Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.13.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15628	0.838
27DAP/17DAP	1.38579	0.588
39DAP/27DAP	0.93453	0.652
41DAP/39DAP	1.2172	0.522
42DAP/41DAP	1.4155	0.455
43DAP/42DAP	1.10935	0.954
47DAP/43DAP	1.04412	0.793
52DAP/47DAP	0.77514	0.442
57DAP/52DAP	1.02932	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88628	0.06
17DAP/reference	1.01875	0.764
27DAP/reference	1.0078	1
39DAP/reference	1.02119	1
41DAP/reference	1.04347	0.516
42DAP/reference	0.95881	0.188
43DAP/reference	0.97432	0.611
47DAP/reference	0.95767	0.174
52DAP/reference	0.85155	0.091
57DAP/reference	0.91416	0.262

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94648	0.56
27DAP/17DAP	1.1009	0.632
39DAP/27DAP	0.93159	0.673
41DAP/39DAP	1.23827	0.748
42DAP/41DAP	1.06554	0.773
43DAP/42DAP	1.05364	0.554
47DAP/43DAP	1.08009	0.61
52DAP/47DAP	1.13049	0.598
57DAP/52DAP	1.02878	0.874
57DAP/7DAP	1.3101	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26323	0.274
17DAP/reference	1.13803	0.162
27DAP/reference	1.13797	0.088
39DAP/reference	1.26209	0.021
41DAP/reference	1.33355	0.159
42DAP/reference	1.26324	0.059
43DAP/reference	1.36742	0.008
47DAP/reference	0.92639	0.504
52DAP/reference	1.11111	0.832
57DAP/reference	1.1953	0.024

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01193	0.965
17DAP/reference	0.84448	0.095
27DAP/reference	0.94288	0.381
39DAP/reference	0.85561	0.11
41DAP/reference	0.89177	0.141
42DAP/reference	0.90506	0.189
43DAP/reference	0.86129	0.049
47DAP/reference	1.01912	0.833
52DAP/reference	0.90833	0.037
57DAP/reference	1.02527	0.916

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11874	0.18
17DAP/reference	0.91175	0.308
27DAP/reference	1.38795	0.052
39DAP/reference	1.12998	0.084
41DAP/reference	0.95827	0.459
42DAP/reference	0.98959	0.671
43DAP/reference	0.89511	0.348
47DAP/reference	0.94268	0.306
52DAP/reference	1.09835	0.77
57DAP/reference	0.7436	0.029

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02993	1
26DAP/20DAP	0.79299	0.317
34DAP/26DAP	1.08662	1
51DAP/34DAP	1.02156	0.988
52DAP/51DAP	0.91066	1
53DAP/52DAP	1.14636	0.565
55DAP/53DAP	0.99863	0.908
57DAP/55DAP	1.08479	0.915
62DAP/57DAP	1.19549	0.935
68DAP/62DAP	0.84054	0.406
68DAP/14DAP	0.90484	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.72558	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.96583	0.611
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.13437

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.65359	0.801
12-2/M82	N/A	N/A
12-4/M82	0.80108	0.619
1-3/M82	0.90705
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.95682
4-1-1/M82	N/A	N/A
4-1/M82	1.05419	1
4-3-2/M82	0.7519
4-3/M82	N/A	N/A
5-3/M82	0.96473	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.74835	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.50453	0.361
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.06571	1
IL12-4/WTpooled	1.19824	0.557
IL1-4/WTpooled	0.80669	0.699
WT/WTpooled	0.99153	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	0.68351	0.136

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02896	1
DC3000/delta hrp 6h	0.94561
DC3000/delta hrp 12h	1.11123	1
DC3000/delta hrp 24h	1.71826	0.028

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.48878	0.05
DC3000 delta B/DC3000 delta AB	1.20629	0.215

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.13139	1
Exp 36h	1.13923	1
Exp 60h	1.31273	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99513	1
Var 0h	0.47026	0.933
Var 12h I row2-row1	1.17219	0.692
Var 12h NI row2-row1	0.86356	0.494
Var 36h I row2-row1	0.66606	1
Var 36h NI row2-row1	1.28038	0.253
Var 60h I row2-row1	1.15241	0.271
Var 60h NI row2-row1	1.12934	0.904
Time course 0hI-0hNI	1.00855	1
Time course 12hI-12hNI	0.77469	0.033
Time course 36hI-36hNI	0.62725	0.211
Time course 60hI-60hNI	0.37794	0.006

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)	0.83043	0.286
transgenic ySAMdc/azygous control (breaker)	0.78135	0.49
transgenic ySAMdc/azygous control (red)	1.04372	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95185	0.112

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.79456	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.72119	1
Manapal/WT (break)	1.01031	1
Manapal/WT (red)	1.35773	0.413