Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.4.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.47368	0.014
27DAP/17DAP	0.93434	0.86
39DAP/27DAP	1.6192	0.476
41DAP/39DAP	1.47599	0.442
42DAP/41DAP	1.2144	0.886
43DAP/42DAP	1.03914	1
47DAP/43DAP	0.55457	0.055
52DAP/47DAP	0.59911	0.101
57DAP/52DAP	1.03665	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2871	0.027
17DAP/reference	0.75071	0.009
27DAP/reference	0.8791	0.068
39DAP/reference	0.90188	0.342
41DAP/reference	0.84323	0.065
42DAP/reference	1.44675	0.001
43DAP/reference	1.1504	0.028
47DAP/reference	0.89769	0.083
52DAP/reference	0.73245	0.024
57DAP/reference	0.83986	0.068

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07809	0.785
27DAP/17DAP	0.96742	0.878
39DAP/27DAP	1.56564	0.197
41DAP/39DAP	0.87783	0.662
42DAP/41DAP	1.24738	0.143
43DAP/42DAP	1.2249	0.25
47DAP/43DAP	0.91037	0.254
52DAP/47DAP	1.05024	0.851
57DAP/52DAP	1.11807	0.451
57DAP/7DAP	1.22071	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12917	0.427
17DAP/reference	1.06925	0.574
27DAP/reference	1.06138	0.453
39DAP/reference	1.14637	0.032
41DAP/reference	1.1415	0.291
42DAP/reference	1.2225	0.059
43DAP/reference	1.09609	0.157
47DAP/reference	1.23597	0.026
52DAP/reference	1.03503	0.428
57DAP/reference	0.89292	0.059

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97631	0.58
17DAP/reference	0.70669	0.033
27DAP/reference	0.76336	0.036
39DAP/reference	0.87528	0.144
41DAP/reference	1.12263	0.153
42DAP/reference	0.87638	0.023
43DAP/reference	0.89456	0.285
47DAP/reference	1.13187	0.264
52DAP/reference	0.89938	0.28
57DAP/reference	0.85441	0.259

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08097	0.864
17DAP/reference	0.85321	0.203
27DAP/reference	0.97231	0.49
39DAP/reference	0.88535	0.069
41DAP/reference	1.25076	0.588
42DAP/reference	1.12806	0.272
43DAP/reference	1.04367	0.768
47DAP/reference	0.86782	0.103
52DAP/reference	0.93128	0.482
57DAP/reference	0.76419	0.043

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02006	1
26DAP/20DAP	2.09243	0.097
34DAP/26DAP	0.7029	0.194
51DAP/34DAP	1.0783	0.677
52DAP/51DAP	1.05234	0.86
53DAP/52DAP	0.79634	0.138
55DAP/53DAP	0.66749	0.022
57DAP/55DAP	1.31837	0.666
62DAP/57DAP	0.90411	0.466
68DAP/62DAP	0.96096	0.834
68DAP/14DAP	0.85591	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.07939	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.15974	0.058
Mature Green Tomato/Ripe Tomato	3.09175	0.149
Immature Eggplant/Mature Eggplant	3.98718	0.05
Ripe Pepper/Ripe Tomato	0.31607	0.224
Mature Eggplant/Ripe Tomato	0.82195	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98266	0.961
1-1-2/M82	1.31983	1
12-2/M82	1.60164	1
12-4/M82	1.62005	1
1-3/M82	2.04075	0.26
2-1-1/M82	0.90298	0.465
2-1/M82	1.03273	1
2-6/M82	0.90556	1
3-2/M82	1.32506	0.84
4-1-1/M82	0.91654	1
4-1/M82	2.51723	0.853
4-3-2/M82	1.09571	1
4-3/M82	1.13062	1
5-3/M82	0.81274	1
6-2/M82	1.23034	1
6-3/M82	0.79237	1
7-1/M82	0.85204	0.803
7-2/M82	1.52987	0.324
9-3-2/M82	1.01293	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.90822
IL2-6/WTpooled	1.15008	0.409
IL7-5/WTpooled	1.80251
IL7-3/WTpooled	0.87447	0.298
IL12-4/WTpooled	1.02196	1
IL1-4/WTpooled	1.56647	0.426
WT/WTpooled	0.96217	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	1.22267	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04513	0.921
DC3000/delta hrp 6h	0.93141	0.95
DC3000/delta hrp 12h	0.77102	1
DC3000/delta hrp 24h	3.27454	0.018

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11383	0.476
DC3000 delta B/DC3000 delta AB	1.16963	0.321

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00126	1
Exp 36h	1.86016	0.489
Exp 60h	1.45018	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.85103	0.314
transgenic ySAMdc/azygous control (breaker)	1.09953	0.248
transgenic ySAMdc/azygous control (red)	1.01039	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.83573	0.172

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86087	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.05283	1
Manapal/WT (break)	0.96339	1
Manapal/WT (red)	0.88046	0.188