Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.15.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06279	0.851
27DAP/17DAP	1.17057	0.833
39DAP/27DAP	0.94107	0.652
41DAP/39DAP	1.32278	0.363
42DAP/41DAP	1.12653	0.931
43DAP/42DAP	0.96824	0.91
47DAP/43DAP	1.08096	0.702
52DAP/47DAP	1.17495	0.596
57DAP/52DAP	1.07279	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97763	0.55
17DAP/reference	1.04179	0.229
27DAP/reference	1.05099	0.106
39DAP/reference	1.01841	0.524
41DAP/reference	0.97729	0.667
42DAP/reference	0.97203	0.151
43DAP/reference	1.02835	0.495
47DAP/reference	1.03413	0.448
52DAP/reference	0.94925	0.35
57DAP/reference	0.96625	0.395

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01298	0.99
27DAP/17DAP	0.98326	0.878
39DAP/27DAP	1.00594	0.862
41DAP/39DAP	1.06762	0.753
42DAP/41DAP	1.00843	1
43DAP/42DAP	0.97826	0.576
47DAP/43DAP	0.9854	0.923
52DAP/47DAP	0.98788	0.93
57DAP/52DAP	0.98723	0.784
57DAP/7DAP	1.01499	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92317	0.224
17DAP/reference	0.90011	0.02
27DAP/reference	0.80141	0.01
39DAP/reference	0.87981	0.011
41DAP/reference	0.8386	0.02
42DAP/reference	0.87528	0.07
43DAP/reference	0.91993	0.069
47DAP/reference	0.92976	0.168
52DAP/reference	0.9929	0.621
57DAP/reference	0.92031	0.097

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93535	0.105
17DAP/reference	0.94535	0.075
27DAP/reference	0.91993	0.249
39DAP/reference	0.90641	0.099
41DAP/reference	0.9624	0.348
42DAP/reference	0.96777	0.433
43DAP/reference	0.91483	0.135
47DAP/reference	0.98859	0.527
52DAP/reference	0.9556	0.156
57DAP/reference	1.02912	0.688

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95199	0.489
17DAP/reference	0.95744	0.452
27DAP/reference	0.85333	0.038
39DAP/reference	0.87104	0.028
41DAP/reference	0.9465	0.417
42DAP/reference	0.87485	0.032
43DAP/reference	0.882	0.092
47DAP/reference	1.00124	0.754
52DAP/reference	0.84665	0.256
57DAP/reference	0.82676	0.067

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97143	1
26DAP/20DAP	0.91611	0.512
34DAP/26DAP	1.03186	0.542
51DAP/34DAP	1.0092	0.962
52DAP/51DAP	1.01444	0.904
53DAP/52DAP	1.02604	0.921
55DAP/53DAP	0.92804	0.53
57DAP/55DAP	1.05358	0.643
62DAP/57DAP	0.97352	0.994
68DAP/62DAP	0.83923	0.195
68DAP/14DAP	0.96781	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92822	0.065

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.22921	0.417
Mature Green Tomato/Ripe Tomato	0.68275	0.072
Immature Eggplant/Mature Eggplant	1.25682	0.198
Ripe Pepper/Ripe Tomato	1.13113	1
Mature Eggplant/Ripe Tomato	1.93264

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9807	0.944
1-1-2/M82	0.88001	1
12-2/M82	0.96721	0.955
12-4/M82	0.91343	0.619
1-3/M82	0.97208	0.501
2-1-1/M82	1.03059	1
2-1/M82	1.2068
2-6/M82	0.9583	1
3-2/M82	1.04542	0.967
4-1-1/M82	1.04093	1
4-1/M82	0.90156	1
4-3-2/M82	0.92086	0.698
4-3/M82	1.06047	1
5-3/M82	1.00108	1
6-2/M82	0.98722	1
6-3/M82	1.08186	1
7-1/M82	0.98097
7-2/M82	0.93427	0.796
9-3-2/M82	0.84187	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.09545	0.365
IL2-6/WTpooled	0.9242	1
IL7-5/WTpooled	0.92012	1
IL7-3/WTpooled	1.15277	0.362
IL12-4/WTpooled	1.07341	0.785
IL1-4/WTpooled	1.14307	1
WT/WTpooled	1.00681	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	1.71683	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02866	0.875
DC3000/delta hrp 6h	1.20158	1
DC3000/delta hrp 12h	0.96413	1
DC3000/delta hrp 24h	1.01106	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.12365	0.11
DC3000 delta B/DC3000 delta AB	1.12958	0.304

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

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

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98459	1
Var 0h	0.16332	1
Var 12h I row2-row1	1.17449	0.196
Var 12h NI row2-row1	0.95104	0.82
Var 36h I row2-row1	0.93384	0.805
Var 36h NI row2-row1	1.26872	1
Var 60h I row2-row1	0.99686	1
Var 60h NI row2-row1	1.04006	1
Time course 0hI-0hNI	1.04702	1
Time course 12hI-12hNI	1.04777	0.668
Time course 36hI-36hNI	1.10041	0.316
Time course 60hI-60hNI	1.64525	0.008

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)	1.00277	1
transgenic ySAMdc/azygous control (breaker)	1.08595	1
transgenic ySAMdc/azygous control (red)	1.52411	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98659	0.383

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87753	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.68219	0.172
Manapal/WT (break)	0.87696	1
Manapal/WT (red)	0.85117	0.315