| Data table header descriptions |
| ID_REF |
|
| FLAG |
Boolean for measurement quality. 1=Feature with inadequate measurements, 0=Feature with good quality measurements |
| VALUE |
same as UNF_VALUE but with flagged values removed |
| Log2_NormalTestisCenteredRatio |
For features with FLAG=0: Log2(SampleRATIO/MedianRATIO of the three Normal testis samples); gives an indication of up- and downregulation in the sample relative to the mRNA level in normal testis |
| RATIO |
For features with FLAG=0: CH1_ProcessedSignal / CH2_ProcessedSignal |
| PositionX |
X-coordinate, pixel position, of feature centroid on the original scan (tif-image) |
| PositionY |
Y-coordinate, pixel position, of feature centroid on the original scan (tif-image) |
| CH1_SurrogateUsed |
The CH1 surrogate value used |
| CH2_SurrogateUsed |
The CH2 surrogate value used |
| CH1_ProcessedSignal |
The propagated CH1 feature signal, used further for computation of ratios and log2ratios |
| CH2_ProcessedSignal |
The propagated CH2 feature signal, used further for computation of ratios and log2ratios |
| CH1_ProcessedSigError |
Standard error of propagated CH1 feature signal |
| CH2_ProcessedSigError |
Standard error of propagated CH2 feature signal |
| CH1_AREA |
Total number of pixels used to compute CH1 feature statistics |
| CH2_AREA |
Total number of pixels used to compute CH2 feature statistics |
| CH1_MEAN |
Raw mean signal of feature in CH1 |
| CH2_MEAN |
Raw mean signal of feature in CH2 |
| CH1_MEDIAN |
Raw median signal of feature in CH1 |
| CH2_MEDIAN |
Raw median signal of feature in CH2 |
| CH1_SD |
Standard deviation of all inlier pixels per CH1 feature |
| CH2_SD |
Standard deviation of all inlier pixels per CH2 feature |
| CH1_BKD_AREA |
Total number of pixels used to compute local CH1 background statistics per spot |
| CH2_BKD_AREA |
Total number of pixels used to compute local CH2 background statistics per spot |
| CH1_BKD_MEAN |
Mean local background CH1 signal (local to corresponding feature) |
| CH2_BKD_MEAN |
Mean local background CH2 signal (local to corresponding feature) |
| CH1_BKD_MEDIAN |
Median local background CH1 signal (local to corresponding feature) |
| CH2_BKD_MEDIAN |
Median local background CH2 signal (local to corresponding feature) |
| CH1_BKD_SD |
Standard deviation of all inlier pixels per local CH1 background of each feature |
| CH2_BKD_SD |
Standard deviation of all inlier pixels per local CH2 background of each feature |
| CH1_NumSatPix |
Total number of CH1 saturated pixels per feature |
| CH2_NumSatPix |
Total number of CH2 saturated pixels per feature |
| CH1_IsSaturated |
Boolean flag indicating if a feature is saturated for CH1 or not. 1=Saturated (>50% of the pixels above the saturation threshold), 0=NotSaturated |
| CH2_IsSaturated |
Boolean flag indicating if a feature is saturated for CH2 or not. 1=Saturated (>50% of the pixels above the saturation threshold), 0=NotSaturated |
| CH1_IsFeatNonUnifOL |
Boolean flag indicating if a feature is a NonUniformity Outlier or not for CH1. 1=The feature is non-uniform in that the pixel noise of feature exceeds a threshold established for a "uniform" feature, 0=Uniform feature |
| CH2_IsFeatNonUnifOL |
Boolean flag indicating if a feature is a NonUniformity Outlier or not for CH2. 1=The feature is non-uniform in that the pixel noise of feature exceeds a threshold established for a "uniform" feature, 0=Uniform feature |
| CH1_IsBGNonUnifOL |
Boolean flag indicating if a feature is a Background NonUniformity Outlier or not for CH1. 1=The background is non-uniform in that the pixel noise of feature background exceeds a threshold established for a "uniform" background, 0=Uniform background |
| CH2_IsBGNonUnifOL |
Boolean flag indicating if a feature is a Background NonUniformity Outlier or not for CH2. 1=The background is non-uniform in that the pixel noise of feature background exceeds a threshold established for a "uniform" background, 0=Uniform background |
| CH1_IsFeatPopnOL |
Boolean flag indicating if a feature is a Population Outlier or not for CH1. Probes with replicate features on the microarray were examined using population statistics. 1=IsPopulationOutlier, 0=IsNotPopulationOutlier |
| CH2_IsFeatPopnOL |
Boolean flag indicating if a feature is a Population Outlier or not for CH2. Probes with replicate features on the microarray were examined using population statistics. 1=IsPopulationOutlier, 0=IsNotPopulationOutlier |
| CH1_BGSubSignal |
The net CH1 signal following the subtraction of the CH1 background from the raw mean CH1 signal |
| CH2_BGSubSignal |
The net CH2 signal following the subtraction of the CH2 background from the raw mean CH2 signal |
| CH1_BGSubSigError |
Propagated standard error as computed on net CH1 background subtracted signal |
| CH2_BGSubSigError |
Propagated standard error as computed on net CH2 background subtracted signal |
| CH1_IsWellAboveBG |
Boolean flag indicating if CH1 for a feature is WellAbove Background or not. 1=WellAboveBackground, 0=NotWellAboveBackground |
| CH2_IsWellAboveBG |
Boolean flag indicating if CH2 for a feature is WellAbove Background or not. 1=WellAboveBackground, 0=NotWellAboveBackground |
| IsNormalization |
A boolean flag which indicates if a feature is used to measure dye bias. 1=Feature used, 2=Feature not used. |
| CH1_DyeNormSignal |
The CH1 dye normalized signal |
| CH2_DyeNormSignal |
The CH2 dye normalized signal |
| CH1_DyeNormError |
The standard error associated with the CH1 dye normalized signal |
| CH2_DyeNormError |
The standard error associated with the CH2 dye normalized signal |
| DyeNormCorrelation |
Dye normalized CH1 and CH2 pixel correlation |
| UNF_VALUE |
Expression level (mRNA abundance) relative to the common universal human reference RNA. Log2(CH1_ProcessedSignal/CH2_Processed signal) |
