Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.9.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88872	0.558
27DAP/17DAP	0.89697	0.801
39DAP/27DAP	1.12728	0.882
41DAP/39DAP	1.57769	0.367
42DAP/41DAP	10.9357	0.018
43DAP/42DAP	2.72666	0.587
47DAP/43DAP	1.31528	0.746
52DAP/47DAP	0.28901	0.03
57DAP/52DAP	2.30009	0.55

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22278	0.105
17DAP/reference	1.09847	0.048
27DAP/reference	0.93663	0.525
39DAP/reference	1.02621	0.857
41DAP/reference	1.03522	0.714
42DAP/reference	1.00592	0.665
43DAP/reference	1.03042	0.982
47DAP/reference	1.04737	0.666
52DAP/reference	1.22291	0.032
57DAP/reference	0.97263	0.415

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91351	0.402
27DAP/17DAP	1.09625	0.576
39DAP/27DAP	1.09303	0.429
41DAP/39DAP	1.00829	1
42DAP/41DAP	1.04416	0.991
43DAP/42DAP	1.10748	0.351
47DAP/43DAP	0.99331	0.985
52DAP/47DAP	1.06383	0.831
57DAP/52DAP	1.24617	0.256
57DAP/7DAP	1.24882	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9256	0.326
17DAP/reference	0.78643	0.253
27DAP/reference	1.16683	0.301
39DAP/reference	0.8581	0.17
41DAP/reference	0.84294	0.153
42DAP/reference	0.85748	0.151
43DAP/reference	1.05424	0.873
47DAP/reference	1.06402	0.318
52DAP/reference	1.05064	0.74
57DAP/reference	0.97525	0.494

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09409	0.226
17DAP/reference	1.21663	0.035
27DAP/reference	1.3862	0.023
39DAP/reference	1.36327	0.018
41DAP/reference	1.34378	0.269
42DAP/reference	1.06254	0.843
43DAP/reference	1.28062	0.078
47DAP/reference	1.02288	0.731
52DAP/reference	1.35242	0.038
57DAP/reference	1.32098	0.034

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11255	0.758
17DAP/reference	0.96063	0.537
27DAP/reference	1.15384	0.188
39DAP/reference	0.92456	0.328
41DAP/reference	1.04953	0.984
42DAP/reference	1.04329	0.671
43DAP/reference	0.99354	0.738
47DAP/reference	0.94451	0.383
52DAP/reference	1.60551	0.473
57DAP/reference	0.93403	0.353

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93729	1
26DAP/20DAP	1.50088	0.193
34DAP/26DAP	0.90739	0.682
51DAP/34DAP	1.48515	0.039
52DAP/51DAP	0.96978	1
53DAP/52DAP	1.11075	0.623
55DAP/53DAP	1.04915	0.869
57DAP/55DAP	0.93465	0.724
62DAP/57DAP	0.74844	0.088
68DAP/62DAP	0.96292	0.787
68DAP/14DAP	0.93746	1

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.25005	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.73245	0.204
Mature Green Tomato/Ripe Tomato	0.04867	0.014
Immature Eggplant/Mature Eggplant	1.53472	0.05
Ripe Pepper/Ripe Tomato	1.66119	1
Mature Eggplant/Ripe Tomato	0.54201	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02243	1
1-1-2/M82	0.92379	1
12-2/M82	N/A	N/A
12-4/M82	1.83386	1
1-3/M82	0.91266	0.441
2-1-1/M82	1.35541	1
2-1/M82	1.06742
2-6/M82	1.02132	1
3-2/M82	1.03685	0.967
4-1-1/M82	1.01514	1
4-1/M82	0.88581
4-3-2/M82	2.01711
4-3/M82	1.07584	1
5-3/M82	0.94069	1
6-2/M82	1.04757	1
6-3/M82	1.06794
7-1/M82	1.10896
7-2/M82	1.04472
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.9702	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.68159	0.418
IL12-4/WTpooled	0.92145	0.581
IL1-4/WTpooled	0.86766
WT/WTpooled	1.09221	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	1.03879	1

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04699	0.914
DC3000/delta hrp 6h	0.97066	0.95
DC3000/delta hrp 12h	1.07941	1
DC3000/delta hrp 24h	1.32093	0.041

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.48972
DC3000 delta B/DC3000 delta AB	1.8701	0.113

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.13833	1
Exp 36h	1.39275	0.489
Exp 60h	1.5692	0.226

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.04102	1
Var 0h	1.06138	0.98
Var 12h I row2-row1	0.99411	1
Var 12h NI row2-row1	1.16091	0.649
Var 36h I row2-row1	1.06558	1
Var 36h NI row2-row1	0.81811	0.413
Var 60h I row2-row1	0.76824	0.285
Var 60h NI row2-row1	0.89071	0.483
Time course 0hI-0hNI	1.04074	0.833
Time course 12hI-12hNI	1.11317	0.078
Time course 36hI-36hNI	1.61296	0.005
Time course 60hI-60hNI	2.64529	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)	1.13196	0.372
transgenic ySAMdc/azygous control (breaker)	0.808	0.137
transgenic ySAMdc/azygous control (red)	0.9508	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9317	0.038

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.56765	0.238

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87814	1
Manapal/WT (break)	1.01258	1
Manapal/WT (red)	1.01864	1