Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.9.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.36436	0.403
27DAP/17DAP	1.05325	0.911
39DAP/27DAP	0.91149	0.594
41DAP/39DAP	0.90072	0.591
42DAP/41DAP	0.9958	1
43DAP/42DAP	1.03808	1
47DAP/43DAP	0.94105	0.773
52DAP/47DAP	1.26098	0.676
57DAP/52DAP	1.4075	0.737

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85923	0.083
17DAP/reference	1.10202	0.132
27DAP/reference	0.91151	0.295
39DAP/reference	1.00714	1
41DAP/reference	0.95329	0.434
42DAP/reference	0.99573	0.469
43DAP/reference	0.94522	0.331
47DAP/reference	0.92476	0.207
52DAP/reference	1.10553	0.286
57DAP/reference	0.99625	0.736

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.57957	0.036
27DAP/17DAP	0.90068	0.648
39DAP/27DAP	1.00865	1
41DAP/39DAP	1.00119	1
42DAP/41DAP	1.06199	0.81
43DAP/42DAP	0.76995	0.023
47DAP/43DAP	1.01087	0.973
52DAP/47DAP	1.01091	0.979
57DAP/52DAP	1.06506	0.643
57DAP/7DAP	0.8219	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26036	0.138
17DAP/reference	1.2449	0.07
27DAP/reference	0.9617	0.348
39DAP/reference	1.17328	0.391
41DAP/reference	0.98723	0.619
42DAP/reference	0.97031	0.482
43DAP/reference	0.88059	0.192
47DAP/reference	0.74614	0.168
52DAP/reference	0.87532	0.126
57DAP/reference	1.05304	0.851

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02688	0.852
17DAP/reference	1.34231	0.035
27DAP/reference	0.9917	0.663
39DAP/reference	0.97191	0.428
41DAP/reference	1.09031	0.599
42DAP/reference	0.87224	0.073
43DAP/reference	0.9383	0.378
47DAP/reference	1.06244	0.311
52DAP/reference	0.86676	0.093
57DAP/reference	0.88366	0.243

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0264	0.882
17DAP/reference	0.9761	0.647
27DAP/reference	1.04251	0.805
39DAP/reference	0.96379	0.393
41DAP/reference	0.96344	0.459
42DAP/reference	0.85532	0.108
43DAP/reference	0.96187	0.484
47DAP/reference	0.86733	0.161
52DAP/reference	1.19561	0.209
57DAP/reference	0.99013	0.661

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07418	0.966
26DAP/20DAP	1.46621	0.099
34DAP/26DAP	0.89345	0.531
51DAP/34DAP	0.72547	0.098
52DAP/51DAP	0.89385	1
53DAP/52DAP	1.07485	0.806
55DAP/53DAP	0.99376	0.852
57DAP/55DAP	1.51952	0.185
62DAP/57DAP	1.26284	0.393
68DAP/62DAP	1.44298	0.305
68DAP/14DAP	0.96523

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.42121	0.017

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.50977	0.058
Mature Green Tomato/Ripe Tomato	1.39625	0.119
Immature Eggplant/Mature Eggplant	0.9801	1
Ripe Pepper/Ripe Tomato	1.13146	1
Mature Eggplant/Ripe Tomato	1.29429	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91731	0.944
1-1-2/M82	1.09406	1
12-2/M82	0.85586	0.955
12-4/M82	1.08151	1
1-3/M82	1.82373	0.248
2-1-1/M82	0.99718	1
2-1/M82	0.73438	0.519
2-6/M82	0.89821	1
3-2/M82	1.79461
4-1-1/M82	1.56051	1
4-1/M82	1.00817	1
4-3-2/M82	0.95636	1
4-3/M82	0.93039	1
5-3/M82	1.22742	1
6-2/M82	1.7574	0.253
6-3/M82	0.86264	1
7-1/M82	1.41612	0.925
7-2/M82	1.33884	0.324
9-3-2/M82	1.04933	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.8426
IL7-5/WTpooled	0.98122
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.37932
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	1.06346	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06187	0.692
DC3000/delta hrp 6h	0.9264	0.95
DC3000/delta hrp 12h	1.02497	1
DC3000/delta hrp 24h	1.39175	0.095

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.76587
DC3000 delta B/DC3000 delta AB	1.59693	0.105

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.13931	1
Exp 36h	1.07048	1
Exp 60h	1.02144	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0384	1
Var 0h	1.04022	1
Var 12h I row2-row1	1.2821	0.58
Var 12h NI row2-row1	1.09569	0.649
Var 36h I row2-row1	0.90611	0.805
Var 36h NI row2-row1	1.08297	0.482
Var 60h I row2-row1	0.85914	0.439
Var 60h NI row2-row1	1.10354	0.904
Time course 0hI-0hNI	1.05125	0.852
Time course 12hI-12hNI	0.9893	0.968
Time course 36hI-36hNI	1.15455	0.023
Time course 60hI-60hNI	1.21952	0.053

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)	1.09135	0.283
transgenic ySAMdc/azygous control (breaker)	1.26263	0.248
transgenic ySAMdc/azygous control (red)	1.04693	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93484	0.371

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.74743	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.59462	0.172
Manapal/WT (break)	0.60733	0.299
Manapal/WT (red)	0.9225	0.424