Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.2.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82714	0.318
27DAP/17DAP	1.13334	1
39DAP/27DAP	1.71546	0.078
41DAP/39DAP	0.71045	0.148
42DAP/41DAP	1.09782	0.941
43DAP/42DAP	0.89644	0.741
47DAP/43DAP	0.66641	0.132
52DAP/47DAP	1.25872	0.641
57DAP/52DAP	1.04956	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17547	0.17
17DAP/reference	1.08571	0.457
27DAP/reference	0.99741	0.867
39DAP/reference	1.24864	0.068
41DAP/reference	1.08859	0.241
42DAP/reference	1.20705	0.004
43DAP/reference	1.18429	0.202
47DAP/reference	1.16343	0.005
52DAP/reference	1.04817	1
57DAP/reference	1.35187	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15132	0.168
27DAP/17DAP	1.01476	0.968
39DAP/27DAP	0.83873	0.144
41DAP/39DAP	1.29582	0.817
42DAP/41DAP	1.05241	0.927
43DAP/42DAP	0.82262	0.022
47DAP/43DAP	1.00448	0.969
52DAP/47DAP	0.88745	0.222
57DAP/52DAP	0.9167	0.43
57DAP/7DAP	0.86574	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.52161	0.029
17DAP/reference	1.72707	0.007
27DAP/reference	1.69279	0.007
39DAP/reference	1.67346	0.005
41DAP/reference	1.53403	0.011
42DAP/reference	1.9452	0.009
43DAP/reference	1.52789	0.009
47DAP/reference	1.62302	0.018
52DAP/reference	2.14526	0.007
57DAP/reference	1.98962	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29751	0.131
17DAP/reference	1.36253	0.015
27DAP/reference	1.37929	0.068
39DAP/reference	1.1891	0.188
41DAP/reference	1.21015	0.016
42DAP/reference	1.47098	0.009
43DAP/reference	1.22281	0.111
47DAP/reference	1.58947	0.009
52DAP/reference	0.95816	0.38
57DAP/reference	1.00785	0.834

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.38463	0.081
17DAP/reference	1.2027	0.298
27DAP/reference	1.42245	0.027
39DAP/reference	1.45207	0.016
41DAP/reference	1.33351	0.007
42DAP/reference	1.57922	0.009
43DAP/reference	1.60338	0.052
47DAP/reference	1.15647	0.187
52DAP/reference	1.65703	0.031
57DAP/reference	1.79585	0.01

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04476	0.966
26DAP/20DAP	1.7134	0.099
34DAP/26DAP	0.87214	0.224
51DAP/34DAP	0.73094	0.065
52DAP/51DAP	1.04259	0.742
53DAP/52DAP	0.88745	0.316
55DAP/53DAP	0.73351	0.02
57DAP/55DAP	1.38256	0.125
62DAP/57DAP	2.03799	0.723
68DAP/62DAP	1.13937	1
68DAP/14DAP	1.28349	0.521

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.49193	0.047

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.86689	0.351
Mature Green Tomato/Ripe Tomato	1.57312	0.086
Immature Eggplant/Mature Eggplant	1.37416	0.055
Ripe Pepper/Ripe Tomato	0.8853	1
Mature Eggplant/Ripe Tomato	0.90809	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92332	0.944
1-1-2/M82	1.17839	1
12-2/M82	0.99046	1
12-4/M82	1.15158	1
1-3/M82	2.07172	0.248
2-1-1/M82	1.09337	0.764
2-1/M82	0.84324	1
2-6/M82	0.93488	1
3-2/M82	1.04714	0.463
4-1-1/M82	0.92859	1
4-1/M82	1.60904	0.853
4-3-2/M82	1.58519	0.508
4-3/M82	1.13605	1
5-3/M82	1.18439	1
6-2/M82	N/A	N/A
6-3/M82	0.99884	1
7-1/M82	0.87416	0.452
7-2/M82	1.2972	1
9-3-2/M82	1.23895	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.52648	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.77621	0.792
IL7-3/WTpooled	0.88297
IL12-4/WTpooled	1.1153	0.839
IL1-4/WTpooled	0.97056	1
WT/WTpooled	1.06893

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	1.01905	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07343	0.921
DC3000/delta hrp 6h	0.84704	0.95
DC3000/delta hrp 12h	0.86939	1
DC3000/delta hrp 24h	0.99859	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.35256	0.042
DC3000 delta B/DC3000 delta AB	1.19122	0.261

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.08739	1
Exp 36h	1.18656	1
Exp 60h	1.08993	1

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.04326	0.259
Var 12h I row2-row1	1.04038	1
Var 12h NI row2-row1	1.21569	1
Var 36h I row2-row1	0.9839	1
Var 36h NI row2-row1	1.02803	1
Var 60h I row2-row1	0.61338
Var 60h NI row2-row1	0.77086	0.306
Time course 0hI-0hNI	1.0087	1
Time course 12hI-12hNI	1.11758	0.754
Time course 36hI-36hNI	1.5797	0.009
Time course 60hI-60hNI	1.51011	0.115

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)	1.03008	0.612
transgenic ySAMdc/azygous control (breaker)	1.57351	0.178
transgenic ySAMdc/azygous control (red)	1.22712	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06802	0.273

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.7501	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.75737	0.172
Manapal/WT (break)	0.98269	1
Manapal/WT (red)	1.22622	0.222