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Table 3 Experimental duplicate layout, read and coverage statistics

From: Target enrichment using parallel nanoliter quantitative PCR amplification

Sample Number of PCR replicates Total number of reads Mapped On target PCR duplicates Amplicon Exon
  Mean coverage Standard deviation Mean coverage Standard deviation
Normal1-duplicate-B 2 951169 97.7% 79.0% 15.6% 542.7 334.9 427.9 409.4
BT-549 2 1031471 97.4% 77.9% 16.6% 567.7 365.2 451.1 436.8
CCRF-CEM 2 894547 97.7% 76.4% 15.2% 498.4 356.9 403.3 413.9
HCT-15 2 826606 97.7% 80.3% 14.0% 486.5 327.9 384.1 387.4
MOLT-4 2 1271883 97.9% 77.3% 17.2% 747.0 460.3 589.9 561.2
HCT116 2 1384151 97.7% 72.0% 21.0% 724.4 524.5 589.1 609.5
Normal1-duplicate-A 2 1608833 97.9% 74.3% 20.6% 877.3 536.2 692.3 658.2
SN12C 2 472237 97.8% 84.7% 9.8% 294.1 199.9 233.5 233.6
IGROV-1 2 672337 97.8% 79.7% 11.6% 404.9 281.6 325.8 329.2
DU-145 2 723007 97.8% 82.1% 12.3% 434.7 273.1 346.9 332.1
MDA-MB-231 2 769668 97.7% 81.2% 13.2% 461.8 315.7 367.6 373.4
OVCAR-5 2 659926 97.3% 81.1% 13.1% 386.5 293.4 308.1 332.7
786-O 2 1167234 97.9% 79.1% 17.2% 684.6 463.9 543.9 549.2
MCF7-B 2 1053960 97.8% 77.8% 17.3% 588.1 398.9 472.1 473.4
PC3 2 566416 97.8% 79.9% 11.5% 329.9 252.1 267.3 287.9
MCF7-A 2 1299077 97.6% 76.0% 19.3% 703.5 465.2 569.0 558.0
RPMI-8226 1 1037872 97.5% 77.2% 16.9% 575.4 394.6 462.1 461.8
Normal2-singleton-A 1 806612 97.7% 79.9% 14.5% 461.2 296.8 367.2 355.5
MCF7 1 1193431 97.6% 75.3% 18.2% 647.8 441.9 515.4 513.5
Normal1-singleton-A 1 1227019 97.9% 74.7% 17.3% 688.5 450.0 543.0 533.9
Normal2-singelton-B 1 571558 97.7% 82.8% 11.3% 340.9 227.4 274.5 268.0
HT-29 1 578229 97.8% 81.7% 11.6% 340.1 243.2 273.1 280.7
Normal1-singleton-B 1 1070055 97.8% 75.9% 15.6% 615.2 393.4 488.2 472.0
ACHN 1 853092 97.8% 79.2% 14.9% 486.6 327.2 387.2 384.2
Mean   945432.9 97.7% 78.6% 15.2% 537.0 359.3 428.4 425.6
Stadard deviation   296401.9 0.1% 3.0% 3.0% 153.0 94.2 121.2 115.0
  1. The number of PCR replicates performed on the capture chip for each target per sample. The number of reads obtained during the sequencing and the coverage this resulted in.