Expression of 1-1-1.4.10.20
Experiment: Wild type tomato fruit development (set 1)
| hybridization | ratio | FDR (corrected p value) |
|---|
| 17DAP/7DAP | 1.35115 | 0.838 |
| 27DAP/17DAP | 1.05237 | 1 |
| 39DAP/27DAP | 6.08094 | 0.02 |
| 41DAP/39DAP | 0.87637 | 0.524 |
| 42DAP/41DAP | 1.09778 | 0.949 |
| 43DAP/42DAP | 1.69638 | 0.993 |
| 47DAP/43DAP | 0.69995 | 0.203 |
| 52DAP/47DAP | 0.7556 | 0.407 |
| 57DAP/52DAP | 0.83382 | 0.666 |
Experiment: Wild type tomato fruit development (set 2)
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 1.35927 | 0.037 |
| 17DAP/reference | 0.80405 | 0.035 |
| 27DAP/reference | 0.82529 | 0.041 |
| 39DAP/reference | 0.90102 | 0.36 |
| 41DAP/reference | 0.83008 | 0.065 |
| 42DAP/reference | 1.77587 | 0.001 |
| 43DAP/reference | 1.3054 | 0.008 |
| 47DAP/reference | 1.23426 | 0.034 |
| 52DAP/reference | 0.80984 | 0.064 |
| 57DAP/reference | 0.92084 | 0.106 |
Experiment: tomato Never-ripe mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 17DAP/7DAP | 0.6636 | 0.045 |
| 27DAP/17DAP | 1.18249 | 0.32 |
| 39DAP/27DAP | 1.68765 | 0.054 |
| 41DAP/39DAP | 1.7207 | 0.326 |
| 42DAP/41DAP | 0.89321 | 0.368 |
| 43DAP/42DAP | 1.19152 | 0.25 |
| 47DAP/43DAP | 1.29983 | 0.094 |
| 52DAP/47DAP | 0.66984 | 0.072 |
| 57DAP/52DAP | 1.00223 | 0.848 |
| 57DAP/7DAP | 1.36508 | 0.249 |
Experiment: tomato rin mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 1.46563 | 0.028 |
| 17DAP/reference | 1.03817 | 0.477 |
| 27DAP/reference | 1.37654 | 0.007 |
| 39DAP/reference | 1.11092 | 0.073 |
| 41DAP/reference | 1.11222 | 0.475 |
| 42DAP/reference | 1.28106 | 0.016 |
| 43DAP/reference | 1.64844 | 0.009 |
| 47DAP/reference | 2.74708 | 0.014 |
| 52DAP/reference | 1.66815 | 0.008 |
| 57DAP/reference | 1.09646 | 0.382 |
Experiment: tomato nor mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 1.20347 | 0.16 |
| 17DAP/reference | 0.82976 | 0.019 |
| 27DAP/reference | 1.44437 | 0.056 |
| 39DAP/reference | 1.06073 | 0.746 |
| 41DAP/reference | 0.9625 | 0.348 |
| 42DAP/reference | 1.09801 | 0.309 |
| 43DAP/reference | 1.20801 | 0.697 |
| 47DAP/reference | 1.24208 | 0.138 |
| 52DAP/reference | 0.72567 | 0.005 |
| 57DAP/reference | 1.20374 | 0.345 |
Experiment: tomato hp1 mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 1.4313 | 0.025 |
| 17DAP/reference | 0.8864 | 0.275 |
| 27DAP/reference | 1.04807 | 0.298 |
| 39DAP/reference | 1.33234 | 0.03 |
| 41DAP/reference | 1.18338 | 0.027 |
| 42DAP/reference | 2.09056 | 0.008 |
| 43DAP/reference | 1.9483 | 0.007 |
| 47DAP/reference | 1.16555 | 0.239 |
| 52DAP/reference | 1.3612 | 0.056 |
| 57DAP/reference | 0.59543 | 0.018 |
Experiment: Wild type pepper fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 20DAP/14DAP | 0.9723 | 1 |
| 26DAP/20DAP | 0.96417 | 1 |
| 34DAP/26DAP | 0.92688 | 0.803 |
| 51DAP/34DAP | 1.02845 | 0.795 |
| 52DAP/51DAP | 1.07672 | 0.596 |
| 53DAP/52DAP | 1.00406 | 1 |
| 55DAP/53DAP | 1.14449 | 0.261 |
| 57DAP/55DAP | 1.05493 | 0.881 |
| 62DAP/57DAP | 1.03252 | 1 |
| 68DAP/62DAP | 0.6958 | 0.042 |
| 68DAP/14DAP | 0.7618 | 0.375 |
Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
| hybridization | ratio | FDR (corrected p value) |
|---|
| Tomato Breaker/Pepper Breaker | 10.1798 | 0.014 |
Experiment: Solanaceae fruit comparison
| hybridization | ratio | FDR (corrected p value) |
|---|
| Green Pepper/Ripe Pepper | 3.29753 | 0.058 |
| Mature Green Tomato/Ripe Tomato | 0.51869 | 0.018 |
| Immature Eggplant/Mature Eggplant | 8.65071 | 0.05 |
| Ripe Pepper/Ripe Tomato | 0.20606 | 0.224 |
| Mature Eggplant/Ripe Tomato | 0.41499 | 1 |
Experiment: IL carotenoid
| hybridization | ratio | FDR (corrected p value) |
|---|
| 11-1/M82 | 1.23588 | 0.742 |
| 1-1-2/M82 | 2.12466 | 1 |
| 12-2/M82 | 1.05141 | 0.61 |
| 12-4/M82 | 1.80697 | 1 |
| 1-3/M82 | 1.55914 | 1 |
| 2-1-1/M82 | 1.16 | 0.689 |
| 2-1/M82 | 1.03168 | 1 |
| 2-6/M82 | 1.04552 | 0.594 |
| 3-2/M82 | 1.2222 | 0.717 |
| 4-1-1/M82 | 2.17269 | 1 |
| 4-1/M82 | 0.94066 | |
| 4-3-2/M82 | 2.43929 | 0.508 |
| 4-3/M82 | 1.96453 | 1 |
| 5-3/M82 | 0.93885 | 1 |
| 6-2/M82 | 1.66655 | 1 |
| 6-3/M82 | 0.91327 | 1 |
| 7-1/M82 | 0.9694 | 1 |
| 7-2/M82 | 1.09798 | 1 |
| 9-3-2/M82 | 3.22869 | 1 |
Experiment: Tomato introgression line transcript analysis
| hybridization | ratio | FDR (corrected p value) |
|---|
| IL4-4/WTpooled | 1.02919 | 0.493 |
| IL2-6/WTpooled | 1.32371 | 0.584 |
| IL7-5/WTpooled | 1.07994 | 1 |
| IL7-3/WTpooled | 1.14134 | 1 |
| IL12-4/WTpooled | 0.92435 | 1 |
| IL1-4/WTpooled | 1.03607 | 1 |
| WT/WTpooled | 1.02373 | 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 | 1.90646 | 0.853 |
Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
| hybridization | ratio | FDR (corrected p value) |
|---|
| DC3000/delat hrp 0h | 1.00497 | 0.914 |
| DC3000/delta hrp 6h | 1.25641 | 1 |
| DC3000/delta hrp 12h | 1.0518 | 1 |
| DC3000/delta hrp 24h | 1.81532 | 0.024 |
Experiment: DC3000 effector mutants
| hybridization | ratio | FDR (corrected p value) |
|---|
| DC3000 delta A/DC3000 delta AB | 2.99048 | 0.042 |
| DC3000 delta B/DC3000 delta AB | 2.60865 | 0.029 |
Experiment: Matt's wild cherry tomato vs. Phytophthora infestans
| hybridization | ratio | FDR (corrected p value) |
|---|
| Exp 12h | 1.4241 | 0.254 |
| Exp 36h | 2.12321 | 0.326 |
| Exp 60h | 2.57062 | 0.221 |
Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field
| hybridization | ratio | FDR (corrected p value) |
|---|
| self-self | 1.02424 | 1 |
| Var 0h | 1.20981 | 0.421 |
| Var 12h I row2-row1 | 1.16048 | 0.473 |
| Var 12h NI row2-row1 | 1.23187 | 0.235 |
| Var 36h I row2-row1 | 1.26237 | 0.41 |
| Var 36h NI row2-row1 | 0.82986 | 0.61 |
| Var 60h I row2-row1 | 1.04834 | 1 |
| Var 60h NI row2-row1 | 0.76771 | 0.458 |
| Time course 0hI-0hNI | 1.13665 | 0.323 |
| Time course 12hI-12hNI | 1.96189 | 0.008 |
| Time course 36hI-36hNI | 4.93199 | 0.004 |
| Time course 60hI-60hNI | 18.3101 | 0.008 |
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) | 0.70308 | 0.213 |
| transgenic ySAMdc/azygous control (breaker) | 0.87012 | 0.49 |
| transgenic ySAMdc/azygous control (red) | 1.25895 | 0.92 |
Experiment: Tomato root culture and Al treatment
| hybridization | ratio | FDR (corrected p value) |
|---|
| Al-treated/control | 0.98874 | 0.568 |
Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings
| hybridization | ratio | FDR (corrected p value) |
|---|
| salt-treated/no salt | 0.7918 | 0.238 |
Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit
| hybridization | ratio | FDR (corrected p value) |
|---|
| Manapal/WT (mature green) | 0.77373 | 1 |
| Manapal/WT (break) | 0.85524 | 1 |
| Manapal/WT (red) | 0.9338 | 0.503 |
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