Simultaneous Detection of Different MicroRNA Types Using the ZIP-Code Array System

Table 4

Validation of DNA microarray-based miRNA detection in human cells. Mature and precursor miRNA detection in HeLa cells by DNA microarray, validation of array signals by comparison to qRT-PCR data and/or comparison to literature data for mature miRNAs. The presence of individual miRNAs (Figure 7) was determined based on array signal intensity (threshold 190 a.u., according to Figure 3(a)) or qRT-PCR Ct values equal or below a threshold Ct value of 34.65 (corresponding to 2.4 × 10² copies).

miRBase ID	Internal ZIP ID	Mature/precursor miRNA	Presence of miRNA according to DNA microarray results	Presence of miRNA according to qRT-PCR (average Ct value from triplicates)	Presence of miRNA according to Reference
hsa-miR-9-5p	mi-9_ZIP A	Mature	No	Yes (33.1)	No [38, 39]
hsa-mir-9-3	mi-9_ZIP B	Precursor	Yes	No (>40.0)
hsa-miR-16-5p	mi-16_ZIP C	Mature	Yes	Yes (18.1)
hsa-mir-16-1	mi-16_ZIP D	Precursor	Yes	Yes (34.6)
hsa-miR-92a-3p	mi-92_ZIP E	Mature	No	n.d.	No [39]
hsa-mir-92a-1	mi-92_ZIP F	Precursor	Yes	n.d.	n/a
hsa-miR-100-5p	mi-100_ZIP G	Mature	Yes	n.d.	Yes [40]
hsa-mir-100	mi-100_ZIP H	Precursor	Yes	n.d.	n/a
hsa-miR-19b-3p	mi-19b_ZIP I	Mature	No	n.d.	No [39, 40]
hsa-mir-19b-1	mi-19b_ZIP K	Precursor	Yes	n.d.	n/a
hsa-miR-139-5p	mi-139_ZIP L	Mature	Yes	n.d.	Yes [40]
hsa-mir-139	mi-139_ZIP M	Precursor	Yes	n.d.	n/a
hsa-miR-29a-3p	mi-29a_ZIP N	Mature	No	n.d.	No [39, 40]
hsa-mir-29a	mi-29a_ZIP O	Precursor	Yes	n.d.	n/a
hsa-miR-199b-5p	mi-199b_ZIP P	Mature	Yes	Yes (31.4)
hsa-mir-199b	mi-199b_ZIP Q	Precursor	Yes	Yes (32.0)
hsa-miR-99a-5p	mi-99a_ZIP R	Mature	Yes	Yes (21.1)
hsa-mir-99a	mi-99a_ZIP S	Precursor	Yes	Yes (33.4)