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Table 1 True and false positive rates (TPR and FPR, respectively) for different log ratio [log2(mutant PM probe intensity/wild type PM probe intensity)] and (a) proportion (probes flagged/total probes in probe set).

From: Detection of genomic deletions in rice using oligonucleotide microarrays

Log2 ratio

Proportion

TPRb

FPR1c

FPR2d

-0.6

0.4

0.833

0.012

0.0015

-0.6

0.5

0.800

0

< 0.0001

-0.6

0.6

0.767

0

0

-0.6

0.7

0.600

0

0

-0.8

0.3

0.833

0

0.001

-0.8

0.4

0.833

0

0.0002

-0.8

0.5

0.767

0

< 0.0001

-0.8

0.6

0.633

0

0

-1

0.3

0.833

0

0.0002

-1

0.4

0.800

0

< 0.0001

-1

0.5

0.667

0

0

-1

0.6

0.600

0

0

  1. aAnalysis based on PCR confirmation 30 deletions and 82 non-deletions using primers described in Additional file 3.
  2. bTPR was calculated as the proportion of PCR-confirmed deletions that are correctly called by the analysis.
  3. cFPR1 is the proportion of PCR-confirmed non-deletions, that are correctly called deleted by the analysis.
  4. dFPR2 is the proportion of probe sets meeting defined log ratio and proportion combinations for the wild type replicates, i.e., log2(WT1/WT2) and for log2(WT2/WT1).