Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.9.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78495	0.29
27DAP/17DAP	0.86405	0.677
39DAP/27DAP	1.66365	0.52
41DAP/39DAP	1.79311	0.26
42DAP/41DAP	0.94462	1
43DAP/42DAP	0.79588	0.699
47DAP/43DAP	0.6208	0.133
52DAP/47DAP	2.30726	0.12
57DAP/52DAP	0.87575	0.882

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70079	0.064
17DAP/reference	0.75513	0.014
27DAP/reference	0.75686	0.018
39DAP/reference	0.81194	0.032
41DAP/reference	0.88688	0.201
42DAP/reference	0.95579	0.211
43DAP/reference	0.89813	0.191
47DAP/reference	0.79457	0.007
52DAP/reference	0.9222	0.33
57DAP/reference	1.03425	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94161	0.526
27DAP/17DAP	1.07516	0.859
39DAP/27DAP	1.05478	0.698
41DAP/39DAP	1.12156	0.753
42DAP/41DAP	1.00064	0.841
43DAP/42DAP	1.01283	1
47DAP/43DAP	1.08513	0.844
52DAP/47DAP	1.00578	0.97
57DAP/52DAP	0.97083	0.721
57DAP/7DAP	1.25494	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76278	0.086
17DAP/reference	0.75244	0.011
27DAP/reference	0.87929	0.035
39DAP/reference	0.76036	0.011
41DAP/reference	0.74265	0.009
42DAP/reference	0.76113	0.01
43DAP/reference	0.75361	0.011
47DAP/reference	0.63782	0.038
52DAP/reference	0.71936	0.018
57DAP/reference	0.72112	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.6877	0.01
17DAP/reference	0.62279	0.004
27DAP/reference	0.68497	0.018
39DAP/reference	0.56611	0.008
41DAP/reference	0.78028	0.04
42DAP/reference	0.94672	0.392
43DAP/reference	0.99655	0.748
47DAP/reference	1.19063	0.049
52DAP/reference	0.56708	0.003
57DAP/reference	0.76247	0.003

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.69795	0.029
17DAP/reference	0.81869	0.182
27DAP/reference	0.68801	0.025
39DAP/reference	0.73541	0.01
41DAP/reference	0.7783	0.018
42DAP/reference	0.88185	0.22
43DAP/reference	0.68901	0.018
47DAP/reference	0.58837	0.004
52DAP/reference	0.69392	0.114
57DAP/reference	0.6612	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0521	0.966
26DAP/20DAP	0.8965	0.512
34DAP/26DAP	1.09183	1
51DAP/34DAP	0.918	0.419
52DAP/51DAP	1.15865	0.446
53DAP/52DAP	1.01566	0.998
55DAP/53DAP	1.14465	0.28
57DAP/55DAP	0.80612	0.21
62DAP/57DAP	1.32221	0.115
68DAP/62DAP	2.00042	0.616
68DAP/14DAP	0.7624	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09338	0.74

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.11095	0.437
Immature Eggplant/Mature Eggplant	0.48002
Ripe Pepper/Ripe Tomato	0.52715	0.293
Mature Eggplant/Ripe Tomato	0.41936

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.1019	0.877
1-1-2/M82	0.80696	0.958
12-2/M82	1.20878	1
12-4/M82	1.01789	1
1-3/M82	1.23515	1
2-1-1/M82	1.04236	1
2-1/M82	N/A	N/A
2-6/M82	0.94324	1
3-2/M82	1.03199	0.426
4-1-1/M82	0.94735	1
4-1/M82	0.68107	0.867
4-3-2/M82	0.85915	1
4-3/M82	0.87221	0.72
5-3/M82	1.10252	0.572
6-2/M82	0.9491	1
6-3/M82	0.96775	1
7-1/M82	0.91441	0.803
7-2/M82	0.94718	0.796
9-3-2/M82	0.96503	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.16333	0.277
IL2-6/WTpooled	0.64316	0.473
IL7-5/WTpooled	0.86137	1
IL7-3/WTpooled	1.27368	1
IL12-4/WTpooled	0.94508	0.71
IL1-4/WTpooled	1.04211	1
WT/WTpooled	0.95207	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	1.03124	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99166	1
DC3000/delta hrp 6h	1.06277
DC3000/delta hrp 12h	0.89829	1
DC3000/delta hrp 24h	0.98731	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.85646	0.171
DC3000 delta B/DC3000 delta AB	1.33453	0.198

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.32363	0.254
Exp 36h	1.509	0.693
Exp 60h	1.20225	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99829	1
Var 0h	1.14747	0.98
Var 12h I row2-row1	1.04586	0.654
Var 12h NI row2-row1	1.36962	0.34
Var 36h I row2-row1	1.2815	0.908
Var 36h NI row2-row1	0.54557	0.45
Var 60h I row2-row1	0.84143
Var 60h NI row2-row1	0.68084	0.313
Time course 0hI-0hNI	1.11176	0.63
Time course 12hI-12hNI	1.08064	0.816
Time course 36hI-36hNI	2.24916	0.004
Time course 60hI-60hNI	8.09569	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)	1.23713	0.571
transgenic ySAMdc/azygous control (breaker)	2.98584	0.248
transgenic ySAMdc/azygous control (red)	0.81709	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00725	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.02356	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.23332	1
Manapal/WT (break)	0.94196	1
Manapal/WT (red)	0.24557	0.181