Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.18.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1145	0.851
27DAP/17DAP	1.19428	0.841
39DAP/27DAP	0.98833	0.719
41DAP/39DAP	1.32224	0.728
42DAP/41DAP	1.7012	0.059
43DAP/42DAP	0.96855	0.909
47DAP/43DAP	0.90901	0.687
52DAP/47DAP	0.86005	0.618
57DAP/52DAP	1.2092	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89646	0.2
17DAP/reference	1.00785	0.858
27DAP/reference	1.01883	0.867
39DAP/reference	0.981	0.779
41DAP/reference	1.03383	0.552
42DAP/reference	1.09543	0.632
43DAP/reference	1.20168	0.078
47DAP/reference	1.1601	0.089
52DAP/reference	0.96128	0.438
57DAP/reference	0.96096	0.377

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14597	0.29
27DAP/17DAP	0.92849	0.58
39DAP/27DAP	1.33613	0.062
41DAP/39DAP	0.8533	0.495
42DAP/41DAP	1.27432	0.134
43DAP/42DAP	2.04805	0.013
47DAP/43DAP	1.06151	0.941
52DAP/47DAP	1.16366	0.494
57DAP/52DAP	1.08761	0.732
57DAP/7DAP	1.29842	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95175	0.495
17DAP/reference	0.81024	0.012
27DAP/reference	0.80187	0.016
39DAP/reference	0.86631	0.064
41DAP/reference	0.86674	0.052
42DAP/reference	0.95827	0.304
43DAP/reference	0.97575	0.48
47DAP/reference	1.05234	0.804
52DAP/reference	0.9197	0.163
57DAP/reference	0.82261	0.033

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97278	0.688
17DAP/reference	0.84829	0.009
27DAP/reference	0.96061	0.452
39DAP/reference	0.8309	0.136
41DAP/reference	0.81358	0.018
42DAP/reference	0.78046	0.046
43DAP/reference	1.02085	0.863
47DAP/reference	0.91872	0.284
52DAP/reference	0.92971	0.156
57DAP/reference	0.92329	0.361

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97214	0.455
17DAP/reference	0.85652	0.186
27DAP/reference	0.75301	0.03
39DAP/reference	0.75201	0.018
41DAP/reference	0.86081	0.132
42DAP/reference	1.04313	0.877
43DAP/reference	1.00753	0.961
47DAP/reference	1.13311	0.081
52DAP/reference	0.71459	0.111
57DAP/reference	0.9005	0.229

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.22614	1
26DAP/20DAP	1.04138	1
34DAP/26DAP	1.17047	1
51DAP/34DAP	1.03293	0.962
52DAP/51DAP	0.97519	1
53DAP/52DAP	0.87592	0.465
55DAP/53DAP	0.85791	0.577
57DAP/55DAP	1.20628	0.779
62DAP/57DAP	1.35068	0.515
68DAP/62DAP	1.132	1
68DAP/14DAP	0.88406	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.50385	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.04407	0.05
Mature Green Tomato/Ripe Tomato	0.33141	0.019
Immature Eggplant/Mature Eggplant	0.40304
Ripe Pepper/Ripe Tomato	0.83034	0.224
Mature Eggplant/Ripe Tomato	0.04298	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.37046	0.877
1-1-2/M82	1.16122	1
12-2/M82	1.06664	1
12-4/M82	0.90654	0.619
1-3/M82	1.37259	0.277
2-1-1/M82	1.08897	1
2-1/M82	1.21884	1
2-6/M82	0.78216	1
3-2/M82	1.37154	0.84
4-1-1/M82	0.90035	1
4-1/M82	1.09383
4-3-2/M82	0.90674	1
4-3/M82	1.53455	1
5-3/M82	0.98491	1
6-2/M82	0.94107	1
6-3/M82	1.07278	1
7-1/M82	1.22975
7-2/M82	1.11139	1
9-3-2/M82	1.12023

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.78382	0.277
IL2-6/WTpooled	0.51035	0.473
IL7-5/WTpooled	0.85278	1
IL7-3/WTpooled	1.79989	1
IL12-4/WTpooled	1.08225	1
IL1-4/WTpooled	1.67132
WT/WTpooled	1.06821	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	0.97729	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.18071	0.774
DC3000/delta hrp 6h	0.50635
DC3000/delta hrp 12h	1.05068	1
DC3000/delta hrp 24h	0.70815	0.034

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.897	1
Exp 36h	0.83518	0.661
Exp 60h	0.99563	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94947	1
Var 0h	0.90151	0.933
Var 12h I row2-row1	0.93211	0.856
Var 12h NI row2-row1	1.1707	0.649
Var 36h I row2-row1	1.23175	0.309
Var 36h NI row2-row1	0.97652	0.852
Var 60h I row2-row1	0.7278	0.293
Var 60h NI row2-row1	0.98933	1
Time course 0hI-0hNI	1.02564	0.867
Time course 12hI-12hNI	0.94753	0.377
Time course 36hI-36hNI	0.97118	0.476
Time course 60hI-60hNI	1.28176	0.029

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)	1.03911	0.863
transgenic ySAMdc/azygous control (breaker)	0.98085	1
transgenic ySAMdc/azygous control (red)	1.1199	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92016	0.095

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.83811	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.0771	0.084
Manapal/WT (break)	1.08979	1
Manapal/WT (red)	1.43725	0.413