Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.8.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05208	0.863
27DAP/17DAP	0.90748	0.8
39DAP/27DAP	0.98819	0.769
41DAP/39DAP	0.86823	0.459
42DAP/41DAP	1.13914	0.843
43DAP/42DAP	0.97578	0.918
47DAP/43DAP	0.79088	0.33
52DAP/47DAP	0.83312	0.564
57DAP/52DAP	1.1564	0.826

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18619	0.097
17DAP/reference	0.98803	0.777
27DAP/reference	1.1634	0.057
39DAP/reference	1.26503	0.024
41DAP/reference	1.01501	0.808
42DAP/reference	1.08499	0.151
43DAP/reference	1.00568	0.942
47DAP/reference	1.22978	0.011
52DAP/reference	0.9815	0.53
57DAP/reference	1.18802	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.24314	0.23
27DAP/17DAP	0.96266	0.821
39DAP/27DAP	0.82589	0.111
41DAP/39DAP	1.19122	0.69
42DAP/41DAP	1.03801	0.999
43DAP/42DAP	0.95611	0.308
47DAP/43DAP	0.91836	0.166
52DAP/47DAP	1.01887	0.979
57DAP/52DAP	1.16477	0.402
57DAP/7DAP	1.35212	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03787	1
17DAP/reference	1.0749	0.896
27DAP/reference	1.09601	0.301
39DAP/reference	1.06952	0.745
41DAP/reference	0.9094	0.213
42DAP/reference	1.17119	0.308
43DAP/reference	0.9651	0.459
47DAP/reference	1.12037	0.45
52DAP/reference	1.11684	0.266
57DAP/reference	1.43447	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07859	0.626
17DAP/reference	0.94452	0.279
27DAP/reference	1.03824	0.948
39DAP/reference	1.02462	0.745
41DAP/reference	1.02378	1
42DAP/reference	1.06971	0.649
43DAP/reference	0.86394	0.14
47DAP/reference	1.03936	0.413
52DAP/reference	0.92207	0.22
57DAP/reference	0.75317	0.021

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97647	0.607
17DAP/reference	0.83842	0.058
27DAP/reference	0.8993	0.465
39DAP/reference	0.91251	0.299
41DAP/reference	0.50182
42DAP/reference	1.18409	0.68
43DAP/reference	0.81384	0.206
47DAP/reference	1.06355	0.901
52DAP/reference	1.0556	0.623
57DAP/reference	1.12067	0.531

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15139	0.966
26DAP/20DAP	1.6682	0.103
34DAP/26DAP	0.97227	0.961
51DAP/34DAP	1.31521	0.111
52DAP/51DAP	0.86618	1
53DAP/52DAP	1.26374	0.154
55DAP/53DAP	0.80177	0.188
57DAP/55DAP	0.78768	0.475
62DAP/57DAP	0.7092	0.05
68DAP/62DAP	1.25346	0.431
68DAP/14DAP	1.74607	0.043

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.88626	0.198

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.60549	0.148
Mature Green Tomato/Ripe Tomato	1.44188	0.149
Immature Eggplant/Mature Eggplant	0.98407	1
Ripe Pepper/Ripe Tomato	1.65771	0.251
Mature Eggplant/Ripe Tomato	2.80361	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.60253	0.613
1-1-2/M82	1.04176	1
12-2/M82	0.75185
12-4/M82	0.90208	1
1-3/M82	N/A	N/A
2-1-1/M82	0.91962	1
2-1/M82	N/A	N/A
2-6/M82	0.77223	1
3-2/M82	N/A	N/A
4-1-1/M82	0.68245
4-1/M82	1.48271	0.287
4-3-2/M82	1.02893	1
4-3/M82	0.77548	0.611
5-3/M82	1.1241	0.496
6-2/M82	0.72889
6-3/M82	1.16319	1
7-1/M82	1.10877	1
7-2/M82	1.26745
9-3-2/M82	1.21678	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	45.6329
IL2-6/WTpooled	0.97656	1
IL7-5/WTpooled	1.00056	1
IL7-3/WTpooled	0.69872	0.31
IL12-4/WTpooled	0.99424	1
IL1-4/WTpooled	1.1346	1
WT/WTpooled	0.9828	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	0.97314	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00913	1
DC3000/delta hrp 6h	1.15629	1
DC3000/delta hrp 12h	0.93899	1
DC3000/delta hrp 24h	1.14856	0.633

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.85029	0.05
DC3000 delta B/DC3000 delta AB	0.86123	0.085

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.85992	1
Exp 36h	1.32745	1
Exp 60h	1.40969	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00918	1
Var 0h	0.87887	1
Var 12h I row2-row1	0.84925	0.338
Var 12h NI row2-row1	0.94778	0.906
Var 36h I row2-row1	1.08291	1
Var 36h NI row2-row1	1.1328	1
Var 60h I row2-row1	0.90951	0.293
Var 60h NI row2-row1	1.01666	1
Time course 0hI-0hNI	0.99971	1
Time course 12hI-12hNI	0.94802	0.416
Time course 36hI-36hNI	0.96217	0.317
Time course 60hI-60hNI	0.52994	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)	1.14032	0.339
transgenic ySAMdc/azygous control (breaker)	0.95617	1
transgenic ySAMdc/azygous control (red)	0.92572	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.17689	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.72027	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.74146	1
Manapal/WT (break)	0.89451	0.299
Manapal/WT (red)	1.0211	1