Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.10.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.68873	0.144
27DAP/17DAP	0.86832	0.69
39DAP/27DAP	1.085	0.885
41DAP/39DAP	1.10419	0.914
42DAP/41DAP	0.99678	1
43DAP/42DAP	1.14952	1
47DAP/43DAP	1.18137	0.972
52DAP/47DAP	0.97279	0.842
57DAP/52DAP	1.1473	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14733	0.29
17DAP/reference	1.09371	0.193
27DAP/reference	1.21742	0.065
39DAP/reference	1.34254	0.101
41DAP/reference	1.32422	0.145
42DAP/reference	0.91231	0.111
43DAP/reference	1.19837	0.057
47DAP/reference	0.93561	0.161
52DAP/reference	0.87437	0.143
57DAP/reference	0.93902	0.277

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78899	0.164
27DAP/17DAP	1.1312	0.831
39DAP/27DAP	0.98509	0.908
41DAP/39DAP	0.74379	0.038
42DAP/41DAP	0.90312	0.436
43DAP/42DAP	0.99708	0.96
47DAP/43DAP	0.88472	0.499
52DAP/47DAP	0.90341	0.729
57DAP/52DAP	1.10342	0.657
57DAP/7DAP	1.18249	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85051	0.08
17DAP/reference	0.92592	0.072
27DAP/reference	1.00326	0.8
39DAP/reference	0.7197	0.021
41DAP/reference	0.74135	0.013
42DAP/reference	0.99015	0.582
43DAP/reference	1.3282	0.111
47DAP/reference	0.98604	0.671
52DAP/reference	0.98877	0.571
57DAP/reference	0.89023	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34533	0.077
17DAP/reference	0.97407	0.576
27DAP/reference	1.05191	0.974
39DAP/reference	0.84127	0.081
41DAP/reference	0.80392	0.071
42DAP/reference	1.1432	0.324
43DAP/reference	1.58363	0.068
47DAP/reference	1.16159	0.212
52DAP/reference	1.11844	0.368
57DAP/reference	1.13982	0.567

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93465	0.268
17DAP/reference	1.06144	0.482
27DAP/reference	1.13715	0.149
39DAP/reference	1.0576	0.422
41DAP/reference	0.99687	0.826
42DAP/reference	0.97142	0.22
43DAP/reference	0.63363	0.025
47DAP/reference	0.96325	0.509
52DAP/reference	0.76389	0.172
57DAP/reference	0.81873	0.046

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.26288	0.945
26DAP/20DAP	1.24906	0.322
34DAP/26DAP	1.01793	1
51DAP/34DAP	1.25013	0.883
52DAP/51DAP	0.90017	1
53DAP/52DAP	1.10027	0.753
55DAP/53DAP	0.90278	0.632
57DAP/55DAP	0.84802	0.427
62DAP/57DAP	0.75701	0.871
68DAP/62DAP	0.80723	0.722
68DAP/14DAP	0.56724

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.02866	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.14007	0.752
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	2.92072
Mature Eggplant/Ripe Tomato	1.56237

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.11867	0.455
1-1-2/M82	0.90722
12-2/M82	0.95918
12-4/M82	1.01569
1-3/M82	0.769
2-1-1/M82	1.00985	1
2-1/M82	N/A	N/A
2-6/M82	1.01795	1
3-2/M82	0.92619	1
4-1-1/M82	1.13092
4-1/M82	1.11498
4-3-2/M82	1.10012	1
4-3/M82	0.93259	1
5-3/M82	1.0227	1
6-2/M82	N/A	N/A
6-3/M82	0.87
7-1/M82	1.08885
7-2/M82	0.88169
9-3-2/M82	1.02408

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.66509	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.99245	1
IL12-4/WTpooled	1.03604	0.785
IL1-4/WTpooled	0.92929	1
WT/WTpooled	0.85283	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	0.97693	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9617	1
DC3000/delta hrp 6h	1.0144	1
DC3000/delta hrp 12h	0.93968	1
DC3000/delta hrp 24h	3.51682	0.025

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.98694	1
DC3000 delta B/DC3000 delta AB	0.95818	0.674

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.84744	0.328
Exp 36h	1.19262	1
Exp 60h	1.14997	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00517	1
Var 0h	0.94105	1
Var 12h I row2-row1	1.07663	0.692
Var 12h NI row2-row1	0.96201	0.82
Var 36h I row2-row1	0.96395	1
Var 36h NI row2-row1	1.53947	0.482
Var 60h I row2-row1	0.92204	0.439
Var 60h NI row2-row1	1.42279	0.701
Time course 0hI-0hNI	1.01692	1
Time course 12hI-12hNI	0.91477	0.368
Time course 36hI-36hNI	0.74409	0.023
Time course 60hI-60hNI	0.29939	0.005

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)	1.19333	0.238
transgenic ySAMdc/azygous control (breaker)	1.00287	1
transgenic ySAMdc/azygous control (red)	1.09694	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01923	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9422	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.9274	1
Manapal/WT (break)	0.88084	1
Manapal/WT (red)	1.02077	1