Expression of 1-1-7.1.14.12
Experiment: Wild type tomato fruit development (set 1)
| hybridization | ratio | FDR (corrected p value) |
|---|
| 17DAP/7DAP | 0.87541 | 0.445 |
| 27DAP/17DAP | 0.84655 | 0.602 |
| 39DAP/27DAP | 1.60477 | 0.118 |
| 41DAP/39DAP | 0.70417 | 0.097 |
| 42DAP/41DAP | 1.00143 | 1 |
| 43DAP/42DAP | 1.10293 | 0.985 |
| 47DAP/43DAP | 0.67896 | 0.121 |
| 52DAP/47DAP | 0.83775 | 0.574 |
| 57DAP/52DAP | 1.20534 | 0.878 |
Experiment: Wild type tomato fruit development (set 2)
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 1.51549 | 0.02 |
| 17DAP/reference | 0.92239 | 0.419 |
| 27DAP/reference | 0.94092 | 0.484 |
| 39DAP/reference | 0.94396 | 0.513 |
| 41DAP/reference | 0.87295 | 0.201 |
| 42DAP/reference | 1.39645 | 0.001 |
| 43DAP/reference | 1.32246 | 0.04 |
| 47DAP/reference | 1.24111 | 0.182 |
| 52DAP/reference | 1.0579 | 0.991 |
| 57DAP/reference | 1.31607 | 0.011 |
Experiment: tomato Never-ripe mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 17DAP/7DAP | 1.03678 | 0.687 |
| 27DAP/17DAP | 0.93141 | 0.508 |
| 39DAP/27DAP | 0.93363 | 0.308 |
| 41DAP/39DAP | 1.16945 | 0.781 |
| 42DAP/41DAP | 0.99982 | 0.858 |
| 43DAP/42DAP | 0.85001 | 0.034 |
| 47DAP/43DAP | 1.11544 | 0.308 |
| 52DAP/47DAP | 0.7877 | 0.112 |
| 57DAP/52DAP | 0.88644 | 0.48 |
| 57DAP/7DAP | 0.58555 | 1 |
Experiment: tomato rin mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 1.46824 | 0.026 |
| 17DAP/reference | 1.62641 | 0.006 |
| 27DAP/reference | 1.61358 | 0.007 |
| 39DAP/reference | 1.50876 | 0.005 |
| 41DAP/reference | 1.56806 | 0.012 |
| 42DAP/reference | 1.63073 | 0.021 |
| 43DAP/reference | 1.44199 | 0.013 |
| 47DAP/reference | 1.40908 | 0.018 |
| 52DAP/reference | 1.75776 | 0.008 |
| 57DAP/reference | 1.51047 | 0.01 |
Experiment: tomato nor mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 1.27206 | 0.495 |
| 17DAP/reference | 1.19265 | 0.019 |
| 27DAP/reference | 1.47177 | 0.09 |
| 39DAP/reference | 1.3519 | 0.109 |
| 41DAP/reference | 1.46562 | 0.006 |
| 42DAP/reference | 1.49895 | 0.01 |
| 43DAP/reference | 1.06318 | 0.846 |
| 47DAP/reference | 1.67637 | 0.018 |
| 52DAP/reference | 0.79115 | 0.004 |
| 57DAP/reference | 0.9489 | 0.433 |
Experiment: tomato hp1 mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 1.38752 | 0.056 |
| 17DAP/reference | 1.17767 | 0.42 |
| 27DAP/reference | 1.28503 | 0.027 |
| 39DAP/reference | 1.58634 | 0.006 |
| 41DAP/reference | 1.33166 | 0.008 |
| 42DAP/reference | 1.81073 | 0.007 |
| 43DAP/reference | 1.88813 | 0.012 |
| 47DAP/reference | 1.13312 | 0.294 |
| 52DAP/reference | 1.47352 | 0.031 |
| 57DAP/reference | 1.66193 | 0.032 |
Experiment: Wild type pepper fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 20DAP/14DAP | 0.91694 | 1 |
| 26DAP/20DAP | 1.83916 | 0.097 |
| 34DAP/26DAP | 0.85211 | 0.419 |
| 51DAP/34DAP | 0.71442 | 0.058 |
| 52DAP/51DAP | 0.78858 | 1 |
| 53DAP/52DAP | 0.93414 | 0.803 |
| 55DAP/53DAP | 0.56719 | 0.02 |
| 57DAP/55DAP | 1.21597 | 0.779 |
| 62DAP/57DAP | 0.78352 | 0.162 |
| 68DAP/62DAP | 1.60858 | 0.398 |
| 68DAP/14DAP | 1.18615 | 0.384 |
Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
| hybridization | ratio | FDR (corrected p value) |
|---|
| Tomato Breaker/Pepper Breaker | 3.26665 | 0.017 |
Experiment: Solanaceae fruit comparison
| hybridization | ratio | FDR (corrected p value) |
|---|
| Green Pepper/Ripe Pepper | 0.99974 | 1 |
| Mature Green Tomato/Ripe Tomato | 1.85558 | 0.04 |
| Immature Eggplant/Mature Eggplant | 1.28807 | 0.056 |
| Ripe Pepper/Ripe Tomato | 1.15806 | 1 |
| Mature Eggplant/Ripe Tomato | 0.86775 | 1 |
Experiment: IL carotenoid
| hybridization | ratio | FDR (corrected p value) |
|---|
| 11-1/M82 | 1.04993 | 1 |
| 1-1-2/M82 | 1.24757 | 1 |
| 12-2/M82 | 0.89475 | 0.862 |
| 12-4/M82 | 1.11393 | 1 |
| 1-3/M82 | 1.2409 | 0.479 |
| 2-1-1/M82 | 0.99356 | 1 |
| 2-1/M82 | 0.65295 | 0.322 |
| 2-6/M82 | 1.00261 | 1 |
| 3-2/M82 | 0.83227 | |
| 4-1-1/M82 | 1.10787 | 1 |
| 4-1/M82 | 1.81428 | 0.853 |
| 4-3-2/M82 | 1.40002 | 0.262 |
| 4-3/M82 | 1.36139 | 0.268 |
| 5-3/M82 | 1.15921 | 1 |
| 6-2/M82 | 0.96416 | 1 |
| 6-3/M82 | 0.99328 | 1 |
| 7-1/M82 | 0.91408 | 1 |
| 7-2/M82 | 1.10413 | 0.385 |
| 9-3-2/M82 | 1.25169 | 0.196 |
Experiment: Tomato introgression line transcript analysis
| hybridization | ratio | FDR (corrected p value) |
|---|
| IL4-4/WTpooled | 1.16606 | 1 |
| IL2-6/WTpooled | 1.03437 | 1 |
| IL7-5/WTpooled | 1.86741 | |
| IL7-3/WTpooled | 1.05055 | 1 |
| IL12-4/WTpooled | 1.05331 | 0.839 |
| IL1-4/WTpooled | 1.09635 | 1 |
| WT/WTpooled | 1.01254 | 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 | 3.6105 | 0.853 |
Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
| hybridization | ratio | FDR (corrected p value) |
|---|
| DC3000/delat hrp 0h | 1.04819 | 0.921 |
| DC3000/delta hrp 6h | 0.97525 | 0.95 |
| DC3000/delta hrp 12h | 0.96556 | 1 |
| DC3000/delta hrp 24h | 0.93333 | 0.43 |
Experiment: DC3000 effector mutants
| hybridization | ratio | FDR (corrected p value) |
|---|
| DC3000 delta A/DC3000 delta AB | 1.16581 | 0.073 |
| DC3000 delta B/DC3000 delta AB | 1.20962 | 0.217 |
Experiment: Matt's wild cherry tomato vs. Phytophthora infestans
| hybridization | ratio | FDR (corrected p value) |
|---|
| Exp 12h | 0.87066 | 1 |
| Exp 36h | 1.23843 | 1 |
| Exp 60h | 1.23039 | 1 |
Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field
| hybridization | ratio | FDR (corrected p value) |
|---|
| self-self | 0.98516 | 1 |
| Var 0h | 1.01977 | 1 |
| Var 12h I row2-row1 | 1.02954 | 1 |
| Var 12h NI row2-row1 | 1.04945 | 1 |
| Var 36h I row2-row1 | 1.16321 | 0.304 |
| Var 36h NI row2-row1 | 0.8675 | 0.645 |
| Var 60h I row2-row1 | 0.88591 | 0.832 |
| Var 60h NI row2-row1 | 0.79311 | 0.313 |
| Time course 0hI-0hNI | 0.87405 | 0.163 |
| Time course 12hI-12hNI | 1.03454 | 0.724 |
| Time course 36hI-36hNI | 1.33275 | 0.114 |
| Time course 60hI-60hNI | 1.47031 | 0.019 |
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) | 1.05214 | 0.541 |
| transgenic ySAMdc/azygous control (breaker) | 1.11461 | 1 |
| transgenic ySAMdc/azygous control (red) | 1.21836 | 0.92 |
Experiment: Tomato root culture and Al treatment
| hybridization | ratio | FDR (corrected p value) |
|---|
| Al-treated/control | 1.25686 | 0.115 |
Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings
| hybridization | ratio | FDR (corrected p value) |
|---|
| salt-treated/no salt | 1.05248 | 1 |
Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit
| hybridization | ratio | FDR (corrected p value) |
|---|
| Manapal/WT (mature green) | 0.95103 | 1 |
| Manapal/WT (break) | 1.29107 | 1 |
| Manapal/WT (red) | 1.2259 | 0.222 |
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