Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.8.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19729	0.534
27DAP/17DAP	1.11947	0.873
39DAP/27DAP	0.93979	0.652
41DAP/39DAP	0.86458	0.475
42DAP/41DAP	1.13374	0.894
43DAP/42DAP	0.96582	0.863
47DAP/43DAP	1.00288	0.953
52DAP/47DAP	1.05207	0.999
57DAP/52DAP	0.91346	0.783

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74823
17DAP/reference	0.80402	0.278
27DAP/reference	1.06472	0.232
39DAP/reference	1.18585	0.514
41DAP/reference	1.61981	0.421
42DAP/reference	0.59433
43DAP/reference	0.76698	0.2
47DAP/reference	0.61803	0.161
52DAP/reference	1.37778	0.878
57DAP/reference	0.97998	0.701

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.26262	0.224
27DAP/17DAP	0.81572	0.187
39DAP/27DAP	0.90772	0.274
41DAP/39DAP	1.2021	0.14
42DAP/41DAP	0.99622	0.876
43DAP/42DAP	1.03922	0.788
47DAP/43DAP	0.95277	0.734
52DAP/47DAP	1.12158	0.635
57DAP/52DAP	1.17653	0.333
57DAP/7DAP	1.06005	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94436	0.495
17DAP/reference	0.65713	0.167
27DAP/reference	0.04886
39DAP/reference	0.76166	0.064
41DAP/reference	0.90209	0.213
42DAP/reference	0.78594	0.017
43DAP/reference	0.73509	0.076
47DAP/reference	1.01737	1
52DAP/reference	0.87483	0.106
57DAP/reference	1.04209	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96932	0.736
17DAP/reference	0.96694	0.548
27DAP/reference	0.73479	0.327
39DAP/reference	1.08497	0.556
41DAP/reference	1.26205	0.491
42DAP/reference	0.87029	0.289
43DAP/reference	0.88922	0.292
47DAP/reference	0.82582	0.116
52DAP/reference	1.11247	0.702
57DAP/reference	1.07916	0.98

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.39148	0.036
17DAP/reference	1.33452	0.074
27DAP/reference	3.73762
39DAP/reference	0.77686
41DAP/reference	1.29224	0.145
42DAP/reference	1.05418	1
43DAP/reference	1.4018	0.021
47DAP/reference	0.65937	0.296
52DAP/reference	0.68887	0.082
57DAP/reference	0.87357	0.468

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.74303	1
26DAP/20DAP	1.00804	1
34DAP/26DAP	1.27046	0.819
51DAP/34DAP	0.86437	0.419
52DAP/51DAP	1.47659	0.075
53DAP/52DAP	0.70179	0.049
55DAP/53DAP	1.20402	0.128
57DAP/55DAP	0.77076	0.202
62DAP/57DAP	1.2357	0.034
68DAP/62DAP	1.59241	0.323
68DAP/14DAP	0.92756	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85246	0.045

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.21699	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	1.20675
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	N/A	N/A
9-3-2/M82	0.86141

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	0.75436	0.478
IL1-4/WTpooled	0.99231
WT/WTpooled	1.03071	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	1.06031	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.1004	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.73641	1
DC3000/delta hrp 24h	0.6153	0.126

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.68986	0.025
DC3000 delta B/DC3000 delta AB	0.81065	0.114

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

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

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99244	1
Var 0h	0.84141	0.933
Var 12h I row2-row1	0.82433	0.357
Var 12h NI row2-row1	0.94559	0.82
Var 36h I row2-row1	1.07255	1
Var 36h NI row2-row1	1.06761	1
Var 60h I row2-row1	0.99419	1
Var 60h NI row2-row1	1.01581	1
Time course 0hI-0hNI	0.97674	0.908
Time course 12hI-12hNI	0.99334	1
Time course 36hI-36hNI	0.87815	0.112
Time course 60hI-60hNI	0.33564	0.005

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	3.44259	0.026

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.14295	0.307
Manapal/WT (break)	0.95765	1
Manapal/WT (red)	1.18353	0.164