Experiment Visualization: 
Boxplots, Histogram and RNA Degeneration Curve:
1. Boxplot of raw Perfect match(PM) probe intensities: The raw PM intensity change in distribution for different hybridizations.
2. Boxplot of RMA expression values (log2-scale): The distribution of RMA expression values for different hybridizations.
3. Boxplot of Affymetrix MAS5.0 expression (log2-scale): The distribution of Affymetrix MAS5.0 expression values for different hybridizations.
4. Histogram of raw PM intensities: The raw PM intensity change in distribution for different hybridizations.
5. RNA digestion plot: The raw PM intensity change with regard to probe pairs from 5' to 3'.
*Visualize hybridizations by scatter plots and MVA plots
Check table below for more details on hybridizations. Click a hybridization link for their Full Details
Information of Hybridizations from BB1
 | | | | | | | ||||
|---|---|---|---|---|---|---|---|---|---|---|
| Hybridization | T | REP | Factor 1: species | File_Name | Sample_ID & Name | Download Individual Data File | ||||
| 1 BB1_H1 | 1 | 1 | Barley | 0308-6 | BB1_S1 Expt# 11666-10 | |||||
| 2 BB1_H2 | 1 | 2 | Barley | 0315-6 | BB1_S2 Expt # 11771-6 | |||||
| 3 BB1_H3 | 2 | 1 | Wheat | 0308-1 | BB1_S3 Expt# 11666-1 | |||||
| 4 BB1_H4 | 2 | 2 | Wheat | 0315-5 | BB1_S4 Expt# 11771-5 | |||||
| 5 BB1_H5 | 3 | 1 | Oat | 0308-5 | BB1_S5 Expt# 11666-8 | |||||
| 6 BB1_H6 | 3 | 2 | Oat | 0315-4 | BB1_S6 Expt# 11771-4 | |||||
| 7 BB1_H7 | 4 | 1 | Sorghum | 0308-3 | BB1_S7 Expt# 11666-5 | |||||
| 8 BB1_H8 | 4 | 2 | Sorghum | 0315-2 | BB1_S8 Expt # 11771-2 | |||||
| 9 BB1_H9 | 5 | 1 | Corn | 0308-4 | BB1_S9 Expt# 11666-7 | |||||
| 10 BB1_H10 | 5 | 2 | Corn | 0315-3 | BB1_S10 Expt# 11771-3 | |||||
| 11 BB1_H11 | 6 | 1 | Rice | 0308-2 | BB1_S11 Expt# 11666-2 | |||||
| 12 BB1_H12 | 6 | 2 | Rice | 0315-1 | BB1_S12 Expt # 11771-1 | |||||
| T= Treatment; REP = Replicate | ||||||||||
Expression Summary Statistic by Hybridization:
| | | | | | | | | |
|---|---|---|---|---|---|---|---|---|
| Hybridization | T | REP | Min. | 1st Qu. | Median | Mean | 3rd Qu. | Max |
| 1 BB1_H1 | 1 | 1 | 9.506e-02 9.506e-02 | 5.480e+01 5.480e+01 | 1.797e+02 1.797e+02 | 7.894e+02 7.894e+02 | 5.172e+02 5.172e+02 | 4.233e+04 4.233e+04 |
| 2 BB1_H2 | 1 | 2 | 0.021 0.021 | 57.490 57.490 | 181.300 181.300 | 735.600 735.600 | 525.600 525.600 | 35530.000 35530.000 |
| 3 BB1_H3 | 2 | 1 | 1.154e-01 1.154e-01 | 2.503e+01 2.503e+01 | 8.553e+01 8.553e+01 | 3.293e+02 3.293e+02 | 2.048e+02 2.048e+02 | 3.661e+04 3.661e+04 |
| 4 BB1_H4 | 2 | 2 | 1.591e-01 1.591e-01 | 2.057e+01 2.057e+01 | 6.919e+01 6.919e+01 | 2.760e+02 2.760e+02 | 1.640e+02 1.640e+02 | 3.678e+04 3.678e+04 |
| 5 BB1_H5 | 3 | 1 | 6.226e-02 6.226e-02 | 1.874e+01 1.874e+01 | 6.161e+01 6.161e+01 | 1.388e+02 1.388e+02 | 1.348e+02 1.348e+02 | 2.577e+04 2.577e+04 |
| 6 BB1_H6 | 3 | 2 | 0.184 0.184 | 14.680 14.680 | 48.890 48.890 | 129.800 129.800 | 113.500 113.500 | 26680.000 26680.000 |
| 7 BB1_H7 | 4 | 1 | 8.607e-02 8.607e-02 | 1.801e+01 1.801e+01 | 5.697e+01 5.697e+01 | 1.253e+02 1.253e+02 | 1.336e+02 1.336e+02 | 3.414e+04 3.414e+04 |
| 8 BB1_H8 | 4 | 2 | 1.332e-01 1.332e-01 | 1.643e+01 1.643e+01 | 4.995e+01 4.995e+01 | 1.154e+02 1.154e+02 | 1.166e+02 1.166e+02 | 3.246e+04 3.246e+04 |
| 9 BB1_H9 | 5 | 1 | 0.117 0.117 | 21.080 21.080 | 68.440 68.440 | 148.600 148.600 | 161.700 161.700 | 35460.000 35460.000 |
| 10 BB1_H10 | 5 | 2 | 1.425e-01 1.425e-01 | 3.357e+01 3.357e+01 | 7.442e+01 7.442e+01 | 1.470e+02 1.470e+02 | 1.624e+02 1.624e+02 | 2.654e+04 2.654e+04 |
| 11 BB1_H11 | 6 | 1 | 2.038e-01 2.038e-01 | 1.714e+01 1.714e+01 | 5.437e+01 5.437e+01 | 1.113e+02 1.113e+02 | 1.210e+02 1.210e+02 | 3.276e+04 3.276e+04 |
| 12 BB1_H12 | 6 | 2 | 6.724e-02 6.724e-02 | 1.102e+01 1.102e+01 | 3.453e+01 3.453e+01 | 8.488e+01 8.488e+01 | 7.812e+01 7.812e+01 | 3.102e+04 3.102e+04 |
| T= Treatment; REP = Replicate; For each cell of statistic, upper row (red) is for MAS 5.0 and lower row (blue) is for RMA estimation. | ||||||||