Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.19.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18745	0.359
27DAP/17DAP	1.15312	0.845
39DAP/27DAP	1.20319	0.949
41DAP/39DAP	1.0842	0.85
42DAP/41DAP	1.27653	0.519
43DAP/42DAP	0.97639	0.912
47DAP/43DAP	1.04224	0.959
52DAP/47DAP	0.68691	0.265
57DAP/52DAP	1.1397	0.918

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08102	0.544
17DAP/reference	0.65122	0.012
27DAP/reference	0.76241	0.011
39DAP/reference	0.75353	0.025
41DAP/reference	0.63761	0.008
42DAP/reference	1.06209	0.931
43DAP/reference	0.6375	0.18
47DAP/reference	1.10341	0.627
52DAP/reference	0.93003	0.405
57DAP/reference	1.01869

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02608	0.947
27DAP/17DAP	1.01647	0.957
39DAP/27DAP	1.0411	0.646
41DAP/39DAP	1.00097	1
42DAP/41DAP	0.96746	0.679
43DAP/42DAP	1.0278	0.478
47DAP/43DAP	0.985	0.902
52DAP/47DAP	0.97741	0.886
57DAP/52DAP	0.95644	0.451
57DAP/7DAP	0.92839	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98021	0.55
17DAP/reference	0.91022	0.082
27DAP/reference	0.90169	0.013
39DAP/reference	1.07075	0.371
41DAP/reference	1.11102	0.117
42DAP/reference	0.93208	0.2
43DAP/reference	1.02696	0.83
47DAP/reference	1.14648	0.195
52DAP/reference	1.01286	1
57DAP/reference	0.92642	0.156

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06567	0.724
17DAP/reference	1.13022	0.415
27DAP/reference	1.2261	0.244
39DAP/reference	1.10339	0.67
41DAP/reference	1.54156	0.014
42DAP/reference	1.25312	0.076
43DAP/reference	0.77583	0.102
47DAP/reference	1.16542	0.112
52DAP/reference	0.8203	0.018
57DAP/reference	0.80338	0.023

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8893	0.029
17DAP/reference	1.03034	0.966
27DAP/reference	0.90015	0.036
39DAP/reference	0.83378	0.009
41DAP/reference	1.04662	0.657
42DAP/reference	1.17944	0.433
43DAP/reference	1.43395	0.126
47DAP/reference	1.0982	0.76
52DAP/reference	1.03391	1
57DAP/reference	1.61714	0.031

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15978	0.966
26DAP/20DAP	0.97413	1
34DAP/26DAP	1.03306	1
51DAP/34DAP	1.01542	0.936
52DAP/51DAP	0.94202	1
53DAP/52DAP	0.9825	0.97
55DAP/53DAP	0.94375	0.363
57DAP/55DAP	1.13972	0.167
62DAP/57DAP	0.89528	0.681
68DAP/62DAP	1.10441	0.565
68DAP/14DAP	1.4056	0.041

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99052	0.696

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.97529	0.745
Mature Green Tomato/Ripe Tomato	0.63245	0.06
Immature Eggplant/Mature Eggplant	1.28385	0.058
Ripe Pepper/Ripe Tomato	0.6946	1
Mature Eggplant/Ripe Tomato	0.72516	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.92564
12-2/M82	1.20867
12-4/M82	1.13199	1
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	1.29776
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	1.27115
5-3/M82	0.881	0.642
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.12153
7-2/M82	1.19264	1
9-3-2/M82	1.60392

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.88011
IL2-6/WTpooled	2.22327	0.395
IL7-5/WTpooled	0.65944	1
IL7-3/WTpooled	0.59868	0.298
IL12-4/WTpooled	1.21461	0.737
IL1-4/WTpooled	1.04004	1
WT/WTpooled	0.9698	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	1.05464	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91664	1
DC3000/delta hrp 6h	1.00121	0.95
DC3000/delta hrp 12h	1.13758	1
DC3000/delta hrp 24h	0.93676	0.585

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07517	0.25
DC3000 delta B/DC3000 delta AB	1.08624	0.415

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01501	1
Exp 36h	1.30691	0.693
Exp 60h	1.17322	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98016	1
Var 0h	0.69102	0.933
Var 12h I row2-row1	0.98215	0.856
Var 12h NI row2-row1	0.9787	0.906
Var 36h I row2-row1	0.95078	1
Var 36h NI row2-row1	0.97757	0.645
Var 60h I row2-row1	1.09215	1
Var 60h NI row2-row1	1.01379	1
Time course 0hI-0hNI	0.93588	0.347
Time course 12hI-12hNI	1.04635	0.354
Time course 36hI-36hNI	0.93595	0.352
Time course 60hI-60hNI	0.83326	0.011

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)	1.02803	0.408
transgenic ySAMdc/azygous control (breaker)	1.06613	1
transgenic ySAMdc/azygous control (red)	1.14456	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07529	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.01246	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.82602	0.333
Manapal/WT (red)	1.13991	0.222