Microarray and deep sequencing cross-platform analysis of the mirRNome and isomiR variation in response to epidermal growth factor

Table 1 Top concordant regulated miRNAs across different platforms

Index rank	hsa-miR	Agilent	Exiqon	Illumina	Adj. p-value	RT-qPCR
1	hsa-miR-29b	1.54	1.40	2.62	0.00	2.73
2	hsa-miR-29a	1.33	1.36	4.90	0.00	3.37
3	hsa-miR-222	1.58	1.32	1.85	0.00	2.56
4	hsa-miR-132	1.47	1.19	2.46	0.01	2.27
5	hsa-miR-221	1.26	1.31	3.94	0.01	3.31
6	hsa-miR-215	1.20	1.22	3.09	0.18	2.35
7	hsa-miR-21	1.11	1.25	2.02	0.35	2.44
8	hsa-miR-7	1.06	1.12	16.75	0.43	1.63

Rankprod analysis identified 8 miRNAs that were found to be concordantly up-regulated in both microarray platforms (Agilent, Exiqon) and by small RNA-seq sequencing (Illumina). The table shows fold changes for each platform and corresponding Rankprod adjusted p-values. Additionally, these miRNAs were validated by RT-qPCR, with relative expression fold changes provided in the last column.

ISSN: 1471-2164