Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.6.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97199	0.683
27DAP/17DAP	0.95363	0.902
39DAP/27DAP	0.9321	0.67
41DAP/39DAP	1.34146	0.612
42DAP/41DAP	0.84697	1
43DAP/42DAP	1.09026	1
47DAP/43DAP	1.24711	0.584
52DAP/47DAP	1.31761	0.773
57DAP/52DAP	1.12274	0.955

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87809	0.336
17DAP/reference	0.87849	0.05
27DAP/reference	0.90422	0.385
39DAP/reference	0.93297	0.412
41DAP/reference	0.72	0.049
42DAP/reference	0.91545	0.078
43DAP/reference	0.88432	0.191
47DAP/reference	0.97295	0.473
52DAP/reference	1.27843	0.083
57DAP/reference	1.18858	0.084

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21078	0.515
27DAP/17DAP	1.09115	0.976
39DAP/27DAP	1.04665	0.685
41DAP/39DAP	0.62228	0.117
42DAP/41DAP	1.03223	0.894
43DAP/42DAP	1.01091	0.96
47DAP/43DAP	1.40263	0.149
52DAP/47DAP	1.17912	0.504
57DAP/52DAP	0.93011	0.622
57DAP/7DAP	1.12064	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06155	0.927
17DAP/reference	1.19104	0.269
27DAP/reference	1.14346	0.197
39DAP/reference	1.47009	0.019
41DAP/reference	1.37572	0.069
42DAP/reference	1.67088	0.024
43DAP/reference	1.50848	0.013
47DAP/reference	1.19233	0.659
52DAP/reference	1.48937	0.01
57DAP/reference	1.30721	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88252	0.286
17DAP/reference	0.72636	0.023
27DAP/reference	0.88654	0.188
39DAP/reference	1.13384	0.725
41DAP/reference	1.0661	0.599
42DAP/reference	1.33168	0.102
43DAP/reference	0.91042	0.352
47DAP/reference	0.85091	0.154
52DAP/reference	0.95015	0.433
57DAP/reference	0.67774	0.011

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06075	0.918
17DAP/reference	0.99017	0.739
27DAP/reference	1.41345	0.425
39DAP/reference	1.37417	0.045
41DAP/reference	1.20842	0.05
42DAP/reference	1.37636	0.294
43DAP/reference	1.26998	0.19
47DAP/reference	0.88723	0.161
52DAP/reference	2.52189	0.067
57DAP/reference	1.43492	0.078

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.34051	0.966
26DAP/20DAP	1.54727	0.173
34DAP/26DAP	0.76589	0.548
51DAP/34DAP	1.21753	0.925
52DAP/51DAP	0.91689	1
53DAP/52DAP	1.55077	0.25
55DAP/53DAP	1.08029	1
57DAP/55DAP	0.89308	0.703
62DAP/57DAP	1.15756
68DAP/62DAP	2.05126	0.155
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91732	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.67078	0.226
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.80527
Mature Eggplant/Ripe Tomato	1.07602	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.90336
12-2/M82	N/A	N/A
12-4/M82	0.79173	0.619
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	0.84616	0.72
5-3/M82	0.94145	0.642
6-2/M82	N/A	N/A
6-3/M82	0.9708
7-1/M82	0.83462
7-2/M82	1.16831	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.92088	0.243
IL2-6/WTpooled	1.01155	1
IL7-5/WTpooled	1.33848	0.792
IL7-3/WTpooled	0.85253	0.298
IL12-4/WTpooled	0.99173	1
IL1-4/WTpooled	1.05701	1
WT/WTpooled	0.93226	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07927	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.1715	0.383

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	N/A	N/A

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.88477	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.93576	0.467
Var 12h NI row2-row1	0.74784
Var 36h I row2-row1	1.03218	1
Var 36h NI row2-row1	0.89598	0.378
Var 60h I row2-row1	0.91544
Var 60h NI row2-row1	0.71712	0.904
Time course 0hI-0hNI	0.92715	0.552
Time course 12hI-12hNI	1.01698	0.888
Time course 36hI-36hNI	0.92552	0.156
Time course 60hI-60hNI	0.95482	0.646

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.30193	1
transgenic ySAMdc/azygous control (red)	1.3063	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.27221	0.155

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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)	N/A	N/A
Manapal/WT (red)	1.01557	1