Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.10.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99566	0.722
27DAP/17DAP	0.78233	0.359
39DAP/27DAP	1.01402	0.782
41DAP/39DAP	0.86793	0.461
42DAP/41DAP	0.97097	1
43DAP/42DAP	0.83671	0.639
47DAP/43DAP	1.10271	0.659
52DAP/47DAP	1.00866	0.956
57DAP/52DAP	1.10828	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92361	0.3
17DAP/reference	1.08114	0.161
27DAP/reference	0.82953	0.114
39DAP/reference	1.19492	0.037
41DAP/reference	1.09753	0.808
42DAP/reference	0.94594	0.25
43DAP/reference	1.02302	0.866
47DAP/reference	0.93107	0.224
52DAP/reference	0.68672	0.034
57DAP/reference	0.73582	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11551	0.581
27DAP/17DAP	0.94389	0.821
39DAP/27DAP	1.09402	0.347
41DAP/39DAP	1.07608	0.79
42DAP/41DAP	1.12214	0.852
43DAP/42DAP	0.81284	0.042
47DAP/43DAP	1.04553	0.848
52DAP/47DAP	0.94406	0.66
57DAP/52DAP	0.99239	0.848
57DAP/7DAP	0.92531	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83565	0.146
17DAP/reference	0.99391	0.693
27DAP/reference	1.66655	0.008
39DAP/reference	0.84867	0.109
41DAP/reference	1.02892	1
42DAP/reference	1.08728	0.132
43DAP/reference	1.04185	1
47DAP/reference	0.98372	0.671
52DAP/reference	1.02822	0.802
57DAP/reference	0.91058	0.128

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.57267	0.193
17DAP/reference	1.26631	0.039
27DAP/reference	1.04113	1
39DAP/reference	1.00622	0.682
41DAP/reference	0.97498	0.459
42DAP/reference	1.22554	0.034
43DAP/reference	2.01514	0.009
47DAP/reference	1.40179	0.008
52DAP/reference	1.56701	0.036
57DAP/reference	1.61866	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92692	0.335
17DAP/reference	1.25625	0.283
27DAP/reference	1.71634	0.033
39DAP/reference	1.42126	0.018
41DAP/reference	1.39953	0.011
42DAP/reference	1.1433	0.54
43DAP/reference	0.8189	0.071
47DAP/reference	1.06801	0.76
52DAP/reference	1.58384	0.165
57DAP/reference	0.74749	0.069

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.28769	0.966
26DAP/20DAP	1.11464	0.594
34DAP/26DAP	1.12707	1
51DAP/34DAP	0.97596	0.856
52DAP/51DAP	0.9472	1
53DAP/52DAP	1.60968	0.036
55DAP/53DAP	1.06897	0.994
57DAP/55DAP	1.09365	1
62DAP/57DAP	1.12946	0.868
68DAP/62DAP	1.04988	0.939
68DAP/14DAP	0.48466	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75557	0.041

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.74098	0.028
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	0.90247
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	1.20495
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	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	0.97004	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.01898	1
IL12-4/WTpooled	0.86556	0.71
IL1-4/WTpooled	1.02332
WT/WTpooled	0.94337	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	1.27734	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94982	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.96854	1
DC3000/delta hrp 24h	1.24859	0.221

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.66939	0.042
DC3000 delta B/DC3000 delta AB	1.24759	0.558

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99639	1
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	1.06362	1
Var 0h	0.65807	1
Var 12h I row2-row1	0.93146	0.705
Var 12h NI row2-row1	0.96193	0.82
Var 36h I row2-row1	1.23099	0.489
Var 36h NI row2-row1	1.30295	0.276
Var 60h I row2-row1	1.02925	1
Var 60h NI row2-row1	1.02586	1
Time course 0hI-0hNI	1.02158	0.867
Time course 12hI-12hNI	0.97032	0.742
Time course 36hI-36hNI	0.79345	0.048
Time course 60hI-60hNI	0.39732	0.006

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)	1.28965	0.541
transgenic ySAMdc/azygous control (breaker)	1.11282	0.248
transgenic ySAMdc/azygous control (red)	1.19196	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9736	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.30039	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.79495	0.172
Manapal/WT (break)	0.92393	1
Manapal/WT (red)	0.92362	0.315