Expression of 1-1-8.3.14.13
Experiment: Wild type tomato fruit development (set 1)
| hybridization | ratio | FDR (corrected p value) |
|---|
| 17DAP/7DAP | 1.22501 | 0.428 |
| 27DAP/17DAP | 0.99633 | 1 |
| 39DAP/27DAP | 1.07465 | 0.893 |
| 41DAP/39DAP | 1.0635 | 0.978 |
| 42DAP/41DAP | 1.52359 | 0.642 |
| 43DAP/42DAP | 0.93874 | 0.863 |
| 47DAP/43DAP | 1.29379 | 0.595 |
| 52DAP/47DAP | 0.80908 | 0.515 |
| 57DAP/52DAP | 1.03946 | 1 |
Experiment: Wild type tomato fruit development (set 2)
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 0.92083 | 0.132 |
| 17DAP/reference | 1.01892 | 0.631 |
| 27DAP/reference | 1.06136 | 0.2 |
| 39DAP/reference | 1.07317 | 0.174 |
| 41DAP/reference | 0.99148 | 0.814 |
| 42DAP/reference | 0.98458 | 0.359 |
| 43DAP/reference | 0.97638 | 0.691 |
| 47DAP/reference | 1.00859 | 1 |
| 52DAP/reference | 0.90159 | 0.172 |
| 57DAP/reference | 1.05433 | 1 |
Experiment: tomato Never-ripe mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 17DAP/7DAP | 0.99562 | 0.871 |
| 27DAP/17DAP | 1.0232 | 0.924 |
| 39DAP/27DAP | 0.96478 | 0.737 |
| 41DAP/39DAP | 1.05889 | 0.623 |
| 42DAP/41DAP | 1.02803 | 0.991 |
| 43DAP/42DAP | 1.00457 | 0.788 |
| 47DAP/43DAP | 1.05325 | 0.641 |
| 52DAP/47DAP | 0.95152 | 0.6 |
| 57DAP/52DAP | 0.9732 | 0.73 |
| 57DAP/7DAP | 0.98106 | 1 |
Experiment: tomato rin mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 0.9128 | 0.077 |
| 17DAP/reference | 0.92355 | 0.013 |
| 27DAP/reference | 0.94834 | 0.042 |
| 39DAP/reference | 0.99861 | 0.745 |
| 41DAP/reference | 0.96966 | 0.235 |
| 42DAP/reference | 0.92971 | 0.034 |
| 43DAP/reference | 0.93366 | 0.044 |
| 47DAP/reference | 0.94861 | 0.293 |
| 52DAP/reference | 0.87851 | 0.026 |
| 57DAP/reference | 0.86069 | 0.023 |
Experiment: tomato nor mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 0.8839 | 0.032 |
| 17DAP/reference | 0.955 | 0.083 |
| 27DAP/reference | 0.93015 | 0.119 |
| 39DAP/reference | 0.82239 | 0.095 |
| 41DAP/reference | 0.85995 | 0.071 |
| 42DAP/reference | 0.95173 | 0.355 |
| 43DAP/reference | 0.93568 | 0.404 |
| 47DAP/reference | 1.02382 | 0.751 |
| 52DAP/reference | 0.98334 | 0.5 |
| 57DAP/reference | 0.95802 | 0.318 |
Experiment: tomato hp1 mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 0.91059 | 0.077 |
| 17DAP/reference | 0.93544 | 0.313 |
| 27DAP/reference | 0.95547 | 0.23 |
| 39DAP/reference | 0.95097 | 0.043 |
| 41DAP/reference | 0.93582 | 0.086 |
| 42DAP/reference | 0.90216 | 0.087 |
| 43DAP/reference | 0.93544 | 0.305 |
| 47DAP/reference | 1.01991 | 0.994 |
| 52DAP/reference | 1.01646 | 1 |
| 57DAP/reference | 0.89523 | 0.165 |
Experiment: Wild type pepper fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 20DAP/14DAP | 0.96807 | 0.997 |
| 26DAP/20DAP | 1.01212 | 1 |
| 34DAP/26DAP | 1.12039 | 0.819 |
| 51DAP/34DAP | 1.07096 | 0.524 |
| 52DAP/51DAP | 0.97866 | 1 |
| 53DAP/52DAP | 1.00439 | 1 |
| 55DAP/53DAP | 1.04174 | 0.842 |
| 57DAP/55DAP | 1.11197 | 0.682 |
| 62DAP/57DAP | 0.86771 | 0.162 |
| 68DAP/62DAP | 1.28992 | 0.616 |
| 68DAP/14DAP | 0.82444 | 0.375 |
Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
| hybridization | ratio | FDR (corrected p value) |
|---|
| Tomato Breaker/Pepper Breaker | 1.16942 | 0.028 |
Experiment: Solanaceae fruit comparison
| hybridization | ratio | FDR (corrected p value) |
|---|
| Green Pepper/Ripe Pepper | 0.87318 | 0.371 |
| Mature Green Tomato/Ripe Tomato | 1.0292 | 0.948 |
| Immature Eggplant/Mature Eggplant | 1.63205 | 0.05 |
| Ripe Pepper/Ripe Tomato | 0.88465 | 1 |
| Mature Eggplant/Ripe Tomato | 0.77619 | 1 |
Experiment: IL carotenoid
| hybridization | ratio | FDR (corrected p value) |
|---|
| 11-1/M82 | 0.95988 | 0.944 |
| 1-1-2/M82 | 1.06036 | 1 |
| 12-2/M82 | 0.95954 | 0.955 |
| 12-4/M82 | 0.98849 | 1 |
| 1-3/M82 | 0.98605 | 1 |
| 2-1-1/M82 | 1.02739 | 1 |
| 2-1/M82 | 1.16613 | |
| 2-6/M82 | 1.00115 | 1 |
| 3-2/M82 | 1.04124 | 0.426 |
| 4-1-1/M82 | 0.98348 | 1 |
| 4-1/M82 | 1.30939 | 0.512 |
| 4-3-2/M82 | 0.97336 | 1 |
| 4-3/M82 | 1.02709 | 1 |
| 5-3/M82 | 1.06714 | 1 |
| 6-2/M82 | 1.06188 | 1 |
| 6-3/M82 | 0.95765 | 0.982 |
| 7-1/M82 | 0.94434 | 1 |
| 7-2/M82 | 1.0087 | 1 |
| 9-3-2/M82 | 1.03065 | 1 |
Experiment: Tomato introgression line transcript analysis
| hybridization | ratio | FDR (corrected p value) |
|---|
| IL4-4/WTpooled | 1.0366 | 1 |
| IL2-6/WTpooled | 0.63607 | 0.337 |
| IL7-5/WTpooled | 0.84491 | 1 |
| IL7-3/WTpooled | 1.15771 | 1 |
| IL12-4/WTpooled | 1.01458 | 1 |
| IL1-4/WTpooled | 0.6905 | 0.415 |
| WT/WTpooled | 0.99102 | 1 |
Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants
| hybridization | ratio | FDR (corrected p value) |
|---|
| 10 h post inoculation | 1.17267 | 0.699 |
Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
| hybridization | ratio | FDR (corrected p value) |
|---|
| DC3000/delat hrp 0h | 0.90573 | 0.941 |
| DC3000/delta hrp 6h | 1.28051 | 1 |
| DC3000/delta hrp 12h | 1.03503 | 1 |
| DC3000/delta hrp 24h | 0.94179 | 0.503 |
Experiment: DC3000 effector mutants
| hybridization | ratio | FDR (corrected p value) |
|---|
| DC3000 delta A/DC3000 delta AB | 0.96413 | 1 |
| DC3000 delta B/DC3000 delta AB | 1.06311 | 0.539 |
Experiment: Matt's wild cherry tomato vs. Phytophthora infestans
| hybridization | ratio | FDR (corrected p value) |
|---|
| Exp 12h | 1.09702 | 1 |
| Exp 36h | 1.47812 | 0.693 |
| Exp 60h | 1.19669 | 0.399 |
Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field
| hybridization | ratio | FDR (corrected p value) |
|---|
| self-self | 0.97455 | 1 |
| Var 0h | 0.99915 | 0.936 |
| Var 12h I row2-row1 | 1.00813 | 1 |
| Var 12h NI row2-row1 | 0.92984 | 0.627 |
| Var 36h I row2-row1 | 1.19511 | 0.601 |
| Var 36h NI row2-row1 | 0.93996 | 0.706 |
| Var 60h I row2-row1 | 1.10064 | 0.562 |
| Var 60h NI row2-row1 | 0.98515 | 0.866 |
| Time course 0hI-0hNI | 0.9459 | 0.404 |
| Time course 12hI-12hNI | 1.00799 | 0.854 |
| Time course 36hI-36hNI | 1.14008 | 0.063 |
| Time course 60hI-60hNI | 1.06012 | 0.216 |
Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls
| hybridization | ratio | FDR (corrected p value) |
|---|
| transgenic ySAMdc/azygous control (mature green) | 0.97367 | 0.662 |
| transgenic ySAMdc/azygous control (breaker) | 0.67153 | 0.15 |
| transgenic ySAMdc/azygous control (red) | 1.08717 | 1 |
Experiment: Tomato root culture and Al treatment
| hybridization | ratio | FDR (corrected p value) |
|---|
| Al-treated/control | 1.02152 | 0.273 |
Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings
| hybridization | ratio | FDR (corrected p value) |
|---|
| salt-treated/no salt | 0.64746 | 0.238 |
Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit
| hybridization | ratio | FDR (corrected p value) |
|---|
| Manapal/WT (mature green) | 0.81716 | 0.172 |
| Manapal/WT (break) | 0.76881 | 1 |
| Manapal/WT (red) | 0.84801 | 0.199 |
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