Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.4.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.67885	0.026
27DAP/17DAP	0.94117	0.908
39DAP/27DAP	0.82486	0.487
41DAP/39DAP	1.3236	0.286
42DAP/41DAP	1.16275	0.85
43DAP/42DAP	1.08386	1
47DAP/43DAP	1.21887	0.343
52DAP/47DAP	0.9177	0.752
57DAP/52DAP	1.1324	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84682	0.077
17DAP/reference	1.06731	0.427
27DAP/reference	1.03649	0.696
39DAP/reference	1.0243	0.474
41DAP/reference	1.03196	0.91
42DAP/reference	0.84494	0.002
43DAP/reference	1.05716	0.425
47DAP/reference	0.97622	0.392
52DAP/reference	0.88013	0.131
57DAP/reference	0.81474	0.071

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99281	0.826
27DAP/17DAP	0.93964	0.724
39DAP/27DAP	1.03031	0.728
41DAP/39DAP	1.05865	0.773
42DAP/41DAP	0.93922	0.466
43DAP/42DAP	1.00191	1
47DAP/43DAP	0.98671	0.928
52DAP/47DAP	1.02272	0.927
57DAP/52DAP	1.05164	0.699
57DAP/7DAP	0.99215	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9471	0.183
17DAP/reference	0.93035	0.253
27DAP/reference	0.82002	0.01
39DAP/reference	0.82556	0.043
41DAP/reference	0.87513	0.174
42DAP/reference	0.68191	0.014
43DAP/reference	0.81223	0.024
47DAP/reference	0.85748	0.168
52DAP/reference	0.83516	0.027
57DAP/reference	1.00931	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11724	0.181
17DAP/reference	0.84816	0.034
27DAP/reference	0.8698	0.195
39DAP/reference	0.82741	0.119
41DAP/reference	0.76467	0.031
42DAP/reference	0.85812	0.108
43DAP/reference	0.9015	0.243
47DAP/reference	0.94022	0.133
52DAP/reference	0.9044	0.38
57DAP/reference	1.13003	0.353

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9207	0.249
17DAP/reference	0.90483	0.308
27DAP/reference	0.78588	0.032
39DAP/reference	0.81319	0.083
41DAP/reference	1.00126	0.682
42DAP/reference	0.86568	0.134
43DAP/reference	0.85882	0.179
47DAP/reference	0.98102	0.558
52DAP/reference	0.87047	0.204
57DAP/reference	0.77842	0.038

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11348	0.945
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.96011	0.92
51DAP/34DAP	0.97028	0.758
52DAP/51DAP	N/A	N/A
53DAP/52DAP	0.99083	0.938
55DAP/53DAP	1.05968	0.991
57DAP/55DAP	0.93838	0.736
62DAP/57DAP	1.1796	0.935
68DAP/62DAP	0.94836	0.769
68DAP/14DAP	0.84017	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96411	0.607

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.35299	0.058
Mature Green Tomato/Ripe Tomato	0.69875	0.021
Immature Eggplant/Mature Eggplant	0.51345	0.064
Ripe Pepper/Ripe Tomato	3.01562	1
Mature Eggplant/Ripe Tomato	5.25668	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.97206	1
12-2/M82	1.06973	1
12-4/M82	0.90859	0.619
1-3/M82	N/A	N/A
2-1-1/M82	0.85172
2-1/M82	N/A	N/A
2-6/M82	1.3936
3-2/M82	0.92212
4-1-1/M82	0.82159
4-1/M82	1.01019	1
4-3-2/M82	0.9694	1
4-3/M82	N/A	N/A
5-3/M82	0.7205	0.642
6-2/M82	N/A	N/A
6-3/M82	1.18273
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.11589	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.71817	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.64441	0.31
IL12-4/WTpooled	0.83162	0.543
IL1-4/WTpooled	0.85854
WT/WTpooled	1.05783	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	0.9332	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11119	0.914
DC3000/delta hrp 6h	0.71803	0.95
DC3000/delta hrp 12h	1.02298	1
DC3000/delta hrp 24h	0.6953	0.035

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.27186	0.134
DC3000 delta B/DC3000 delta AB	1.14825	0.259

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97041	1
Exp 36h	0.67698	0.374
Exp 60h	0.7405	0.386

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	1.2799	0.782
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.78272	0.246
transgenic ySAMdc/azygous control (breaker)	1.76428	0.178
transgenic ySAMdc/azygous control (red)	1.09043	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00532	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.21481	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.7205	0.105
Manapal/WT (break)	1.17413	1
Manapal/WT (red)	2.07979	0.164