Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.1.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27757	0.697
27DAP/17DAP	1.11599	0.859
39DAP/27DAP	0.92263	0.663
41DAP/39DAP	1.26544	0.37
42DAP/41DAP	0.99899	1
43DAP/42DAP	1.275	0.933
47DAP/43DAP	1.3407	0.391
52DAP/47DAP	1.53929	0.304
57DAP/52DAP	1.37647	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94483	0.371
17DAP/reference	0.77943	0.02
27DAP/reference	0.96026	0.525
39DAP/reference	0.89025	0.159
41DAP/reference	0.82764	0.049
42DAP/reference	1.18267	0.125
43DAP/reference	0.90019	0.113
47DAP/reference	1.11948	0.035
52DAP/reference	1.13169	0.217
57DAP/reference	1.11588	0.195

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.73415	0.184
27DAP/17DAP	1.29	0.65
39DAP/27DAP	1.14088	0.643
41DAP/39DAP	0.90481	0.885
42DAP/41DAP	1.10915	1
43DAP/42DAP	1.20598	0.478
47DAP/43DAP	0.98663	0.928
52DAP/47DAP	0.94234	0.807
57DAP/52DAP	1.42194	0.13
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78115	0.08
17DAP/reference	0.8065	0.064
27DAP/reference	0.95964	0.375
39DAP/reference	0.88634	0.17
41DAP/reference	0.87566	0.064
42DAP/reference	0.99008	0.612
43DAP/reference	1.08264	0.511
47DAP/reference	0.94179	0.504
52DAP/reference	0.96305	0.477
57DAP/reference	0.85945	0.149

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99595	0.907
17DAP/reference	0.87661	0.042
27DAP/reference	0.99374	0.686
39DAP/reference	1.06566	0.436
41DAP/reference	0.85595	0.089
42DAP/reference	0.9551	0.289
43DAP/reference	1.10041	0.865
47DAP/reference	0.92045	0.168
52DAP/reference	0.98732	0.576
57DAP/reference	0.9352	0.259

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84205	0.032
17DAP/reference	1.03733	0.833
27DAP/reference	0.9388	0.416
39DAP/reference	0.83863	0.101
41DAP/reference	1.01631	1
42DAP/reference	0.91647	0.361
43DAP/reference	0.96943	0.59
47DAP/reference	1.02986	0.73
52DAP/reference	0.78539	0.065
57DAP/reference	1.11091	0.717

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06579	0.966
26DAP/20DAP	0.8747	0.512
34DAP/26DAP	1.40116	0.819
51DAP/34DAP	1.53862	0.281
52DAP/51DAP	0.84665	1
53DAP/52DAP	1.04415	0.935
55DAP/53DAP	0.88971	0.563
57DAP/55DAP	0.74139	0.061
62DAP/57DAP	1.15901	0.445
68DAP/62DAP	1.17982	0.7
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.70957	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.27282
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.41849	0.224
Mature Eggplant/Ripe Tomato	1.10185	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05063	1
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.05649	0.611
1-3/M82	N/A	N/A
2-1-1/M82	0.88137
2-1/M82	N/A	N/A
2-6/M82	0.91451	1
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.8636
4-3/M82	1.2372
5-3/M82	0.94619	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	0.9995
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.22407	0.365
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.21555	1
IL7-3/WTpooled	1.45009
IL12-4/WTpooled	0.85564	0.581
IL1-4/WTpooled	1.2468	0.125
WT/WTpooled	0.96174	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	1.36522	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93302	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.96072	1
DC3000/delta hrp 24h	0.8429	0.216

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.09881
DC3000 delta B/DC3000 delta AB	0.97201	0.766

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	1.01554	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98518	1
Var 0h	0.96474	1
Var 12h I row2-row1	0.79048	0.514
Var 12h NI row2-row1	1.08959	1
Var 36h I row2-row1	1.00124	1
Var 36h NI row2-row1	1.03079	1
Var 60h I row2-row1	0.56174	0.306
Var 60h NI row2-row1	0.83694	0.483
Time course 0hI-0hNI	1.01604	1
Time course 12hI-12hNI	1.00299	1
Time course 36hI-36hNI	1.47832	0.009
Time course 60hI-60hNI	2.66316	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)	0.96382	0.529
transgenic ySAMdc/azygous control (breaker)	1.07003	1
transgenic ySAMdc/azygous control (red)	0.9685	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99536	0.806

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85246	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.239	0.105
Manapal/WT (break)	0.50225	1
Manapal/WT (red)	2.43771	0.133