Expression of 1-1-8.1.14.15
Experiment: Wild type tomato fruit development (set 1)
| hybridization | ratio | FDR (corrected p value) |
|---|
| 17DAP/7DAP | 1.32655 | 0.272 |
| 27DAP/17DAP | 1.25337 | 0.804 |
| 39DAP/27DAP | 1.54628 | 0.106 |
| 41DAP/39DAP | 0.69939 | 0.117 |
| 42DAP/41DAP | 1.06714 | 1 |
| 43DAP/42DAP | 1.20647 | 1 |
| 47DAP/43DAP | 1.0949 | 0.733 |
| 52DAP/47DAP | 0.85333 | 0.612 |
| 57DAP/52DAP | 1.51313 | 0.826 |
Experiment: Wild type tomato fruit development (set 2)
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 1.01053 | 0.824 |
| 17DAP/reference | 1.19138 | 0.201 |
| 27DAP/reference | 1.4176 | 0.026 |
| 39DAP/reference | 1.44623 | 0.108 |
| 41DAP/reference | 1.40279 | 0.034 |
| 42DAP/reference | 1.41516 | 0.001 |
| 43DAP/reference | 1.76227 | 0.008 |
| 47DAP/reference | 2.20331 | 0.001 |
| 52DAP/reference | 1.59747 | 0.007 |
| 57DAP/reference | 1.60351 | 0.008 |
Experiment: tomato Never-ripe mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 17DAP/7DAP | 1.1253 | 0.284 |
| 27DAP/17DAP | 1.34575 | 0.136 |
| 39DAP/27DAP | 0.99716 | 0.984 |
| 41DAP/39DAP | 1.04627 | 1 |
| 42DAP/41DAP | 1.2408 | 0.102 |
| 43DAP/42DAP | 0.93281 | 0.482 |
| 47DAP/43DAP | 0.96502 | 0.833 |
| 52DAP/47DAP | 1.16466 | 0.527 |
| 57DAP/52DAP | 1.27313 | 0.19 |
| 57DAP/7DAP | 1.34732 | 1 |
Experiment: tomato rin mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 1.42443 | 0.039 |
| 17DAP/reference | 1.57878 | 0.006 |
| 27DAP/reference | 1.56711 | 0.006 |
| 39DAP/reference | 1.6946 | 0.005 |
| 41DAP/reference | 1.61592 | 0.011 |
| 42DAP/reference | 1.68309 | 0.009 |
| 43DAP/reference | 1.89673 | 0.007 |
| 47DAP/reference | 1.72255 | 0.015 |
| 52DAP/reference | 1.74258 | 0.008 |
| 57DAP/reference | 1.49033 | 0.007 |
Experiment: tomato nor mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 0.86475 | 0.214 |
| 17DAP/reference | 1.02911 | 0.824 |
| 27DAP/reference | 1.39689 | 0.038 |
| 39DAP/reference | 1.39633 | 0.011 |
| 41DAP/reference | 1.07799 | 0.406 |
| 42DAP/reference | 1.08976 | 0.915 |
| 43DAP/reference | 0.92199 | 0.394 |
| 47DAP/reference | 1.18182 | 0.045 |
| 52DAP/reference | 0.93457 | 0.327 |
| 57DAP/reference | 0.67509 | 0.008 |
Experiment: tomato hp1 mutant fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 7DAP/reference | 1.33235 | 0.106 |
| 17DAP/reference | 1.16085 | 0.503 |
| 27DAP/reference | 1.68753 | 0.019 |
| 39DAP/reference | 1.69449 | 0.01 |
| 41DAP/reference | 1.46865 | 0.007 |
| 42DAP/reference | 1.90805 | 0.007 |
| 43DAP/reference | 2.01878 | 0.006 |
| 47DAP/reference | 1.71361 | 0.026 |
| 52DAP/reference | 2.30548 | 0.028 |
| 57DAP/reference | 2.13541 | 0.006 |
Experiment: Wild type pepper fruit development
| hybridization | ratio | FDR (corrected p value) |
|---|
| 20DAP/14DAP | 1.14269 | 0.966 |
| 26DAP/20DAP | 1.35167 | 0.164 |
| 34DAP/26DAP | 0.84041 | 0.509 |
| 51DAP/34DAP | 1.21937 | 0.473 |
| 52DAP/51DAP | 0.91785 | 1 |
| 53DAP/52DAP | 1.85224 | 0.068 |
| 55DAP/53DAP | 0.9882 | 0.864 |
| 57DAP/55DAP | 1.2346 | 0.424 |
| 62DAP/57DAP | 0.82126 | 0.28 |
| 68DAP/62DAP | 1.10499 | 1 |
| 68DAP/14DAP | 1.51987 | 0.295 |
Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
| hybridization | ratio | FDR (corrected p value) |
|---|
| Tomato Breaker/Pepper Breaker | 4.72175 | 0.014 |
Experiment: Solanaceae fruit comparison
| hybridization | ratio | FDR (corrected p value) |
|---|
| Green Pepper/Ripe Pepper | 0.52181 | 0.097 |
| Mature Green Tomato/Ripe Tomato | 1.1547 | |
| Immature Eggplant/Mature Eggplant | 1.19398 | 0.058 |
| Ripe Pepper/Ripe Tomato | 0.42726 | 0.224 |
| Mature Eggplant/Ripe Tomato | 0.36428 | 0.234 |
Experiment: IL carotenoid
| hybridization | ratio | FDR (corrected p value) |
|---|
| 11-1/M82 | 1.16564 | 0.574 |
| 1-1-2/M82 | 1.63667 | 1 |
| 12-2/M82 | 0.80991 | 0.678 |
| 12-4/M82 | 1.27806 | 1 |
| 1-3/M82 | 1.76463 | 0.479 |
| 2-1-1/M82 | 1.04825 | 1 |
| 2-1/M82 | 0.85808 | 0.519 |
| 2-6/M82 | 1.14184 | 0.695 |
| 3-2/M82 | 1.06906 | 0.426 |
| 4-1-1/M82 | 1.74967 | 1 |
| 4-1/M82 | 1.63922 | 0.853 |
| 4-3-2/M82 | 1.67803 | |
| 4-3/M82 | 1.48934 | 1 |
| 5-3/M82 | 0.9742 | 1 |
| 6-2/M82 | 1.80727 | 0.253 |
| 6-3/M82 | 1.11809 | 1 |
| 7-1/M82 | 0.98245 | 1 |
| 7-2/M82 | 1.33669 | 0.291 |
| 9-3-2/M82 | 1.49058 | 1 |
Experiment: Tomato introgression line transcript analysis
| hybridization | ratio | FDR (corrected p value) |
|---|
| IL4-4/WTpooled | 3.01039 | 0.277 |
| IL2-6/WTpooled | 0.8051 | 1 |
| IL7-5/WTpooled | 1.03996 | 1 |
| IL7-3/WTpooled | 1.28408 | 1 |
| IL12-4/WTpooled | 0.98591 | 1 |
| IL1-4/WTpooled | 3.62595 | 1 |
| WT/WTpooled | 0.9997 | 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 | 1.22707 | 0.853 |
Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
| hybridization | ratio | FDR (corrected p value) |
|---|
| DC3000/delat hrp 0h | 0.96664 | 1 |
| DC3000/delta hrp 6h | 0.94847 | 0.95 |
| DC3000/delta hrp 12h | 0.92932 | 1 |
| DC3000/delta hrp 24h | 1.10567 | 0.271 |
Experiment: DC3000 effector mutants
| hybridization | ratio | FDR (corrected p value) |
|---|
| DC3000 delta A/DC3000 delta AB | 1.48578 | 0.057 |
| DC3000 delta B/DC3000 delta AB | 1.20293 | 0.23 |
Experiment: Matt's wild cherry tomato vs. Phytophthora infestans
| hybridization | ratio | FDR (corrected p value) |
|---|
| Exp 12h | 1.05791 | 1 |
| Exp 36h | 1.2041 | 0.489 |
| Exp 60h | 1.4133 | 0.221 |
Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field
| hybridization | ratio | FDR (corrected p value) |
|---|
| self-self | 1.02107 | 1 |
| Var 0h | 0.92395 | 0.457 |
| Var 12h I row2-row1 | 0.98255 | 0.948 |
| Var 12h NI row2-row1 | 1.16018 | 0.34 |
| Var 36h I row2-row1 | 1.1683 | 0.368 |
| Var 36h NI row2-row1 | 1.0387 | 1 |
| Var 60h I row2-row1 | 0.63319 | 0.306 |
| Var 60h NI row2-row1 | 0.84648 | 0.63 |
| Time course 0hI-0hNI | 1.07114 | 0.852 |
| Time course 12hI-12hNI | 1.01302 | 0.867 |
| Time course 36hI-36hNI | 1.38153 | 0.009 |
| Time course 60hI-60hNI | 2.71647 | 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) | 1.07553 | 0.482 |
| transgenic ySAMdc/azygous control (breaker) | 1.06734 | 0.248 |
| transgenic ySAMdc/azygous control (red) | 1.0652 | 0.92 |
Experiment: Tomato root culture and Al treatment
| hybridization | ratio | FDR (corrected p value) |
|---|
| Al-treated/control | 1.19722 | 0.213 |
Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings
| hybridization | ratio | FDR (corrected p value) |
|---|
| salt-treated/no salt | 0.5534 | 0.238 |
Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit
| hybridization | ratio | FDR (corrected p value) |
|---|
| Manapal/WT (mature green) | 0.96298 | 1 |
| Manapal/WT (break) | 1.12903 | 0.381 |
| Manapal/WT (red) | 1.2085 | 0.222 |
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