Table 1: Sample metadata file for specifying sample names and statistics groups.
The sample column matches the column names of the MaxQuant search output. The enrichment, batch, and pool columns denote phosphoenrichment status, batch number, and pooled reference status. Each sample is given a unique name in the Sample_name column, and designated to a model group for use in statistics testing.
| Sample | Enrichment | Batch | Replicate | Pool | Sample_name | Model_group |
|---|---|---|---|---|---|---|
| Reporter_intensity_corrected_4_TMT1 | Lysate | 0 | 1 | Cell1_DMSO_1 | Cell1_DMSO | |
| Reporter_intensity_corrected_5_TMT1 | Lysate | 0 | 2 | Cell1_DMSO_2 | Cell1_DMSO | |
| Reporter_intensity_corrected_6_TMT1 | Lysate | 0 | 3 | Cell1_DMSO_3 | Cell1_DMSO | |
| Reporter_intensity_corrected_1_TMT1 | Lysate | 0 | 1 | Cell1_inhibitor1_1 | Cell1_inhibitor1 | |
| Reporter_intensity_corrected_2_TMT1 | Lysate | 0 | 2 | Cell1_inhibitor1_2 | Cell1_inhibitor1 | |
| Reporter_intensity_corrected_3_TMT1 | Lysate | 0 | 3 | Cell1_inhibitor1_3 | Cell1_inhibitor1 | |
| Reporter_intensity_corrected_7_TMT1 | Lysate | 0 | 1 | Cell1_inhibitor2_1 | Cell1_inhibitor2 | |
| Reporter_intensity_corrected_8_TMT1 | Lysate | 0 | 2 | Cell1_inhibitor2_2 | Cell1_inhibitor2 | |
| Reporter_intensity_corrected_9_TMT1 | Lysate | 0 | 3 | Cell1_inhibitor2_3 | Cell1_inhibitor2 | |
| Reporter_intensity_corrected_10_TMT1 | Lysate | 0 | POOL | |||
| Reporter_intensity_corrected_4_TMT2 | Lysate | 1 | 1 | Cell2_DMSO_1 | Cell2_DMSO | |
| Reporter_intensity_corrected_5_TMT2 | Lysate | 1 | 2 | Cell2_DMSO_2 | Cell2_DMSO | |
| Reporter_intensity_corrected_6_TMT2 | Lysate | 1 | 3 | Cell2_DMSO_3 | Cell2_DMSO | |
| Reporter_intensity_corrected_1_TMT2 | Lysate | 1 | 1 | Cell2_inhibitor1_1 | Cell2_inhibitor1 | |
| Reporter_intensity_corrected_8_TMT2 | Lysate | 1 | 2 | Cell2_inhibitor1_2 | Cell2_inhibitor1 | |
| Reporter_intensity_corrected_3_TMT2 | Lysate | 1 | 3 | Cell2_inhibitor1_3 | Cell2_inhibitor1 | |
| Reporter_intensity_corrected_7_TMT2 | Lysate | 1 | 1 | Cell2_inhibitor2_1 | Cell2_inhibitor2 | |
| Reporter_intensity_corrected_2_TMT2 | Lysate | 1 | 2 | Cell2_inhibitor2_2 | Cell2_inhibitor2 | |
| Reporter_intensity_corrected_9_TMT2 | Lysate | 1 | 3 | Cell2_inhibitor2_3 | Cell2_inhibitor2 | |
| Reporter_intensity_corrected_10_TMT2 | Lysate | 1 | POOL | |||
| Reporter_intensity_corrected_4_TMT1phos | Phos | 0 | 1 | Cell1_DMSO_1 | Cell1_DMSO | |
| Reporter_intensity_corrected_5_TMT1phos | Phos | 0 | 2 | Cell1_DMSO_2 | Cell1_DMSO | |
| Reporter_intensity_corrected_6_TMT1phos | Phos | 0 | 3 | Cell1_DMSO_3 | Cell1_DMSO | |
| Reporter_intensity_corrected_1_TMT1phos | Phos | 0 | 1 | Cell1_inhibitor1_1 | Cell1_inhibitor1 | |
| Reporter_intensity_corrected_2_TMT1phos | Phos | 0 | 2 | Cell1_inhibitor1_2 | Cell1_inhibitor1 | |
| Reporter_intensity_corrected_3_TMT1phos | Phos | 0 | 3 | Cell1_inhibitor1_3 | Cell1_inhibitor1 | |
| Reporter_intensity_corrected_7_TMT1phos | Phos | 0 | 1 | Cell1_inhibitor2_1 | Cell1_inhibitor2 | |
| Reporter_intensity_corrected_8_TMT1phos | Phos | 0 | 2 | Cell1_inhibitor2_2 | Cell1_inhibitor2 | |
| Reporter_intensity_corrected_9_TMT1phos | Phos | 0 | 3 | Cell1_inhibitor2_3 | Cell1_inhibitor2 | |
| Reporter_intensity_corrected_10_TMT1phos | Phos | 0 | POOL | |||
| Reporter_intensity_corrected_4_TMT2phos | Phos | 1 | 1 | Cell2_DMSO_1 | Cell2_DMSO | |
| Reporter_intensity_corrected_5_TMT2phos | Phos | 1 | 2 | Cell2_DMSO_2 | Cell2_DMSO | |
| Reporter_intensity_corrected_6_TMT2phos | Phos | 1 | 3 | Cell2_DMSO_3 | Cell2_DMSO | |
| Reporter_intensity_corrected_1_TMT2phos | Phos | 1 | 1 | Cell2_inhibitor1_1 | Cell2_inhibitor1 | |
| Reporter_intensity_corrected_8_TMT2phos | Phos | 1 | 2 | Cell2_inhibitor1_2 | Cell2_inhibitor1 | |
| Reporter_intensity_corrected_3_TMT2phos | Phos | 1 | 3 | Cell2_inhibitor1_3 | Cell2_inhibitor1 | |
| Reporter_intensity_corrected_7_TMT2phos | Phos | 1 | 1 | Cell2_inhibitor2_1 | Cell2_inhibitor2 | |
| Reporter_intensity_corrected_2_TMT2phos | Phos | 1 | 2 | Cell2_inhibitor2_2 | Cell2_inhibitor2 | |
| Reporter_intensity_corrected_9_TMT2phos | Phos | 1 | 3 | Cell2_inhibitor2_3 | Cell2_inhibitor2 | |
| Reporter_intensity_corrected_10_TMT2phos | Phos | 1 | POOL |