Table 1.
Alignment reference | Condition | Total aligned reads (x 1000) | Quantified reads (x1000) | # of Unique miRNA quantitated |
---|---|---|---|---|
a. RefSeq quantitation | ||||
Whole Genome | NSC | 3,482 ± 434 | 2,735 ± 320 | 1776 |
sip63 | 2,979 ± 487 | 2,328 ± 406 | 1816 | |
RefSeq | NSC | 2,681 ± 292 | 2,681 ± 292 | 1874 |
sip63 | 2,295 ± 398 | 2,295 ± 398 | 1873 | |
miRBase | NSC | 676 ± 113 | 676 ± 116 | 1802 |
sip63 | 526 ± 138 | 526 ± 138 | 1806 | |
b. miRBase quantitation | ||||
Whole Genome | NSC | 3,482 ± 434 | 1,039 ± 59 | 1327 |
sip63 | 2,979 ± 487 | 661 ± 124 | 1309 | |
RefSeq | NSC | 2,681 ± 292 | 1,080 ± 59 | 2241 |
sip63 | 2,295 ± 398 | 705 ± 130 | 2276 | |
miRBase | NSC | 676 ± 116 | 676 ± 116 | 2582 |
sip63 | 526 ± 138 | 526 ± 138 | 2586 |
Raw reads from NSC or sip63 samples trimmed to a fixed length based on quality score were aligned to the whole genome, RefSeq, or miRBase references and quantitated using either (a) RefSeq or (b) miRBase reference. The total number of aligned reads indicate the total number available for quantitation. The number of quantified and unique reads obtained using each of these methods is also indicated.