al[40]	13 couples (5 II, 8 III1)	13 couples (5 II, 8 III1)	3175 N vs T	103 N vs T	794 miRNA (downregulated)/mRNA	miR-26a-5p/EZH2 let-7b-5p/EZH2
Pizzini et al[41]	80 samples (23 NOR, 30 CRC, 27 liver metastasis)	78 samples (23 NOR, 31 CRC, 24 liver metastasis)	12748 N vs T	N vs T	3078 miRNA/mRNA	miR182/ENTPD5, miR-145/c-Myc
Lanza et al[42]	39 couples (23 MSS, 16 MSI-H)	39 couples (23 MSS, 16 MSI-H)	72 MSI-H vs MSS colon cancers	14 MSI-H vs MSS colon cancers		Predictor composed of 27 elements (genes and miRNAs) for distinguishing MSI-H vs MSS
Gattolliat et al[44]	9 NOR, 37 CRA, 9 CRC	5 NOR, 28 CRA, 15 CRC		1 CRC vs NOR, 2 CRA vs NOR, 5 CRA and CRC vs NOR		miR-21/PDCD4, miR-21/MARCKS, miR-200b/ZEB2, miR-15b/BCL2, miR-16/BCL2, miR-21/BCL2
Reid et al[45]	7 public gene expression datasets CRC vs N samples	40 couples (10 A, 10 B, 10 C, 10 D)	7629 N vs T	70 N vs T		miR-1/MET
Ling et al[47]	SW480 cells after miR-224 overexpression (84 metastasis related genes analyzed)	4 CRC with metastasis, 8 CRC without metastasis, SW480, SW620	13 metastasis-related genes down-regulated	4 up in primary metastatic CRCs vs early CRC stages	miR-224/SMAD4 miR-224/CDH1	miR-224/SMAD4

¹Stage. Couple: Tumor tissue matched with its normal colorectal mucosa; CRA: Colorectal adenoma; CRC: Colorectal cancer; NOR: Normal colorectal mucosa.