Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.12.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99266	0.867
27DAP/17DAP	0.9967	0.879
39DAP/27DAP	1.24065	0.593
41DAP/39DAP	1.1155	0.638
42DAP/41DAP	1.3207	0.507
43DAP/42DAP	1.3146	0.501
47DAP/43DAP	1.11773	0.668
52DAP/47DAP	0.84392	0.586
57DAP/52DAP	1.28952	0.859

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17083	0.278
17DAP/reference	1.15201	0.035
27DAP/reference	1.18809	0.146
39DAP/reference	1.3919	0.016
41DAP/reference	1.56213	0.014
42DAP/reference	1.2983	0.017
43DAP/reference	1.13474	0.495
47DAP/reference	1.21655	0.148
52DAP/reference	1.24144	0.069
57DAP/reference	1.24916	0.28

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05051	0.728
27DAP/17DAP	0.93301	0.614
39DAP/27DAP	0.92514	0.482
41DAP/39DAP	1.06705	0.774
42DAP/41DAP	1.01241	0.934
43DAP/42DAP	0.86144	0.269
47DAP/43DAP	0.98708	0.93
52DAP/47DAP	1.17356	0.532
57DAP/52DAP	1.06693	0.718
57DAP/7DAP	1.01741	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85409	0.224
17DAP/reference	0.96376	0.338
27DAP/reference	1.25629	0.035
39DAP/reference	0.85198	0.039
41DAP/reference	0.88427	0.111
42DAP/reference	0.95672	0.16
43DAP/reference	0.82037	0.04
47DAP/reference	0.96869	0.671
52DAP/reference	0.73063	0.024
57DAP/reference	0.74044	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.60542	0.049
17DAP/reference	1.93182	0.009
27DAP/reference	1.94634	0.013
39DAP/reference	1.58057	0.011
41DAP/reference	2.03584	0.005
42DAP/reference	1.86112	0.008
43DAP/reference	2.57251	0.011
47DAP/reference	1.94537	0.008
52DAP/reference	1.69768	0.009
57DAP/reference	2.28821	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04115	1
17DAP/reference	1.21796	0.474
27DAP/reference	0.9965	0.594
39DAP/reference	1.0158	0.643
41DAP/reference	0.94086	0.371
42DAP/reference	1.37126	0.01
43DAP/reference	1.05514	1
47DAP/reference	1.42398	0.008
52DAP/reference	1.26502	0.119
57DAP/reference	1.60877	0.026

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20674	0.966
26DAP/20DAP	1.08196	1
34DAP/26DAP	1.81126	0.819
51DAP/34DAP	0.94859	0.714
52DAP/51DAP	1.81718	0.033
53DAP/52DAP	0.94329	0.715
55DAP/53DAP	1.14226	0.109
57DAP/55DAP	0.62359	0.145
62DAP/57DAP	0.87416	0.681
68DAP/62DAP	1.3741	0.936
68DAP/14DAP	0.5479

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.76454	0.037

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.6521	0.202
Mature Green Tomato/Ripe Tomato	0.94189	0.487
Immature Eggplant/Mature Eggplant	1.11147	0.334
Ripe Pepper/Ripe Tomato	0.83748	0.224
Mature Eggplant/Ripe Tomato	1.285	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90461	0.944
1-1-2/M82	1.26703
12-2/M82	N/A	N/A
12-4/M82	1.00553	1
1-3/M82	0.90894
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	0.98368
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.78952	0.284
4-3/M82	1.06321	1
5-3/M82	0.99385	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.12565
7-2/M82	1.02351	1
9-3-2/M82	2.71419

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.47931	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.21742	1
IL12-4/WTpooled	0.92671	0.71
IL1-4/WTpooled	0.91053	0.834
WT/WTpooled	1.04836	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	1.23349	0.193

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95297	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.19566	1
DC3000/delta hrp 24h	1.08257	0.308

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.82991	0.053
DC3000 delta B/DC3000 delta AB	0.90557	0.178

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01424	1
Exp 36h	1.02086	1
Exp 60h	0.95511	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00277	1
Var 0h	0.40779	1
Var 12h I row2-row1	0.75724	0.338
Var 12h NI row2-row1	1.04422	1
Var 36h I row2-row1	1.05118	1
Var 36h NI row2-row1	1.0914	1
Var 60h I row2-row1	0.73468	0.306
Var 60h NI row2-row1	1.00635	1
Time course 0hI-0hNI	0.96726	0.852
Time course 12hI-12hNI	1.0406	0.842
Time course 36hI-36hNI	1.4199	0.007
Time course 60hI-60hNI	1.54867	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)	1.00181	1
transgenic ySAMdc/azygous control (breaker)	1.0475	1
transgenic ySAMdc/azygous control (red)	0.98515	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94386	0.172

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.84959	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93031	1
Manapal/WT (break)	0.98497	1
Manapal/WT (red)	1.05066	1