Expression of 1-1-1.3.11.15
Experiment: Wild type tomato fruit development (set 1)
| hybridization | ratio | FDR (corrected p value) |
|---|
| 17DAP/7DAP | 0.98354 | 0.839 |
| 27DAP/17DAP | 1.49098 | 0.492 |
| 39DAP/27DAP | 1.97949 | 0.105 |
| 41DAP/39DAP | 0.78481 | 0.245 |
| 42DAP/41DAP | 0.73697 | 0.774 |
| 43DAP/42DAP | 1.10963 | 0.949 |
| 47DAP/43DAP | 1.29804 | 0.618 |
| 52DAP/47DAP | 1.23702 | 0.566 |
| 57DAP/52DAP | 1.34773 | 0.561 |
Experiment: Wild type tomato fruit development (set 2)
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | N/A | N/A |
| 17DAP/reference | N/A | N/A |
| 27DAP/reference | 0.6834 | |
| 39DAP/reference | N/A | N/A |
| 41DAP/reference | 1.44219 | 0.016 |
| 42DAP/reference | 1.28901 | 0.072 |
| 43DAP/reference | 0.55375 | |
| 47DAP/reference | 1.03828 | 1 |
| 52DAP/reference | N/A | N/A |
| 57DAP/reference | 0.7098 | |
Experiment: tomato Never-ripe mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 17DAP/7DAP | 1.04027 | 0.763 |
| 27DAP/17DAP | 1.4596 | |
| 39DAP/27DAP | 1.13561 | 0.436 |
| 41DAP/39DAP | 0.99105 | 0.973 |
| 42DAP/41DAP | 1.16585 | 0.308 |
| 43DAP/42DAP | 1.23365 | 0.103 |
| 47DAP/43DAP | 1.0728 | 0.884 |
| 52DAP/47DAP | 0.76933 | 0.089 |
| 57DAP/52DAP | 1.04726 | 0.885 |
| 57DAP/7DAP | 1.06312 | 1 |
Experiment: tomato rin mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 1.36077 | 0.055 |
| 17DAP/reference | 1.64383 | 0.01 |
| 27DAP/reference | 1.5413 | 0.008 |
| 39DAP/reference | 1.56398 | 0.006 |
| 41DAP/reference | 1.62949 | 0.009 |
| 42DAP/reference | 2.07015 | 0.007 |
| 43DAP/reference | 1.73011 | 0.007 |
| 47DAP/reference | 1.52872 | 0.081 |
| 52DAP/reference | 1.56077 | 0.007 |
| 57DAP/reference | 1.41842 | 0.004 |
Experiment: tomato nor mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 0.73776 | 0.1 |
| 17DAP/reference | 0.85561 | 0.245 |
| 27DAP/reference | 1.11816 | 0.822 |
| 39DAP/reference | 0.94766 | 0.416 |
| 41DAP/reference | 1.10871 | 0.846 |
| 42DAP/reference | 1.08321 | 0.879 |
| 43DAP/reference | 0.83502 | 0.08 |
| 47DAP/reference | 0.54199 | 0.071 |
| 52DAP/reference | 0.79067 | 0.015 |
| 57DAP/reference | 0.71219 | 0.016 |
Experiment: tomato hp1 mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 1.37378 | 0.02 |
| 17DAP/reference | 1.0874 | 0.887 |
| 27DAP/reference | 1.37369 | |
| 39DAP/reference | 1.52282 | 0.008 |
| 41DAP/reference | 1.39873 | 0.026 |
| 42DAP/reference | 1.48269 | 0.082 |
| 43DAP/reference | 1.39182 | 0.028 |
| 47DAP/reference | 0.34789 | |
| 52DAP/reference | 1.89616 | 0.09 |
| 57DAP/reference | 3.19648 | |
Experiment: Wild type pepper fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 20DAP/14DAP | 1.03671 | 1 |
| 26DAP/20DAP | 1.96325 | 0.269 |
| 34DAP/26DAP | 1.82132 | 0.542 |
| 51DAP/34DAP | 2.02244 | 0.033 |
| 52DAP/51DAP | N/A | N/A |
| 53DAP/52DAP | 0.76376 | |
| 55DAP/53DAP | 0.49168 | 0.243 |
| 57DAP/55DAP | 0.78666 | 0.14 |
| 62DAP/57DAP | 1.50959 | 0.115 |
| 68DAP/62DAP | 0.93976 | 0.769 |
| 68DAP/14DAP | 0.86165 | 0.375 |
Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
| hybridization | ratio | FDR (corrected p value) |
|---|
| Tomato Breaker/Pepper Breaker | 0.35856 | 0.028 |
Experiment: Solanaceae fruit comparison
| hybridization | ratio | FDR (corrected p value) |
|---|
| Green Pepper/Ripe Pepper | 0.7121 | 0.193 |
| Mature Green Tomato/Ripe Tomato | 0.81134 | 0.317 |
| Immature Eggplant/Mature Eggplant | 0.93333 | 0.493 |
| Ripe Pepper/Ripe Tomato | 1.55461 | 1 |
| Mature Eggplant/Ripe Tomato | 0.14602 | 0.234 |
Experiment: IL carotenoid
| hybridization | ratio | FDR (corrected p value) |
|---|
| 11-1/M82 | 0.80074 | 0.536 |
| 1-1-2/M82 | 1.11099 | 1 |
| 12-2/M82 | 0.96129 | 0.955 |
| 12-4/M82 | 0.93425 | 1 |
| 1-3/M82 | 0.64476 | 0.501 |
| 2-1-1/M82 | 1.0034 | 1 |
| 2-1/M82 | 1.17631 | |
| 2-6/M82 | 0.79215 | 0.467 |
| 3-2/M82 | 0.91696 | |
| 4-1-1/M82 | 0.75061 | 0.667 |
| 4-1/M82 | 1.08093 | 1 |
| 4-3-2/M82 | 0.78447 | 0.698 |
| 4-3/M82 | 0.85184 | 0.72 |
| 5-3/M82 | 1.13577 | 1 |
| 6-2/M82 | 0.95022 | 1 |
| 6-3/M82 | 1.12035 | 1 |
| 7-1/M82 | 1.052 | 1 |
| 7-2/M82 | 0.98534 | 1 |
| 9-3-2/M82 | 0.90846 | 1 |
Experiment: Tomato introgression line transcript analysis
| hybridization | ratio | FDR (corrected p value) |
|---|
| IL4-4/WTpooled | 1.26351 | |
| IL2-6/WTpooled | 1.09989 | 0.788 |
| IL7-5/WTpooled | N/A | N/A |
| IL7-3/WTpooled | 1.23548 | 1 |
| IL12-4/WTpooled | 1.25868 | 0.737 |
| IL1-4/WTpooled | 1.78158 | 0.426 |
| WT/WTpooled | 1.16605 | 0.785 |
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 | 1.5528 | 0.167 |
Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
| hybridization | ratio | FDR (corrected p value) |
|---|
| DC3000/delat hrp 0h | 1.04306 | 0.921 |
| DC3000/delta hrp 6h | 0.83408 | 0.95 |
| DC3000/delta hrp 12h | 1.00233 | 1 |
| DC3000/delta hrp 24h | 0.92417 | 0.534 |
Experiment: DC3000 effector mutants
| hybridization | ratio | FDR (corrected p value) |
|---|
| DC3000 delta A/DC3000 delta AB | 1.56427 | 0.134 |
| DC3000 delta B/DC3000 delta AB | 1.3949 | 0.19 |
Experiment: Matt's wild cherry tomato vs. Phytophthora infestans
| hybridization | ratio | FDR (corrected p value) |
|---|
| Exp 12h | 1.18808 | 1 |
| Exp 36h | 1.06129 | 1 |
| Exp 60h | 1.2965 | 0.399 |
Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field
| hybridization | ratio | FDR (corrected p value) |
|---|
| self-self | 0.95897 | 1 |
| Var 0h | 0.90682 | 0.933 |
| Var 12h I row2-row1 | 1.07542 | 0.58 |
| Var 12h NI row2-row1 | 1.17702 | 0.281 |
| Var 36h I row2-row1 | 1.42235 | 0.489 |
| Var 36h NI row2-row1 | 1.10172 | 1 |
| Var 60h I row2-row1 | 1.07471 | 1 |
| Var 60h NI row2-row1 | 0.79264 | 0.483 |
| Time course 0hI-0hNI | 1.07776 | 0.574 |
| Time course 12hI-12hNI | 1.13078 | 0.242 |
| Time course 36hI-36hNI | 1.69573 | 0.006 |
| Time course 60hI-60hNI | 1.79696 | 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) | 1.14845 | 0.372 |
| transgenic ySAMdc/azygous control (breaker) | 0.65325 | 0.173 |
| transgenic ySAMdc/azygous control (red) | 0.73292 | 1 |
Experiment: Tomato root culture and Al treatment
| hybridization | ratio | FDR (corrected p value) |
|---|
| Al-treated/control | N/A | N/A |
Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings
| hybridization | ratio | FDR (corrected p value) |
|---|
| salt-treated/no salt | N/A | N/A |
Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit
| hybridization | ratio | FDR (corrected p value) |
|---|
| Manapal/WT (mature green) | 1.07473 | 1 |
| Manapal/WT (break) | 1.05875 | 1 |
| Manapal/WT (red) | 1.05666 | 0.413 |
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