Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-5.1.18.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83669	0.389
27DAP/17DAP	1.02139	1
39DAP/27DAP	0.92908	0.641
41DAP/39DAP	1.09662	0.696
42DAP/41DAP	1.10407	0.941
43DAP/42DAP	1.02602	1
47DAP/43DAP	0.99167	0.904
52DAP/47DAP	0.9888	0.95
57DAP/52DAP	1.1959	0.843

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97716	0.513
17DAP/reference	1.07112	0.041
27DAP/reference	0.99019	0.763
39DAP/reference	1.04261	0.186
41DAP/reference	0.98596	0.814
42DAP/reference	0.96363	0.064
43DAP/reference	0.9354	0.04
47DAP/reference	0.88966	0.003
52DAP/reference	0.97567	0.504
57DAP/reference	0.89233	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1008	0.29
27DAP/17DAP	1.06916	0.842
39DAP/27DAP	1.09404	0.483
41DAP/39DAP	0.99212	1
42DAP/41DAP	1.00949	1
43DAP/42DAP	1.1512	0.192
47DAP/43DAP	0.94146	0.577
52DAP/47DAP	1.16516	0.524
57DAP/52DAP	0.86911	0.225
57DAP/7DAP	0.83926	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.42362	0.053
17DAP/reference	1.29432	0.147
27DAP/reference	1.21811	0.018
39DAP/reference	1.3515	0.059
41DAP/reference	1.22061	0.191
42DAP/reference	1.25883	0.308
43DAP/reference	1.47245	0.013
47DAP/reference	1.07755	0.36
52DAP/reference	1.35675	0.028
57DAP/reference	1.41706	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08795	0.582
17DAP/reference	0.98595	0.576
27DAP/reference	0.97694	0.519
39DAP/reference	0.87375	0.018
41DAP/reference	0.88781	0.127
42DAP/reference	0.93046	0.261
43DAP/reference	0.84509	0.084
47DAP/reference	0.90543	0.09
52DAP/reference	0.91607	0.011
57DAP/reference	1.01769	0.908

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25923	0.18
17DAP/reference	1.0477	0.792
27DAP/reference	1.27761	0.048
39DAP/reference	1.41322	0.011
41DAP/reference	1.15937	0.333
42DAP/reference	1.1281	0.34
43DAP/reference	1.28812	0.194
47DAP/reference	0.86622	0.014
52DAP/reference	1.42243	0.566
57DAP/reference	0.8428	0.034

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01062	1
26DAP/20DAP	1.00735	1
34DAP/26DAP	0.89689	0.693
51DAP/34DAP	1.32717	0.132
52DAP/51DAP	1.03569	0.904
53DAP/52DAP	1.06211	0.768
55DAP/53DAP	1.16519	0.547
57DAP/55DAP	1.26664	0.71
62DAP/57DAP	1.03133	1
68DAP/62DAP	1.18959	0.174
68DAP/14DAP	1.04262	0.785

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01067	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.33998	0.059
Mature Green Tomato/Ripe Tomato	0.82931	0.317
Immature Eggplant/Mature Eggplant	0.74484	0.069
Ripe Pepper/Ripe Tomato	0.82659	0.293
Mature Eggplant/Ripe Tomato	0.96485	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.86978	0.944
1-1-2/M82	1.12665	0.977
12-2/M82	0.82698	0.862
12-4/M82	1.09972	1
1-3/M82	1.34508	0.248
2-1-1/M82	0.9013	0.784
2-1/M82	0.85295	0.322
2-6/M82	1.08334	0.505
3-2/M82	1.19717	N/A
4-1-1/M82	1.02119	1
4-1/M82	0.98956	1
4-3-2/M82	1.26867	0.508
4-3/M82	1.60718	0.268
5-3/M82	1.11082	1
6-2/M82	1.16113	N/A
6-3/M82	0.95961	1
7-1/M82	1.00129	N/A
7-2/M82	1.19235	0.385
9-3-2/M82	1.09039	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.29128	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11517	0.894
DC3000/delta hrp 6h	0.9198	0.95
DC3000/delta hrp 12h	1.05937	1
DC3000/delta hrp 24h	1.08194	0.567

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07821	N/A
DC3000 delta B/DC3000 delta AB	1.10691	0.377

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91011	1
Exp 36h	0.94513	0.699
Exp 60h	1.0836	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96853	1
Var 0h	1.09087	1
Var 12h I row2-row1	1.03066	0.736
Var 12h NI row2-row1	1.00572	1
Var 36h I row2-row1	1.04811	1
Var 36h NI row2-row1	0.89846	0.743
Var 60h I row2-row1	1.00696	0.562
Var 60h NI row2-row1	0.87046	0.818
Time course 0hI-0hNI	0.94042	0.519
Time course 12hI-12hNI	0.94931	0.556
Time course 36hI-36hNI	0.95016	0.169
Time course 60hI-60hNI	1.13789	0.06

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)	0.94189	0.428
transgenic ySAMdc/azygous control (breaker)	1.09494	0.172
transgenic ySAMdc/azygous control (red)	1.13066	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05165	0.17

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.26646	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10173	0.083
Manapal/WT (break)	0.88653	1
Manapal/WT (red)	0.9163	0.199