Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.20.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98464	0.779
27DAP/17DAP	1.18439	0.849
39DAP/27DAP	0.74702	0.421
41DAP/39DAP	1.55942	0.293
42DAP/41DAP	1.15755	1
43DAP/42DAP	0.85647	0.765
47DAP/43DAP	1.00369	0.859
52DAP/47DAP	1.41911	0.403
57DAP/52DAP	0.94127	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95127	0.442
17DAP/reference	1.16071	0.049
27DAP/reference	0.98403	0.694
39DAP/reference	0.93047	0.541
41DAP/reference	1.05389	0.48
42DAP/reference	0.88135	0.02
43DAP/reference	1.01348	1
47DAP/reference	0.90515	0.065
52DAP/reference	0.86717	0.25
57DAP/reference	0.75148	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00221	0.871
27DAP/17DAP	1.18578	0.25
39DAP/27DAP	0.88151	0.316
41DAP/39DAP	0.92064	0.68
42DAP/41DAP	1.0916	0.622
43DAP/42DAP	1.00498	1
47DAP/43DAP	0.97116	0.861
52DAP/47DAP	1.10512	0.639
57DAP/52DAP	1.07241	0.906
57DAP/7DAP	1.10593	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85261	0.168
17DAP/reference	0.90267	0.167
27DAP/reference	1.04042	1
39DAP/reference	0.70417	0.018
41DAP/reference	0.72194	0.026
42DAP/reference	0.589	0.014
43DAP/reference	0.81465	0.022
47DAP/reference	0.94216	0.504
52DAP/reference	1.13623	0.563
57DAP/reference	1.05091	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97049	0.669
17DAP/reference	0.96445	0.447
27DAP/reference	0.79903	0.134
39DAP/reference	0.89982	0.227
41DAP/reference	0.80319	0.064
42DAP/reference	0.72604	0.023
43DAP/reference	0.95688	0.494
47DAP/reference	0.90819	0.046
52DAP/reference	0.99322	0.619
57DAP/reference	1.11609	0.462

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9791	0.566
17DAP/reference	0.89863	0.275
27DAP/reference	1.02293	1
39DAP/reference	1.07376	0.711
41DAP/reference	0.92358	0.417
42DAP/reference	0.90446	0.445
43DAP/reference	0.71542	0.197
47DAP/reference	0.94091	0.357
52DAP/reference	1.05458	0.837
57DAP/reference	0.59416	0.045

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08291	0.966
26DAP/20DAP	1.36101	0.347
34DAP/26DAP	0.82376	0.462
51DAP/34DAP	1.33384	0.416
52DAP/51DAP	1.06143	0.758
53DAP/52DAP	0.94728	0.776
55DAP/53DAP	1.10683	0.82
57DAP/55DAP	0.94718	0.664
62DAP/57DAP	1.00008	1
68DAP/62DAP	1.20449	0.672
68DAP/14DAP	0.6526	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99004	0.737

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.58778	0.175
Mature Green Tomato/Ripe Tomato	0.89438	0.347
Immature Eggplant/Mature Eggplant	1.79354	0.05
Ripe Pepper/Ripe Tomato	0.63925	0.224
Mature Eggplant/Ripe Tomato	0.87707	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92406	0.944
1-1-2/M82	0.9558	1
12-2/M82	1.17547	1
12-4/M82	0.97605	1
1-3/M82	0.88922	0.501
2-1-1/M82	0.94216	1
2-1/M82	1.26179	0.32
2-6/M82	0.94361	1
3-2/M82	1.04982	1
4-1-1/M82	0.93449	1
4-1/M82	1.07816	1
4-3-2/M82	0.6414
4-3/M82	0.98072	1
5-3/M82	0.93206	0.642
6-2/M82	0.89049	1
6-3/M82	1.0918	1
7-1/M82	0.8105
7-2/M82	0.92641	0.599
9-3-2/M82	1.12557

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.92813	1
IL2-6/WTpooled	0.91347	1
IL7-5/WTpooled	1.05868	1
IL7-3/WTpooled	1.18192	1
IL12-4/WTpooled	1.17627	0.695
IL1-4/WTpooled	1.05664	1
WT/WTpooled	1.00744	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	1.0097	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0227	0.921
DC3000/delta hrp 6h	1.03154	0.95
DC3000/delta hrp 12h	1.15876	1
DC3000/delta hrp 24h	1.06942	0.422

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.32624	0.355
DC3000 delta B/DC3000 delta AB	0.9093

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05038	1
Exp 36h	0.96	0.879
Exp 60h	0.72224	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99448	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.08056	0.216
Var 12h NI row2-row1	0.95916	0.82
Var 36h I row2-row1	0.97361	1
Var 36h NI row2-row1	1.06994	1
Var 60h I row2-row1	0.87789	0.582
Var 60h NI row2-row1	1.13188	0.904
Time course 0hI-0hNI	1.06631	0.833
Time course 12hI-12hNI	1.00589	0.892
Time course 36hI-36hNI	1.04667	0.651
Time course 60hI-60hNI	1.31245	0.01

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)	1.33788	0.273
transgenic ySAMdc/azygous control (breaker)	1.00095	1
transgenic ySAMdc/azygous control (red)	0.89637	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01831	0.234

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09692	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.76912	0.172
Manapal/WT (break)	0.9192	1
Manapal/WT (red)	0.79857	0.181