Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.16.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10351	1
27DAP/17DAP	1.53059	0.735
39DAP/27DAP	0.87755	0.641
41DAP/39DAP	1.11493	0.788
42DAP/41DAP	3.08933	0.876
43DAP/42DAP	1.32993	0.809
47DAP/43DAP	1.89569	0.647
52DAP/47DAP	1.05577	0.823
57DAP/52DAP	1.15256	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16375	0.078
17DAP/reference	1.06282	0.492
27DAP/reference	1.07773	0.285
39DAP/reference	1.13286	0.277
41DAP/reference	1.1359	0.265
42DAP/reference	1.2688	0.001
43DAP/reference	1.00744	1
47DAP/reference	1.2345	0.006
52DAP/reference	1.44652	0.069
57DAP/reference	1.03345	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03544	0.438
27DAP/17DAP	1.01689	0.969
39DAP/27DAP	1.05269	0.943
41DAP/39DAP	1.5803	0.612
42DAP/41DAP	1.03054	0.835
43DAP/42DAP	0.87065	0.558
47DAP/43DAP	0.91811	0.764
52DAP/47DAP	0.99555	0.868
57DAP/52DAP	1.56663	0.05
57DAP/7DAP	2.05037	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05385	1
17DAP/reference	1.00382	0.599
27DAP/reference	1.02355	0.748
39DAP/reference	0.85355	0.073
41DAP/reference	0.88273	0.184
42DAP/reference	0.85029	0.16
43DAP/reference	0.79887	0.159
47DAP/reference	1.07854	0.761
52DAP/reference	0.84424	0.09
57DAP/reference	0.89527	0.17

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34483	0.103
17DAP/reference	1.48788	0.02
27DAP/reference	1.1525	0.208
39DAP/reference	1.25166	0.026
41DAP/reference	1.43341	0.015
42DAP/reference	1.17095	0.029
43DAP/reference	1.22759	0.242
47DAP/reference	1.18597	0.061
52DAP/reference	1.37747	0.012
57DAP/reference	1.27688	0.01

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88243	0.23
17DAP/reference	1.06643	0.775
27DAP/reference	0.86667	0.147
39DAP/reference	0.8671	0.147
41DAP/reference	1.12098	0.455
42DAP/reference	1.20022	0.171
43DAP/reference	1.25445	0.142
47DAP/reference	1.01156	0.687
52DAP/reference	1.0843	0.609
57DAP/reference	1.18593	0.452

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97363	1
26DAP/20DAP	0.89007
34DAP/26DAP	1.60919	0.19
51DAP/34DAP	0.97314	0.779
52DAP/51DAP	1.28054	0.404
53DAP/52DAP	1.11474	0.845
55DAP/53DAP	1.4914
57DAP/55DAP	1.01482	0.875
62DAP/57DAP	1.14438	0.935
68DAP/62DAP	0.98309	0.834
68DAP/14DAP	0.65464	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.57699	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.81451	0.058
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.83898	0.197
Ripe Pepper/Ripe Tomato	0.71183	0.293
Mature Eggplant/Ripe Tomato	1.49079

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	1.07368	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.73452	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.15639	1
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	0.93147

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.83534	1
DC3000/delta hrp 6h	1.01733	0.95
DC3000/delta hrp 12h	1.13059	1
DC3000/delta hrp 24h	0.74101	0.107

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	0.99134	1
Exp 36h	0.86664	0.661
Exp 60h	0.86746	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03013	1
Var 0h	0.82944	0.933
Var 12h I row2-row1	0.98689	0.467
Var 12h NI row2-row1	1.33055	1
Var 36h I row2-row1	0.69831	1
Var 36h NI row2-row1	0.92739	0.743
Var 60h I row2-row1	1.067	1
Var 60h NI row2-row1	0.82769	0.866
Time course 0hI-0hNI	0.94436	0.852
Time course 12hI-12hNI	1.12177	0.743
Time course 36hI-36hNI	0.99491	0.654
Time course 60hI-60hNI	1.45869	0.033

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)	1.03345	0.921
transgenic ySAMdc/azygous control (breaker)	1.55118	0.162
transgenic ySAMdc/azygous control (red)	1.07565	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90404	0.054

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10104	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98939	1
Manapal/WT (break)	0.78552	1
Manapal/WT (red)	0.88496	0.274