Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.13.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0411	0.951
27DAP/17DAP	1.55093	0.539
39DAP/27DAP	1.02164	0.876
41DAP/39DAP	0.94119	0.756
42DAP/41DAP	1.2545	0.82
43DAP/42DAP	1.07204	1
47DAP/43DAP	1.47741	0.527
52DAP/47DAP	1.03018	0.927
57DAP/52DAP	0.80337	0.673

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90054	0.177
17DAP/reference	1.0147	0.843
27DAP/reference	1.01939	0.806
39DAP/reference	0.98425	0.779
41DAP/reference	0.9525	0.542
42DAP/reference	0.95813	0.225
43DAP/reference	0.92866	0.118
47DAP/reference	0.83144	0.004
52DAP/reference	0.91304	0.172
57DAP/reference	0.97712	0.503

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83268	0.164
27DAP/17DAP	1.08369	0.887
39DAP/27DAP	1.08867	0.636
41DAP/39DAP	0.8009	0.236
42DAP/41DAP	0.94147	0.568
43DAP/42DAP	1.34409	0.072
47DAP/43DAP	0.94055	0.823
52DAP/47DAP	1.26972	0.31
57DAP/52DAP	1.35437	0.096
57DAP/7DAP	1.28635	0.22

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04496	0.545
17DAP/reference	0.97264	0.108
27DAP/reference	0.96116	0.2
39DAP/reference	0.88788	0.011
41DAP/reference	0.78837	0.016
42DAP/reference	0.75567	0.01
43DAP/reference	0.76964	0.015
47DAP/reference	0.82357	0.168
52DAP/reference	0.82812	0.02
57DAP/reference	0.82724	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87839	0.353
17DAP/reference	0.86841	0.116
27DAP/reference	0.81152	0.104
39DAP/reference	0.91629	0.235
41DAP/reference	0.87835	0.096
42DAP/reference	0.8939	0.189
43DAP/reference	1.0191	0.646
47DAP/reference	0.90474	0.105
52DAP/reference	1.00185	0.761
57DAP/reference	1.00294	0.61

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10828	0.149
17DAP/reference	0.97376	0.508
27DAP/reference	0.97718	0.516
39DAP/reference	0.9264	0.04
41DAP/reference	0.97386	0.371
42DAP/reference	0.9551	0.287
43DAP/reference	0.84607	0.084
47DAP/reference	0.98429	0.593
52DAP/reference	1.057	0.759
57DAP/reference	0.9941	0.693

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09857	0.966
26DAP/20DAP	0.4423	0.228
34DAP/26DAP	0.81173	0.272
51DAP/34DAP	0.82385	0.19
52DAP/51DAP	0.87871	1
53DAP/52DAP	0.8208	0.329
55DAP/53DAP	0.95064	0.746
57DAP/55DAP	1.33718	0.975
62DAP/57DAP	1.33827	0.018
68DAP/62DAP	1.1074	0.95
68DAP/14DAP	1.37218	0.802

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.15677	0.14

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.64094	0.194
Mature Green Tomato/Ripe Tomato	1.16331	0.363
Immature Eggplant/Mature Eggplant	0.52633	0.062
Ripe Pepper/Ripe Tomato	0.72522	0.293
Mature Eggplant/Ripe Tomato	0.8776	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05335	0.877
1-1-2/M82	1.07518	1
12-2/M82	1.365	1
12-4/M82	0.98458	1
1-3/M82	1.01697	1
2-1-1/M82	1.05696	1
2-1/M82	1.09204	1
2-6/M82	0.98873	1
3-2/M82	1.09746
4-1-1/M82	1.02233	1
4-1/M82	1.34808
4-3-2/M82	0.98035
4-3/M82	0.87944	0.72
5-3/M82	0.86574	0.49
6-2/M82	1.37951	0.235
6-3/M82	1.18373	1
7-1/M82	0.78572
7-2/M82	0.96559	0.881
9-3-2/M82	0.94192	1

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	0.93502	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00877	1
DC3000/delta hrp 6h	1.12868	1
DC3000/delta hrp 12h	0.96666	1
DC3000/delta hrp 24h	0.88204	0.194

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	0.82383	0.307

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8574	1
Exp 36h	0.91048	0.749
Exp 60h	0.62082	0.249

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02778	1
Var 0h	1.18257	0.594
Var 12h I row2-row1	1.01956	0.692
Var 12h NI row2-row1	0.8874	0.494
Var 36h I row2-row1	0.84067	1
Var 36h NI row2-row1	1.34416	1
Var 60h I row2-row1	0.88894	0.832
Var 60h NI row2-row1	1.31459	0.691
Time course 0hI-0hNI	1.03946	0.852
Time course 12hI-12hNI	0.93897	0.501
Time course 36hI-36hNI	0.82081	0.024
Time course 60hI-60hNI	0.57244	0.007

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)	0.90872	0.391
transgenic ySAMdc/azygous control (breaker)	0.67759	0.139
transgenic ySAMdc/azygous control (red)	1.07988	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04513	0.135

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.90888	0.227

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.01708	1
Manapal/WT (break)	0.89329	1
Manapal/WT (red)	0.76925	0.181