Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.18.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77057	0.128
27DAP/17DAP	0.87658	0.694
39DAP/27DAP	1.06888	0.899
41DAP/39DAP	0.84181	0.459
42DAP/41DAP	1.05466	0.949
43DAP/42DAP	1.02007	1
47DAP/43DAP	1.10561	0.926
52DAP/47DAP	1.20748	0.794
57DAP/52DAP	1.07304	0.978

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99569	0.756
17DAP/reference	1.08994	0.122
27DAP/reference	1.0246	0.831
39DAP/reference	0.98641	0.75
41DAP/reference	1.10442	0.025
42DAP/reference	0.99077	0.425
43DAP/reference	1.04006	0.287
47DAP/reference	0.96629	0.161
52DAP/reference	0.96195	0.258
57DAP/reference	0.92389	0.033

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.30701	0.558
27DAP/17DAP	0.82452	0.648
39DAP/27DAP	1.08219	0.977
41DAP/39DAP	1.67274	0.176
42DAP/41DAP	1.13164	0.892
43DAP/42DAP	0.88494	0.399
47DAP/43DAP	1.02741	0.906
52DAP/47DAP	1.13626	0.639
57DAP/52DAP	1.28674	0.091
57DAP/7DAP	1.11053	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98513	0.495
17DAP/reference	1.34789	0.014
27DAP/reference	1.30438	0.06
39DAP/reference	1.07656	1
41DAP/reference	1.15877	0.28
42DAP/reference	1.20621	0.405
43DAP/reference	1.40357	0.087
47DAP/reference	0.99109	0.671
52DAP/reference	1.00865	1
57DAP/reference	1.2384	0.076

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07601	0.397
17DAP/reference	0.96129	0.214
27DAP/reference	0.94768	0.327
39DAP/reference	0.88941	0.034
41DAP/reference	0.97729	0.451
42DAP/reference	0.90728	0.067
43DAP/reference	0.98377	0.633
47DAP/reference	0.99607	0.695
52DAP/reference	1.1374	0.417
57DAP/reference	0.99545	0.72

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13905	0.149
17DAP/reference	1.08987	0.627
27DAP/reference	1.59089	0.023
39DAP/reference	1.24882	0.035
41DAP/reference	1.13615	0.605
42DAP/reference	1.05046	0.994
43DAP/reference	0.97806	0.59
47DAP/reference	0.90384	0.125
52DAP/reference	1.44023	0.463
57DAP/reference	0.65208	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00921	1
26DAP/20DAP	1.07036	1
34DAP/26DAP	2.01246
51DAP/34DAP	2.08645
52DAP/51DAP	0.86852	1
53DAP/52DAP	0.61137	0.128
55DAP/53DAP	1.09146	0.991
57DAP/55DAP	1.06611	0.975
62DAP/57DAP	1.05602	0.833
68DAP/62DAP	1.03072	0.956
68DAP/14DAP	0.97229	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.81915	0.059

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.47806	0.089
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.80816	0.077
Ripe Pepper/Ripe Tomato	1.29511
Mature Eggplant/Ripe Tomato	0.57807	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.04045
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	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	0.91386	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.75131
DC3000/delta hrp 6h	0.95945	0.95
DC3000/delta hrp 12h	0.95716	1
DC3000/delta hrp 24h	0.74665	0.119

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
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	0.84051	1
Exp 36h	0.94726	0.879
Exp 60h	0.72332	0.253

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99265	1
Var 0h	0.90257	0.933
Var 12h I row2-row1	1.01686	0.692
Var 12h NI row2-row1	0.88008	0.82
Var 36h I row2-row1	1.07321	1
Var 36h NI row2-row1	1.07058	1
Var 60h I row2-row1	1.08657	1
Var 60h NI row2-row1	0.84571	0.977
Time course 0hI-0hNI	0.83332	0.079
Time course 12hI-12hNI	1.0336	0.779
Time course 36hI-36hNI	0.88101	0.049
Time course 60hI-60hNI	0.57561	0.015

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)	1.13024	0.294
transgenic ySAMdc/azygous control (breaker)	1.01847	1
transgenic ySAMdc/azygous control (red)	0.95241	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97259	0.181

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.57364	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97872	1
Manapal/WT (break)	1.57557	0.126
Manapal/WT (red)	1.19746	0.222