Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.16.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83408	0.331
27DAP/17DAP	0.88999	0.658
39DAP/27DAP	0.94695	0.663
41DAP/39DAP	1.01756	0.921
42DAP/41DAP	0.78732	0.774
43DAP/42DAP	1.04428	1
47DAP/43DAP	1.12051	0.647
52DAP/47DAP	1.11307	0.856
57DAP/52DAP	1.06838	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00464	1
17DAP/reference	0.89753	0.208
27DAP/reference	0.93317	0.359
39DAP/reference	1.00503	1
41DAP/reference	0.87643	0.065
42DAP/reference	0.91715	0.023
43DAP/reference	0.9059	0.063
47DAP/reference	0.89202	0.065
52DAP/reference	1.03118	1
57DAP/reference	1.17563	0.033

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16316	0.205
27DAP/17DAP	1.06561	0.885
39DAP/27DAP	0.93061	0.412
41DAP/39DAP	0.9049	0.63
42DAP/41DAP	0.95356	0.662
43DAP/42DAP	0.90614	0.321
47DAP/43DAP	1.04896	0.969
52DAP/47DAP	0.96514	0.848
57DAP/52DAP	0.92917	0.612
57DAP/7DAP	1.32645	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.66171	0.095
17DAP/reference	0.49499	0.011
27DAP/reference	0.7789	0.022
39DAP/reference	0.41477	0.011
41DAP/reference	0.79331	0.122
42DAP/reference	0.53457	0.01
43DAP/reference	0.3244	0.009
47DAP/reference	0.69132	0.222
52DAP/reference	0.32406	0.011
57DAP/reference	0.29035	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9572	0.607
17DAP/reference	0.90779	0.164
27DAP/reference	0.99966	0.663
39DAP/reference	0.90114	0.122
41DAP/reference	0.93354	0.284
42DAP/reference	0.9753	0.482
43DAP/reference	0.87379	0.229
47DAP/reference	0.9508	0.154
52DAP/reference	1.0667	0.322
57DAP/reference	1.07235	0.193

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.52686	0.028
17DAP/reference	0.96636	0.426
27DAP/reference	0.38107	0.016
39DAP/reference	0.48021	0.011
41DAP/reference	0.67243	0.07
42DAP/reference	0.74327	0.134
43DAP/reference	0.66428	0.051
47DAP/reference	1.01568	1
52DAP/reference	0.66606	0.116
57DAP/reference	1.01614	0.718

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09801	0.85
26DAP/20DAP	1.10777	0.905
34DAP/26DAP	0.99854	1
51DAP/34DAP	0.62725	0.22
52DAP/51DAP	0.74787	1
53DAP/52DAP	1.00221	0.891
55DAP/53DAP	1.00693	0.852
57DAP/55DAP	1.33946	0.149
62DAP/57DAP	1.0534	0.723
68DAP/62DAP	1.18988	1
68DAP/14DAP	1.01586	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.17741	0.229

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.32201	0.898
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.3089
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96694
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.3028
1-3/M82	0.72766	0.378
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.91923
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.71565
4-3-2/M82	N/A	N/A
4-3/M82	0.78696
5-3/M82	1.15217	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.14889
7-2/M82	1.01191
9-3-2/M82	0.99325

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
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	0.93353	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08236	0.921
DC3000/delta hrp 6h	1.95556
DC3000/delta hrp 12h	1.04518	1
DC3000/delta hrp 24h	0.96284	0.725

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.63228	0.027
DC3000 delta B/DC3000 delta AB	0.57023	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.11219	1
Exp 36h	N/A	N/A
Exp 60h	1.65894	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98582	1
Var 0h	1.20728	1
Var 12h I row2-row1	0.79619	0.467
Var 12h NI row2-row1	0.94468	0.443
Var 36h I row2-row1	0.76397	1
Var 36h NI row2-row1	1.0297	0.852
Var 60h I row2-row1	0.98197	1
Var 60h NI row2-row1	1.00868	1
Time course 0hI-0hNI	1.01795	0.867
Time course 12hI-12hNI	0.94964	0.637
Time course 36hI-36hNI	0.74886	0.024
Time course 60hI-60hNI	0.24919	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)	0.90129	0.567
transgenic ySAMdc/azygous control (breaker)	0.9454	1
transgenic ySAMdc/azygous control (red)	1.07607	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99065	0.227

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06923	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.25429	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A