Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.7.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13031	0.786
27DAP/17DAP	0.80463	0.46
39DAP/27DAP	0.77274	0.41
41DAP/39DAP	0.98609	0.807
42DAP/41DAP	0.99935	1
43DAP/42DAP	1.10509	0.875
47DAP/43DAP	0.97465	0.868
52DAP/47DAP	0.86064	0.618
57DAP/52DAP	1.19317	0.827

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.83002	0.009
17DAP/reference	1.43749	0.132
27DAP/reference	1.13115	0.161
39DAP/reference	1.3886	0.57
41DAP/reference	1.05805	0.624
42DAP/reference	0.94695	0.326
43DAP/reference	0.92793
47DAP/reference	0.835	0.191
52DAP/reference	0.71142	0.043
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.29404	0.271
27DAP/17DAP	0.8795	0.475
39DAP/27DAP	0.71364	0.188
41DAP/39DAP	1.13531	0.455
42DAP/41DAP	0.98288	0.801
43DAP/42DAP	0.86164	0.105
47DAP/43DAP	0.92782	0.543
52DAP/47DAP	0.92944	0.778
57DAP/52DAP	0.81165	0.119
57DAP/7DAP	0.5766	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05083	1
17DAP/reference	N/A	N/A
27DAP/reference	N/A	N/A
39DAP/reference	N/A	N/A
41DAP/reference	0.59676	0.153
42DAP/reference	1.10724	0.713
43DAP/reference	N/A	N/A
47DAP/reference	0.97101	0.671
52DAP/reference	N/A	N/A
57DAP/reference	N/A	N/A

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0944	0.903
17DAP/reference	1.44077	0.599
27DAP/reference	1.25036	0.455
39DAP/reference	0.89318	0.526
41DAP/reference	0.9676	0.026
42DAP/reference	2.82324	0.254
43DAP/reference	0.98077	0.67
47DAP/reference	0.9646	0.292
52DAP/reference	0.88374	0.22
57DAP/reference	0.68318	0.032

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	4.41173
17DAP/reference	2.9465	0.013
27DAP/reference	1.92399
39DAP/reference	1.14769	0.007
41DAP/reference	0.75041	0.459
42DAP/reference	4.68095
43DAP/reference	0.99632	0.796
47DAP/reference	0.88351	0.153
52DAP/reference	0.5609	0.107
57DAP/reference	0.93226	0.184

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.4382	0.966
26DAP/20DAP	0.86326	0.512
34DAP/26DAP	0.98248	0.98
51DAP/34DAP	1.15598	0.261
52DAP/51DAP	1.19523	0.13
53DAP/52DAP	1.17543	0.104
55DAP/53DAP	1.08196	0.893
57DAP/55DAP	1.08086	0.97
62DAP/57DAP	1.50322
68DAP/62DAP	1.78795
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.72549	0.087

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	4.9975
Immature Eggplant/Mature Eggplant	0.10972
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	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	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	0.95312
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.88701	1
IL12-4/WTpooled	0.82872	0.71
IL1-4/WTpooled	1.65288
WT/WTpooled	0.98485	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	2.00999	0.853

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

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

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.41676
DC3000 delta B/DC3000 delta AB	0.11215	0.023

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	0.99195	1
Var 0h	0.85846	0.933
Var 12h I row2-row1	0.76051	0.39
Var 12h NI row2-row1	0.88298	0.627
Var 36h I row2-row1	0.9621	1
Var 36h NI row2-row1	1.11414	1
Var 60h I row2-row1	1.34506	0.562
Var 60h NI row2-row1	1.03259	1
Time course 0hI-0hNI	0.98613	0.962
Time course 12hI-12hNI	1.00127	1
Time course 36hI-36hNI	0.90139	0.202
Time course 60hI-60hNI	0.16732	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	N/A	N/A

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)	N/A	N/A
Manapal/WT (break)	1.61009	0.183
Manapal/WT (red)	1.4575	1