Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.8.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90229	0.522
27DAP/17DAP	1.22784	0.829
39DAP/27DAP	1.32538	0.631
41DAP/39DAP	1.55274	0.303
42DAP/41DAP	1.90462	0.044
43DAP/42DAP	0.9141	0.833
47DAP/43DAP	0.92311	0.671
52DAP/47DAP	0.75138	0.347
57DAP/52DAP	0.93451	0.926

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93377	0.336
17DAP/reference	0.93265	0.419
27DAP/reference	1.05722	0.75
39DAP/reference	1.16852	0.434
41DAP/reference	1.22872	0.05
42DAP/reference	1.01932	1
43DAP/reference	1.15733	0.252
47DAP/reference	1.13197	0.055
52DAP/reference	1.03433	0.8
57DAP/reference	1.17135	0.052

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96416	0.679
27DAP/17DAP	0.86746	0.537
39DAP/27DAP	1.09263	0.603
41DAP/39DAP	0.79116	0.201
42DAP/41DAP	1.2889	0.334
43DAP/42DAP	2.33516	0.013
47DAP/43DAP	0.82649	0.09
52DAP/47DAP	1.53155	0.15
57DAP/52DAP	0.91246	0.591
57DAP/7DAP	1.77061	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86894	0.146
17DAP/reference	0.80446	0.02
27DAP/reference	1.04257	0.974
39DAP/reference	0.95625	0.354
41DAP/reference	0.82323	0.079
42DAP/reference	0.85912	0.111
43DAP/reference	0.80062	0.091
47DAP/reference	0.92811	0.504
52DAP/reference	0.92586	0.196
57DAP/reference	0.8584	0.093

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06379	0.501
17DAP/reference	1.20382	0.171
27DAP/reference	1.08173	0.745
39DAP/reference	0.95719	0.37
41DAP/reference	0.9732	0.441
42DAP/reference	1.24819	0.051
43DAP/reference	1.39006	0.161
47DAP/reference	1.33099	0.008
52DAP/reference	1.13218	0.322
57DAP/reference	1.33028	0.024

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78961	0.026
17DAP/reference	1.04141	1
27DAP/reference	1.02132	1
39DAP/reference	0.97365	0.544
41DAP/reference	1.02779	1
42DAP/reference	0.91108	0.134
43DAP/reference	0.9219	0.384
47DAP/reference	1.13549	0.127
52DAP/reference	0.87107	0.256
57DAP/reference	1.05638	0.947

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.82892	0.787
26DAP/20DAP	0.92463	1
34DAP/26DAP	1.25287
51DAP/34DAP	2.14403	0.511
52DAP/51DAP	1.19873	0.446
53DAP/52DAP	1.00296	0.848
55DAP/53DAP	1.11064	0.922
57DAP/55DAP	1.47084
62DAP/57DAP	1.19694	0.723
68DAP/62DAP	1.0657	0.939
68DAP/14DAP	0.8293	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	5.36761	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.46123	0.025
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.77545	1
Mature Eggplant/Ripe Tomato	0.46303	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94212	0.673
1-1-2/M82	1.08576	1
12-2/M82	0.94065
12-4/M82	1.3185	1
1-3/M82	1.0107
2-1-1/M82	0.95528
2-1/M82	0.9436	1
2-6/M82	1.05187	0.505
3-2/M82	1.13027
4-1-1/M82	0.94511	1
4-1/M82	1.08678	1
4-3-2/M82	1.43176	0.508
4-3/M82	1.0368	1
5-3/M82	0.98752	1
6-2/M82	0.83962	1
6-3/M82	1.11258	1
7-1/M82	0.70653	0.476
7-2/M82	0.91739	0.881
9-3-2/M82	1.40451	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.08585
IL2-6/WTpooled	1.2902	0.46
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.95563	1
IL12-4/WTpooled	0.83479	0.581
IL1-4/WTpooled	1.01236	1
WT/WTpooled	0.86678	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	1.06768	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03995	0.921
DC3000/delta hrp 6h	0.8865	0.95
DC3000/delta hrp 12h	1.04322	1
DC3000/delta hrp 24h	1.11281	0.383

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.01668
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03665	1
Exp 36h	N/A	N/A
Exp 60h	1.01647	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05764	1
Var 0h	0.85359	0.933
Var 12h I row2-row1	0.95791	0.77
Var 12h NI row2-row1	0.86191	0.546
Var 36h I row2-row1	0.48963	1
Var 36h NI row2-row1	0.74339	0.645
Var 60h I row2-row1	1.00236	1
Var 60h NI row2-row1	0.78975	0.977
Time course 0hI-0hNI	0.97149	0.791
Time course 12hI-12hNI	1.02765	0.773
Time course 36hI-36hNI	1.17313	0.016
Time course 60hI-60hNI	1.29	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)	0.94736	0.246
transgenic ySAMdc/azygous control (breaker)	1.20394	0.178
transgenic ySAMdc/azygous control (red)	1.11585	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97147	0.099

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.17716	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90047	1
Manapal/WT (break)	0.9341	1
Manapal/WT (red)	0.83028	0.181