Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.13.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8669	0.456
27DAP/17DAP	1.65696	0.618
39DAP/27DAP	1.14659	0.876
41DAP/39DAP	0.92155	0.659
42DAP/41DAP	1.11295	0.825
43DAP/42DAP	0.96369	0.909
47DAP/43DAP	1.22613	0.497
52DAP/47DAP	1.04009	0.943
57DAP/52DAP	0.9995	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96332	0.432
17DAP/reference	0.86966	0.129
27DAP/reference	0.90959	0.286
39DAP/reference	1.01223	0.871
41DAP/reference	0.89314	0.201
42DAP/reference	1.11609	0.299
43DAP/reference	0.9582	0.576
47DAP/reference	1.08283	0.509
52DAP/reference	1.12055	0.524
57DAP/reference	1.13629	0.379

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25086	0.398
27DAP/17DAP	1.08978	0.852
39DAP/27DAP	1.36465	0.245
41DAP/39DAP	1.02213	1
42DAP/41DAP	1.15213	0.425
43DAP/42DAP	1.0745	0.086
47DAP/43DAP	1.00087	1
52DAP/47DAP	1.07629	0.826
57DAP/52DAP	1.07727	0.65
57DAP/7DAP	0.92544	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99026	0.682
17DAP/reference	1.09333	0.688
27DAP/reference	1.14421	0.049
39DAP/reference	1.0373	0.96
41DAP/reference	0.93576	0.247
42DAP/reference	1.00668	0.713
43DAP/reference	1.31371	0.013
47DAP/reference	1.25746	0.022
52DAP/reference	1.0393	0.832
57DAP/reference	1.04898	0.536

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95782	0.503
17DAP/reference	0.91804	0.189
27DAP/reference	0.91012	0.24
39DAP/reference	0.99916	0.702
41DAP/reference	0.92748	0.118
42DAP/reference	1.13035	0.519
43DAP/reference	0.95015	0.423
47DAP/reference	0.85712	0.014
52DAP/reference	0.98049	0.5
57DAP/reference	0.78501	0.144

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95903	0.422
17DAP/reference	0.9927	0.778
27DAP/reference	1.31963	0.034
39DAP/reference	1.16164	0.091
41DAP/reference	1.10454	0.115
42DAP/reference	1.22309	0.239
43DAP/reference	0.99496	0.712
47DAP/reference	1.09474	0.501
52DAP/reference	1.33207	0.384
57DAP/reference	1.07757	0.744

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9035	1
26DAP/20DAP	0.54316	0.317
34DAP/26DAP	0.99496	0.972
51DAP/34DAP	0.84019	0.116
52DAP/51DAP	1.29237	0.439
53DAP/52DAP	1.03216	0.961
55DAP/53DAP	1.39063	0.741
57DAP/55DAP	1.35918	0.643
62DAP/57DAP	1.31445	0.35
68DAP/62DAP	0.9928	0.863
68DAP/14DAP	1.23687	0.419

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.04925	0.028

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.80499	0.356
Mature Green Tomato/Ripe Tomato	0.6198	0.072
Immature Eggplant/Mature Eggplant	1.92596	0.05
Ripe Pepper/Ripe Tomato	0.42844	0.224
Mature Eggplant/Ripe Tomato	0.58679	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.46516	0.551
1-1-2/M82	0.94965	1
12-2/M82	1.0001	1
12-4/M82	1.06361	1
1-3/M82	1.41966	0.277
2-1-1/M82	0.83312	0.465
2-1/M82	1.03534	1
2-6/M82	0.96503	1
3-2/M82	1.03134
4-1-1/M82	0.89795	0.985
4-1/M82	1.22096	0.512
4-3-2/M82	0.83743	0.487
4-3/M82	0.95994	1
5-3/M82	1.06315	1
6-2/M82	1.01566	1
6-3/M82	1.01946	1
7-1/M82	1.00105	1
7-2/M82	1.13004	0.282
9-3-2/M82	0.91026

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.72018	0.358
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.32424	0.362
IL12-4/WTpooled	1.10065	0.557
IL1-4/WTpooled	0.96959
WT/WTpooled	0.99584	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	1.22801	0.177

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98742	1
DC3000/delta hrp 6h	1.132	1
DC3000/delta hrp 12h	0.97588	1
DC3000/delta hrp 24h	1.30506	0.06

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.30984	0.042
DC3000 delta B/DC3000 delta AB	1.19639	0.327

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00707	1
Exp 36h	1.42823	0.409
Exp 60h	1.19146	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98659	1
Var 0h	0.86957	0.933
Var 12h I row2-row1	1.05242	0.654
Var 12h NI row2-row1	0.93574	0.906
Var 36h I row2-row1	1.00631	1
Var 36h NI row2-row1	1.00076	1
Var 60h I row2-row1	0.89073	0.582
Var 60h NI row2-row1	1.03549	1
Time course 0hI-0hNI	0.97405	0.898
Time course 12hI-12hNI	1.21807	0.031
Time course 36hI-36hNI	1.84091	0.004
Time course 60hI-60hNI	2.94416	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)	1.05982	0.541
transgenic ySAMdc/azygous control (breaker)	1.09435	1
transgenic ySAMdc/azygous control (red)	1.01684	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96741	0.143

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.0637	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.23376	0.088
Manapal/WT (break)	1.19016	0.381
Manapal/WT (red)	0.95954	0.728