Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.2.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02586	0.901
27DAP/17DAP	1.20187	0.793
39DAP/27DAP	2.20123	0.329
41DAP/39DAP	1.02352	0.839
42DAP/41DAP	0.95983	1
43DAP/42DAP	0.87319	0.741
47DAP/43DAP	0.71195	0.234
52DAP/47DAP	1.62308	0.269
57DAP/52DAP	0.75186	0.602

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94473	0.379
17DAP/reference	0.80985	0.013
27DAP/reference	0.98991	0.741
39DAP/reference	0.89462	0.146
41DAP/reference	0.75686	0.009
42DAP/reference	0.94629	0.196
43DAP/reference	0.92797	0.222
47DAP/reference	0.98743	0.535
52DAP/reference	1.35197	0.229
57DAP/reference	1.24807	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90241	0.496
27DAP/17DAP	1.0452	0.969
39DAP/27DAP	1.10971	0.611
41DAP/39DAP	1.78167	0.009
42DAP/41DAP	0.7362	0.072
43DAP/42DAP	1.37723	0.022
47DAP/43DAP	1.45881	0.028
52DAP/47DAP	0.76454	0.103
57DAP/52DAP	1.42084	0.097
57DAP/7DAP	1.13398	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88206	0.224
17DAP/reference	1.12625	0.822
27DAP/reference	1.19998	0.664
39DAP/reference	1.00288	0.64
41DAP/reference	1.25935	0.109
42DAP/reference	1.23144	0.308
43DAP/reference	1.38187	0.043
47DAP/reference	1.1434	0.272
52DAP/reference	1.47952	0.081
57DAP/reference	1.37545	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90086	0.248
17DAP/reference	0.84486	0.099
27DAP/reference	1.03761	0.888
39DAP/reference	1.28932	0.046
41DAP/reference	1.14305	0.183
42DAP/reference	1.12135	0.136
43DAP/reference	1.04305	0.939
47DAP/reference	0.92815	0.184
52DAP/reference	1.04096	0.789
57DAP/reference	0.83317	0.135

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27589	0.196
17DAP/reference	1.12094	0.496
27DAP/reference	0.92083	0.49
39DAP/reference	1.32817	0.528
41DAP/reference	1.13164	0.754
42DAP/reference	1.39138	0.131
43DAP/reference	1.35201	0.452
47DAP/reference	1.06909	0.372
52DAP/reference	1.0395	0.826
57DAP/reference	1.54228	0.009

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.3124	0.43
26DAP/20DAP	0.72722
34DAP/26DAP	1.26037	1
51DAP/34DAP	0.73937	0.376
52DAP/51DAP	0.98312	1
53DAP/52DAP	0.59491	0.527
55DAP/53DAP	1.19479	0.666
57DAP/55DAP	0.91985	0.644
62DAP/57DAP	2.08137
68DAP/62DAP	2.32029	0.056
68DAP/14DAP	3.07725

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.87777	0.055

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.82678	0.41
Mature Green Tomato/Ripe Tomato	0.37733	0.017
Immature Eggplant/Mature Eggplant	0.63485	0.064
Ripe Pepper/Ripe Tomato	0.19159	0.224
Mature Eggplant/Ripe Tomato	0.4365	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.29506	0.877
1-1-2/M82	1.47634	1
12-2/M82	1.87071	0.519
12-4/M82	1.07169	1
1-3/M82	1.29707	1
2-1-1/M82	0.87704	0.92
2-1/M82	0.74443	0.325
2-6/M82	1.23549	0.452
3-2/M82	1.20112
4-1-1/M82	1.01348	1
4-1/M82	1.48001	0.853
4-3-2/M82	1.2924
4-3/M82	1.34159	1
5-3/M82	0.7423	0.642
6-2/M82	1.94404	0.253
6-3/M82	0.96737	1
7-1/M82	1.15802	1
7-2/M82	1.03016	1
9-3-2/M82	1.36621

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.97822	1
IL2-6/WTpooled	1.01787	1
IL7-5/WTpooled	0.86497	1
IL7-3/WTpooled	0.93266	0.418
IL12-4/WTpooled	0.90673	1
IL1-4/WTpooled	1.05344	1
WT/WTpooled	1.08349	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	0.84128

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12803	0.75
DC3000/delta hrp 6h	0.93432	0.95
DC3000/delta hrp 12h	1.02317	1
DC3000/delta hrp 24h	1.0781	0.264

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	0.95378	1
Exp 36h	1.59963	0.489
Exp 60h	2.12795	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9569	1
Var 0h	0.94892	1
Var 12h I row2-row1	0.68369	0.363
Var 12h NI row2-row1	0.89066	0.82
Var 36h I row2-row1	1.01507	1
Var 36h NI row2-row1	1.01617	0.852
Var 60h I row2-row1	0.71791	0.582
Var 60h NI row2-row1	1.08846	0.904
Time course 0hI-0hNI	0.98219	0.95
Time course 12hI-12hNI	0.87932	0.194
Time course 36hI-36hNI	2.96187	0.004
Time course 60hI-60hNI	3.45155	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)	1.17842	0.541
transgenic ySAMdc/azygous control (breaker)	2.06407	0.178
transgenic ySAMdc/azygous control (red)	1.18637	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03036	0.089

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.45273	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02744	1
Manapal/WT (break)	0.6091	0.333
Manapal/WT (red)	0.44093	0.181