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Table 3 Low RNA-yield clinical specimens: Nanodrop RNA 260/280 ratio, aRNA concentration and GeneChip QC metrics

From: Translating a gene expression signature for multiple myeloma prognosis into a robust high-throughput assay for clinical use

Case number Specimen type Post-sort no. of CD138+ cells RNA conc. (ng/μL) aRNA conc. (ng/μL) Chip QC Metrics (Fail, Warning, Pass) Pass/Fail Chip QC
RE13-000082 Archival samples with low yield 36,000 11.0 1506.1 0,1,6 Pass
RE13-000079 Archival samples with low yield 32,000 5.3 708.6 0,1,6 Pass
RE13-000080 Archival samples with low yield 1,896,000 6.4 689.7 0,1,6 Pass
RE13-000076 Archival samples with low yield 40,000 3.1 545.1 0,1,6 Pass
RE13-000092 Fresh sample with low yield 22,000 10.4 533 0,0,7 Pass
RE13-000074 Archival samples with low yield 80,000 10.8 455.7 0,1,6 Pass
RE13-000063 Archival samples with low yield 76,000 8.1 426.4 0,0,7 Pass
RE13-000077 Archival samples with low yield 90,000 6.1 410.1 0,1,6 Pass
RE13-000089 Fresh sample with low yield 32,000 9.1 383.3 0,0,7 Pass
RE13-000064 Archival samples with low yield 180,000 5.5 339.9 0,1,6 Pass
RE13-000073 Archival samples with low yield 43,000 10.4 311.1 0,0,7 Pass
RE13-000075 Archival samples with low yield 80,000 2.4 304 0,1,6 Pass
RE13-000066 Archival samples with low yield 18,000 6.9 290.4 0,1,6 Pass
RE13-000085 Fresh sample with low yield 23,000 13.3 286 0,1,6 Pass
RE13-000069 Archival samples with low yield 24,000 8.3 281.1 0,1,6 Pass
RE13-000088 Fresh sample with low yield 20,000 9.6 227.8 0,1,6 Pass
RE13-000081 Archival samples with low yield 692,000 8.2 361.7 3,2,2 Fail
RE13-000084 Fresh sample with low yield 36,000 5.8 341.6 1,0,6 Fail
RE13-000067 Archival samples with low yield 188,000 6.2 271.2 0,3,4 Fail
RE13-000068 Archival samples with low yield 470,000 7.7 263.3 2,1,4 Fail
RE13-000071 Archival samples with low yield 20,000 7.7 254.6 0,3,4 Fail
RE13-000061 Archival samples with low yield 60,000 3.1 220 0,3,4 Fail
RE13-000083 Archival samples with low yield 192,000 5.4 215.5 2,4,1 Fail
RE13-000078 Archival samples with low yield 17,000 3.4 214.6 1,2,4 Fail
RE13-000065 Archival samples with low yield 36,000 5.5 208.4 1,2,4 Fail
RE13-000090 Fresh sample with low yield 18,000 4.8 166.6 0,3,4 Fail
RE13-000091 Fresh sample with low yield 9,000 6.2 144.7 0,3,4 Fail
RE13-000062 Archival samples with low yield 10,000 2.4 122.8 2,3,2 Fail
RE13-000070 Archival samples with low yield 30,000 2.5 100.5 3,2,2 Fail
RE13-000086 Fresh sample with low yield 5,000 0.9 94.5 1,5,1 Fail
  1. Values in bold type correspond to those passing the minimum acceptance threshold. Hybridization success is predicted using post-sort number of cells (>20,000) RNA concenctration (> = 3 ng/μL) and aRNA concentration (> = 280 ng/μL).