Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.16.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.49673	0.183
27DAP/17DAP	1.1276	0.874
39DAP/27DAP	0.84703	0.594
41DAP/39DAP	1.30511	0.437
42DAP/41DAP	1.03975	1
43DAP/42DAP	0.99202	0.912
47DAP/43DAP	1.21472	0.825
52DAP/47DAP	1.2165	0.702
57DAP/52DAP	0.9933	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97763	0.476
17DAP/reference	1.04553	0.229
27DAP/reference	0.99671	0.847
39DAP/reference	1.0307	0.318
41DAP/reference	1.02109	0.91
42DAP/reference	0.99449	0.531
43DAP/reference	0.98471	0.745
47DAP/reference	0.99153	0.535
52DAP/reference	0.97711	0.461
57DAP/reference	1.07155	0.024

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92482	0.542
27DAP/17DAP	1.00354	1
39DAP/27DAP	1.10144	0.465
41DAP/39DAP	0.93427	0.885
42DAP/41DAP	0.8545	0.273
43DAP/42DAP	1.13512	0.554
47DAP/43DAP	1.01849	1
52DAP/47DAP	1.16803	0.593
57DAP/52DAP	0.88681	0.405
57DAP/7DAP	1.38526	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83162	0.157
17DAP/reference	0.80256	0.056
27DAP/reference	0.90088	0.231
39DAP/reference	0.85426	0.126
41DAP/reference	0.86558	0.184
42DAP/reference	0.69589	0.012
43DAP/reference	0.85117	0.086
47DAP/reference	0.83326	0.03
52DAP/reference	0.9772	0.477
57DAP/reference	0.71085	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.982	0.607
17DAP/reference	1.08541	0.278
27DAP/reference	0.92682	0.15
39DAP/reference	0.99384	0.621
41DAP/reference	0.91284	0.094
42DAP/reference	0.90171	0.022
43DAP/reference	1.1174	0.526
47DAP/reference	0.91465	0.129
52DAP/reference	1.05676	0.021
57DAP/reference	1.0162	0.654

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97939	0.607
17DAP/reference	0.91052	0.308
27DAP/reference	0.80117	0.089
39DAP/reference	0.85947	0.069
41DAP/reference	0.85435	0.119
42DAP/reference	1.07569	0.49
43DAP/reference	0.91804	0.226
47DAP/reference	0.95231	0.269
52DAP/reference	0.71572	0.122
57DAP/reference	0.82018	0.026

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91429	0.997
26DAP/20DAP	0.81116	0.512
34DAP/26DAP	1.22742	0.819
51DAP/34DAP	1.06492	0.936
52DAP/51DAP	0.92012	1
53DAP/52DAP	0.85649	0.52
55DAP/53DAP	1.2602	0.244
57DAP/55DAP	1.21124	0.666
62DAP/57DAP	1.19637	0.35
68DAP/62DAP	0.79852	0.378
68DAP/14DAP	1.07898	0.403

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.81003	0.024

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.5334
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.76805
Ripe Pepper/Ripe Tomato	1.18763	1
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.13902
IL7-5/WTpooled	0.60077	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.03072
IL1-4/WTpooled	1.00573	1
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	0.98464	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93581
DC3000/delta hrp 6h	1.01544	0.95
DC3000/delta hrp 12h	1.01382	1
DC3000/delta hrp 24h	0.64138	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.26799
DC3000 delta B/DC3000 delta AB	0.92425	0.657

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07548	1
Exp 36h	1.18135	1
Exp 60h	1.2848	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0408	1
Var 0h	1.09471	0.98
Var 12h I row2-row1	1.09658	0.204
Var 12h NI row2-row1	1.01677	1
Var 36h I row2-row1	1.22848	0.309
Var 36h NI row2-row1	1.03793	1
Var 60h I row2-row1	1.04093
Var 60h NI row2-row1	0.86983	0.69
Time course 0hI-0hNI	1.07149	0.344
Time course 12hI-12hNI	1.13459	0.145
Time course 36hI-36hNI	1.15989	0.513
Time course 60hI-60hNI	0.64136	0.006

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)	1.31165	0.372
transgenic ySAMdc/azygous control (breaker)	0.812	0.251
transgenic ySAMdc/azygous control (red)	0.99295	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98363	0.418

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.76882	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.08472	0.307
Manapal/WT (break)	0.90026	1
Manapal/WT (red)	0.9962	1