Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.4.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.28673	0.414
27DAP/17DAP	1.07767	1
39DAP/27DAP	0.86009	0.549
41DAP/39DAP	1.26057	0.844
42DAP/41DAP	0.80956	0.774
43DAP/42DAP	1.25204	0.867
47DAP/43DAP	0.9718	0.828
52DAP/47DAP	1.52082	0.48
57DAP/52DAP	1.24716	0.826

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06831	0.846
17DAP/reference	0.77419	0.022
27DAP/reference	0.84497	0.109
39DAP/reference	0.90439	0.178
41DAP/reference	0.93094	0.201
42DAP/reference	0.87365	0.002
43DAP/reference	0.99973	0.861
47DAP/reference	0.92475	0.161
52DAP/reference	0.91496	0.292
57DAP/reference	1.06119	0.419

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89089	0.388
27DAP/17DAP	1.07542	0.788
39DAP/27DAP	1.18553	0.575
41DAP/39DAP	0.7996	0.169
42DAP/41DAP	0.90002	0.478
43DAP/42DAP	1.02157	1
47DAP/43DAP	1.09049	0.906
52DAP/47DAP	0.61226	0.081
57DAP/52DAP	1.20686	0.851
57DAP/7DAP	0.94067	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11674	0.332
17DAP/reference	1.1709	0.399
27DAP/reference	1.18959	0.088
39DAP/reference	1.24757	0.021
41DAP/reference	1.35688	0.075
42DAP/reference	1.1921	0.024
43DAP/reference	1.15956	0.05
47DAP/reference	0.90049	0.168
52DAP/reference	1.27578	0.149
57DAP/reference	1.09522	0.536

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01054	0.97
17DAP/reference	0.84485	0.153
27DAP/reference	0.8482	0.049
39DAP/reference	1.09686	0.316
41DAP/reference	1.35117	0.01
42DAP/reference	1.18026	0.18
43DAP/reference	0.84847	0.298
47DAP/reference	1.12213	0.556
52DAP/reference	1.0902	0.596
57DAP/reference	0.92158	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03388	0.804
17DAP/reference	0.99322	0.751
27DAP/reference	1.24933	0.149
39DAP/reference	0.90843	0.299
41DAP/reference	0.94873	0.512
42DAP/reference	1.10239	0.45
43DAP/reference	1.20285	0.035
47DAP/reference	0.98082	0.525
52DAP/reference	1.25221	0.22
57DAP/reference	0.85195	0.158

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95147	1
26DAP/20DAP	0.83198	0.512
34DAP/26DAP	1.42231	1
51DAP/34DAP	0.94559	0.722
52DAP/51DAP	0.71047	1
53DAP/52DAP	1.65847
55DAP/53DAP	1.09103	0.991
57DAP/55DAP	0.97252	0.911
62DAP/57DAP	2.59346	0.158
68DAP/62DAP	1.58199	0.565
68DAP/14DAP	1.26903

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75965	0.211

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
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	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	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	0.80851	0.073

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.33306
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.62356
DC3000/delta hrp 24h	0.88864	0.642

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.71579	0.409
Exp 60h	0.98151	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97767	1
Var 0h	1.02452	1
Var 12h I row2-row1	0.89836	0.565
Var 12h NI row2-row1	0.96809	0.906
Var 36h I row2-row1	1.13992	0.298
Var 36h NI row2-row1	1.10651	1
Var 60h I row2-row1	0.85041	0.374
Var 60h NI row2-row1	1.03005	1
Time course 0hI-0hNI	1.05021	0.603
Time course 12hI-12hNI	0.96914	0.806
Time course 36hI-36hNI	0.97782	0.54
Time course 60hI-60hNI	1.0805	1

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)	4.23463	0.798
transgenic ySAMdc/azygous control (breaker)	1.09513	0.248
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	0.89121	0.038

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)	1.35779	0.093
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.25046	0.126