Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-7.4.18.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.70066	0.166
27DAP/17DAP	2.02213	0.793
39DAP/27DAP	1.37372	0.301
41DAP/39DAP	0.86113	0.422
42DAP/41DAP	0.75082	0.774
43DAP/42DAP	0.90958	0.829
47DAP/43DAP	0.80176	0.39
52DAP/47DAP	1.14592	0.949
57DAP/52DAP	1.30952	0.894

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.47168	0.013
17DAP/reference	1.05805	0.248
27DAP/reference	1.01768	0.831
39DAP/reference	0.91084	0.1
41DAP/reference	1.06902	0.393
42DAP/reference	1.4968	0.001
43DAP/reference	0.97188	0.594
47DAP/reference	1.14872	0.015
52DAP/reference	1.23978	0.056
57DAP/reference	1.00342	0.671

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98865	0.75
27DAP/17DAP	0.77179	0.363
39DAP/27DAP	1.01557	1
41DAP/39DAP	1.68447	0.347
42DAP/41DAP	1.03046	1
43DAP/42DAP	0.9053	0.321
47DAP/43DAP	1.05099	0.892
52DAP/47DAP	0.98888	0.93
57DAP/52DAP	1.08874	0.622
57DAP/7DAP	1.11607	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93488	0.402
17DAP/reference	0.75707	0.012
27DAP/reference	0.69786	0.01
39DAP/reference	0.92701	0.146
41DAP/reference	0.92418	0.259
42DAP/reference	0.84393	0.044
43DAP/reference	0.78072	0.014
47DAP/reference	0.9789	0.671
52DAP/reference	0.86117	0.097
57DAP/reference	0.89714	0.199

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28654	0.172
17DAP/reference	1.48953	0.007
27DAP/reference	1.60705	0.02
39DAP/reference	1.39246	0.027
41DAP/reference	1.74348	0.007
42DAP/reference	1.37056	0.096
43DAP/reference	1.11246	1
47DAP/reference	1.33735	0.098
52DAP/reference	1.31841	0.013
57DAP/reference	1.3934	0.009

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88895	0.127
17DAP/reference	1.03807	0.912
27DAP/reference	0.85174	0.126
39DAP/reference	0.91688	0.133
41DAP/reference	0.90363	0.237
42DAP/reference	0.8853	0.287
43DAP/reference	1.21703	0.655
47DAP/reference	1.03226	1
52DAP/reference	0.88336	0.342
57DAP/reference	3.15823	0.028

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98239	1
26DAP/20DAP	0.82572	0.244
34DAP/26DAP	1.16631	1
51DAP/34DAP	0.88267	0.522
52DAP/51DAP	1.83452	0.404
53DAP/52DAP	0.84619	0.64
55DAP/53DAP	1.02185	1
57DAP/55DAP	1.11857	0.311
62DAP/57DAP	0.96668	0.871
68DAP/62DAP	0.75723	0.166
68DAP/14DAP	0.68079	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.58107	0.172

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.15011	0.089
Mature Green Tomato/Ripe Tomato	1.23216	N/A
Immature Eggplant/Mature Eggplant	1.68157	0.092
Ripe Pepper/Ripe Tomato	0.57928	0.224
Mature Eggplant/Ripe Tomato	2.56256	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.65155	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.69465	N/A
IL7-3/WTpooled	1.13647	1
IL12-4/WTpooled	0.94858	N/A
IL1-4/WTpooled	0.8333	0.834
WT/WTpooled	1.01164	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	1.08414	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00205	1
DC3000/delta hrp 6h	0.94715	0.95
DC3000/delta hrp 12h	1.12087	1
DC3000/delta hrp 24h	1.05809	0.797

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	0.50453	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02855	1
Exp 36h	1.32178	0.409
Exp 60h	0.9855	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99732	1
Var 0h	0.97677	1
Var 12h I row2-row1	0.83122	0.338
Var 12h NI row2-row1	0.89425	0.82
Var 36h I row2-row1	1.14047	1
Var 36h NI row2-row1	1.41786	0.276
Var 60h I row2-row1	1.30585	0.448
Var 60h NI row2-row1	0.8726	0.866
Time course 0hI-0hNI	0.98785	0.991
Time course 12hI-12hNI	0.88498	0.052
Time course 36hI-36hNI	0.80517	0.042
Time course 60hI-60hNI	0.80688	0.081

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)	1.73936	0.384
transgenic ySAMdc/azygous control (breaker)	0.42057	0.142
transgenic ySAMdc/azygous control (red)	1.31422	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98939	0.712

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.33996	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0902	1
Manapal/WT (break)	1.49031	1
Manapal/WT (red)	0.76352	0.36