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Table 1 Sensitivity and FPR of SFP detection in barley data.

From: SNEP: Simultaneous detection of nucleotide and expression polymorphisms using Affymetrix GeneChip

Tissue COL
Method SNEP LRT Rosa Greb
Sensitivity 0.579 0.569 0.52 0.506
FPR 0.259 0.299 0.35 0.420
Tissue CRO
Method SNEP LRT Rosa Greb
Sensitivity 0.673 0.636 0.58 0.608
FPR 0.173 0.338 0.34 0.440
Tissue GEM
Method SNEP LRT Rosa Greb
Sensitivity 0.691 0.618 0.63 0.534
FPR 0.153 0.218 0.34 0.314
Tissue LEA
Method SNEP LRT Rosa Greb
Sensitivity 0.574 0.531 0.51 0.524
FPR 0.151 0.273 0.34 0.440
Tissue RAD
Method SNEP LRT Rosa Greb
Sensitivity 0.656 0.623 0.62 0.504
FPR 0.137 0.264 0.34 0.276
  1. The barley data were obtained from the supplementary data at http://naturalvariation.org/barley[10]. COL: coleoptile. CRO: seedling crown. GEM: embryo from germinating seed. LEA: seedling leaf. RAD: radicle (seminal root). The number of replicates was three (K = 3) for each tissue.
  2. Rosa: Method of Rostoks et al. [10]. The corresponding sensitivity and FPR were extracted from Rostoks et al. [10].
  3. Greb: Method of Greenhall et al. [14]. Approximately 10% probes of 2,601 candidate probes were not used when calculating the sensitivity and FPR, because these probes did not meet the authors' selection criteria.
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BMC Bioinformatics

ISSN: 1471-2105

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