Expression of 1-1-3.4.3.20
Experiment: Wild type tomato fruit development (set 1)
| hybridization | ratio | FDR (corrected p value) |
|---|
| 17DAP/7DAP | 0.52576 | 0.029 |
| 27DAP/17DAP | 0.77602 | 0.424 |
| 39DAP/27DAP | 0.92424 | 0.62 |
| 41DAP/39DAP | 1.10672 | 0.85 |
| 42DAP/41DAP | 1.05176 | 0.937 |
| 43DAP/42DAP | 1.10694 | 1 |
| 47DAP/43DAP | 1.02677 | 0.999 |
| 52DAP/47DAP | 1.14487 | 0.767 |
| 57DAP/52DAP | 1.07668 | 0.98 |
Experiment: Wild type tomato fruit development (set 2)
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 1.44606 | 0.008 |
| 17DAP/reference | 1.19083 | 0.083 |
| 27DAP/reference | 1.32812 | 0.055 |
| 39DAP/reference | 0.94159 | 0.247 |
| 41DAP/reference | 0.85925 | 0.065 |
| 42DAP/reference | 0.86656 | 0.02 |
| 43DAP/reference | 0.89647 | 0.2 |
| 47DAP/reference | 0.89776 | 0.116 |
| 52DAP/reference | 0.80746 | 0.043 |
| 57DAP/reference | 0.79596 | 0.054 |
Experiment: tomato Never-ripe mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 17DAP/7DAP | 0.70499 | 0.03 |
| 27DAP/17DAP | 1.13079 | 0.367 |
| 39DAP/27DAP | 0.79734 | 0.051 |
| 41DAP/39DAP | 0.79204 | 0.201 |
| 42DAP/41DAP | 1.04346 | 0.763 |
| 43DAP/42DAP | 1.48058 | 0.015 |
| 47DAP/43DAP | 0.97114 | 0.656 |
| 52DAP/47DAP | 0.96997 | 0.839 |
| 57DAP/52DAP | 0.90628 | 0.264 |
| 57DAP/7DAP | 1.02229 | 1 |
Experiment: tomato rin mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 2.35478 | 0.024 |
| 17DAP/reference | 1.60052 | 0.009 |
| 27DAP/reference | 1.04311 | 0.974 |
| 39DAP/reference | 1.03181 | 0.669 |
| 41DAP/reference | 1.10829 | 0.199 |
| 42DAP/reference | 1.11436 | 0.534 |
| 43DAP/reference | 1.12416 | 0.212 |
| 47DAP/reference | 1.00976 | 1 |
| 52DAP/reference | 0.94672 | 0.332 |
| 57DAP/reference | 1.0514 | 0.654 |
Experiment: tomato nor mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 1.51605 | 0.056 |
| 17DAP/reference | 1.43745 | 0.055 |
| 27DAP/reference | 1.02366 | 0.902 |
| 39DAP/reference | 0.70218 | 0.008 |
| 41DAP/reference | 0.92284 | 0.231 |
| 42DAP/reference | 0.88642 | 0.021 |
| 43DAP/reference | 0.74751 | 0.027 |
| 47DAP/reference | 0.86552 | 0.037 |
| 52DAP/reference | 0.67052 | 0.003 |
| 57DAP/reference | 0.62917 | 0.002 |
Experiment: tomato hp1 mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 2.40225 | 0.015 |
| 17DAP/reference | 1.34945 | 0.084 |
| 27DAP/reference | 1.36136 | 0.022 |
| 39DAP/reference | 1.4716 | 0.026 |
| 41DAP/reference | 1.29641 | 0.031 |
| 42DAP/reference | 1.13629 | 0.424 |
| 43DAP/reference | 0.90271 | 0.256 |
| 47DAP/reference | 0.79273 | 0.016 |
| 52DAP/reference | 0.95498 | 0.573 |
| 57DAP/reference | 1.02445 | 0.939 |
Experiment: Wild type pepper fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 20DAP/14DAP | 0.85054 | 0.915 |
| 26DAP/20DAP | 1.2677 | 0.369 |
| 34DAP/26DAP | 0.76837 | 0.093 |
| 51DAP/34DAP | 0.85698 | 0.136 |
| 52DAP/51DAP | 1.0623 | 0.413 |
| 53DAP/52DAP | 0.94962 | 0.715 |
| 55DAP/53DAP | 0.94118 | 0.577 |
| 57DAP/55DAP | 0.96084 | 0.823 |
| 62DAP/57DAP | 1.17031 | 0.445 |
| 68DAP/62DAP | 1.1954 | 0.17 |
| 68DAP/14DAP | 0.83888 | 1 |
Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
| hybridization | ratio | FDR (corrected p value) |
|---|
| Tomato Breaker/Pepper Breaker | 0.92029 | 0.285 |
Experiment: Solanaceae fruit comparison
| hybridization | ratio | FDR (corrected p value) |
|---|
| Green Pepper/Ripe Pepper | 2.25016 | 0.058 |
| Mature Green Tomato/Ripe Tomato | 1.06281 | 0.69 |
| Immature Eggplant/Mature Eggplant | 0.35979 | 0.057 |
| Ripe Pepper/Ripe Tomato | 5.6818 | 0.256 |
| Mature Eggplant/Ripe Tomato | 9.65674 | 0.26 |
Experiment: IL carotenoid
| hybridization | ratio | FDR (corrected p value) |
|---|
| 11-1/M82 | 0.96925 | 0.944 |
| 1-1-2/M82 | 1.05363 | 1 |
| 12-2/M82 | 1.04326 | 1 |
| 12-4/M82 | 1.21889 | 1 |
| 1-3/M82 | 0.89811 | 0.33 |
| 2-1-1/M82 | 1.08848 | |
| 2-1/M82 | 1.14709 | |
| 2-6/M82 | 1.03031 | 1 |
| 3-2/M82 | 1.11124 | 1 |
| 4-1-1/M82 | 1.01237 | 1 |
| 4-1/M82 | 1.15392 | |
| 4-3-2/M82 | 0.93486 | 0.698 |
| 4-3/M82 | 0.95378 | 1 |
| 5-3/M82 | 1.01222 | 1 |
| 6-2/M82 | 1.33357 | 1 |
| 6-3/M82 | 0.84719 | 1 |
| 7-1/M82 | 1.16556 | 0.598 |
| 7-2/M82 | 0.98026 | 1 |
| 9-3-2/M82 | 1.26473 | 1 |
Experiment: Tomato introgression line transcript analysis
| hybridization | ratio | FDR (corrected p value) |
|---|
| IL4-4/WTpooled | 0.97675 | 1 |
| IL2-6/WTpooled | 1.18261 | 0.788 |
| IL7-5/WTpooled | 1.12359 | 1 |
| IL7-3/WTpooled | 0.70069 | 0.298 |
| IL12-4/WTpooled | 0.91012 | 1 |
| IL1-4/WTpooled | 1.00012 | 1 |
| WT/WTpooled | 0.9978 | 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 | 0.93762 | 0.975 |
Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
| hybridization | ratio | FDR (corrected p value) |
|---|
| DC3000/delat hrp 0h | 1.03614 | 0.921 |
| DC3000/delta hrp 6h | 0.80916 | 0.95 |
| DC3000/delta hrp 12h | 0.87512 | 1 |
| DC3000/delta hrp 24h | 0.52645 | 0.06 |
Experiment: DC3000 effector mutants
| hybridization | ratio | FDR (corrected p value) |
|---|
| DC3000 delta A/DC3000 delta AB | 0.42187 | 0.023 |
| DC3000 delta B/DC3000 delta AB | 0.4626 | 0.02 |
Experiment: Matt's wild cherry tomato vs. Phytophthora infestans
| hybridization | ratio | FDR (corrected p value) |
|---|
| Exp 12h | 0.95446 | 1 |
| Exp 36h | 0.84023 | 0.504 |
| Exp 60h | 0.79304 | 0.258 |
Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field
| hybridization | ratio | FDR (corrected p value) |
|---|
| self-self | 1.01025 | 1 |
| Var 0h | 1.00438 | 1 |
| Var 12h I row2-row1 | 0.89784 | 0.338 |
| Var 12h NI row2-row1 | 1.02405 | 1 |
| Var 36h I row2-row1 | 1.08822 | 0.742 |
| Var 36h NI row2-row1 | 1.14001 | 1 |
| Var 60h I row2-row1 | 0.96019 | 0.952 |
| Var 60h NI row2-row1 | 1.14658 | 0.904 |
| Time course 0hI-0hNI | 0.97526 | 0.892 |
| Time course 12hI-12hNI | 0.93302 | 0.562 |
| Time course 36hI-36hNI | 0.87638 | 0.033 |
| Time course 60hI-60hNI | 0.37352 | 0.006 |
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) | 0.78672 | 0.301 |
| transgenic ySAMdc/azygous control (breaker) | 1.17915 | 1 |
| transgenic ySAMdc/azygous control (red) | 1.28849 | 0.92 |
Experiment: Tomato root culture and Al treatment
| hybridization | ratio | FDR (corrected p value) |
|---|
| Al-treated/control | 0.83426 | 0.117 |
Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings
| hybridization | ratio | FDR (corrected p value) |
|---|
| salt-treated/no salt | 3.99685 | 0.239 |
Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit
| hybridization | ratio | FDR (corrected p value) |
|---|
| Manapal/WT (mature green) | 1.16568 | 0.105 |
| Manapal/WT (break) | 1.21905 | 1 |
| Manapal/WT (red) | 0.99133 | 1 |
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