Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.17.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01745	0.927
27DAP/17DAP	0.89007	0.745
39DAP/27DAP	1.01846	0.82
41DAP/39DAP	0.98615	0.919
42DAP/41DAP	1.42421	0.599
43DAP/42DAP	0.94083	0.883
47DAP/43DAP	1.30347	0.481
52DAP/47DAP	0.80658	0.539
57DAP/52DAP	1.08324	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02698	0.727
17DAP/reference	0.87055	0.085
27DAP/reference	1.15249	0.529
39DAP/reference	0.8265	0.103
41DAP/reference	0.80614	0.065
42DAP/reference	1.0797	0.338
43DAP/reference	1.04443	0.787
47DAP/reference	1.42137	0.028
52DAP/reference	1.5385	0.01
57DAP/reference	1.21563	0.056

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.41222	0.124
27DAP/17DAP	1.12182	0.826
39DAP/27DAP	0.82484	0.377
41DAP/39DAP	1.08056	0.735
42DAP/41DAP	1.24546	0.651
43DAP/42DAP	1.28055	0.014
47DAP/43DAP	1.07838	0.901
52DAP/47DAP	0.96408	0.884
57DAP/52DAP	0.95263	0.598
57DAP/7DAP	1.14125	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85823	0.1
17DAP/reference	0.94618	0.447
27DAP/reference	0.86321	0.045
39DAP/reference	0.76934	0.031
41DAP/reference	0.74517	0.05
42DAP/reference	0.94413	0.436
43DAP/reference	0.97757	0.48
47DAP/reference	1.05458	0.776
52DAP/reference	0.92821	0.232
57DAP/reference	0.96689	0.426

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86504	0.564
17DAP/reference	1.1092	0.806
27DAP/reference	1.25423	0.412
39DAP/reference	1.11168	0.912
41DAP/reference	1.07365	1
42DAP/reference	1.18466	0.24
43DAP/reference	0.87116	0.277
47DAP/reference	0.94787	0.24
52DAP/reference	1.06384	1
57DAP/reference	0.8061	0.099

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09635	0.691
17DAP/reference	0.85188	0.292
27DAP/reference	0.78003	0.119
39DAP/reference	0.87023	0.147
41DAP/reference	0.90237	0.459
42DAP/reference	1.11496	0.529
43DAP/reference	1.03546	0.827
47DAP/reference	0.97095	0.465
52DAP/reference	0.89903	0.376
57DAP/reference	1.31909	0.171

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12568	0.966
26DAP/20DAP	1.50364	0.2
34DAP/26DAP	0.85243	0.596
51DAP/34DAP	1.53225	0.047
52DAP/51DAP	1.02585	0.965
53DAP/52DAP	0.89583	0.631
55DAP/53DAP	1.04965	1
57DAP/55DAP	1.07372	0.793
62DAP/57DAP	0.95108	0.871
68DAP/62DAP	0.76924	0.641
68DAP/14DAP	1.46052	0.038

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.80283	0.028

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.9221	0.487
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
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	1.53351
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	1.94494
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	0.90874
7-2/M82	N/A	N/A
9-3-2/M82	1.57828	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.7652	0.243
IL2-6/WTpooled	1.1864	0.659
IL7-5/WTpooled	0.76362	1
IL7-3/WTpooled	1.03537	1
IL12-4/WTpooled	1.14117	0.557
IL1-4/WTpooled	0.91437	0.699
WT/WTpooled	0.99463	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	0.82848	0.197

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.56948	1
DC3000/delta hrp 24h	0.85819	0.395

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.80469	0.485
DC3000 delta B/DC3000 delta AB	0.85538	0.317

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	1.0686	1
Var 0h	0.98242	1
Var 12h I row2-row1	0.99109	1
Var 12h NI row2-row1	1.13675	0.649
Var 36h I row2-row1	0.79265	1
Var 36h NI row2-row1	1.01153	1
Var 60h I row2-row1	0.94522	0.287
Var 60h NI row2-row1	1.15766	0.904
Time course 0hI-0hNI	0.96884	0.863
Time course 12hI-12hNI	0.96876	0.734
Time course 36hI-36hNI	0.98361	0.589
Time course 60hI-60hNI	0.70366	0.009

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)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.1649	0.239

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)	1.19522	1