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Table 1 Characteristics of the MPSS and SBS libraries of developing rice seeds

From: Deep sequencing reveals the complex and coordinated transcriptional regulation of genes related to grain quality in rice cultivars

Classification Cypress (PSC) LaGrue (PSL) Ilpumbyeo (PSI) YR15965 (PSY) Nipponbare (PSN)
  MPSS SBS MPSS SBS MPSS SBS MPSS SBS MPSS SBS
Number of reads 1,266,713 3,718,464 1,082,099 2,326,663 1,201,584 3,293,394 1,190,250 2,634,791 1,207,914 4,110,241
Distinct signatures 12,660 103,741 18,297 165,129 17,783 83,071 12,379 77,023 16,499 104,531
Significant signatures 10,099 30,571 14,253 36,335 13,971 25,915 10,402 23,302 13,116 34,165
Non-significant signatures 2,561 73,170 4,044 128,794 3,812 57,156 1,977 53,721 3,383 70,366
1-100 TPM 10,705 101,187 16,280 161,929 15,605 80,069 10,449 74,564 14,486 101,894
101-1,000 TPM 1,783 2,312 1,827 2,896 1,985 2,704 1,741 2,226 1,815 2,389
1,001-10,000 TPM 157 228 177 290 183 284 176 218 186 234
>10,000 TPM 15 14 13 14 10 14 13 15 12 14
Total signatures matched to the Nipponbare genome 10,940 22,872 15,813 17,521 15,276 20,032 10,678 18,313 14,378 28,118
Significant signatures matched to the Nipponbare genome 8,855 (80.9%) 21,582 (94.3%) 12,534 (79.2%) 15,514 (88.5%) 12,313 (80.6%) 19,000 (94.8%) 9,118 (85.3%) 17,477 (95.4%) 11,622 (80.8%) 25,777 (91.6%)
Significant signatures specifically identified by either MPSS or SBS 2,359 22,831 3,869 25,951 5,219 17,163 3,216 16,116 3,669 24,718
Significant signatures identified by both MPSS and SBS 7,740 (77% overlap) 10,384 (73% overlap) 8,752 (62% overlap) 7,186 (70% overlap) 9,447 (72% overlap)