Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.1.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.54809	0.264
27DAP/17DAP	0.79413	0.817
39DAP/27DAP	1.14507	0.796
41DAP/39DAP	1.74855	0.638
42DAP/41DAP	2.12979	0.685
43DAP/42DAP	1.16032	1
47DAP/43DAP	1.66131	0.746
52DAP/47DAP	1.00048	0.803
57DAP/52DAP	1.53327	0.964

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94398	0.442
17DAP/reference	1.21548	0.143
27DAP/reference	0.98001	0.694
39DAP/reference	1.02178	1
41DAP/reference	0.88733	0.049
42DAP/reference	1.16375	0.108
43DAP/reference	1.22138	0.617
47DAP/reference	1.19583	0.215
52DAP/reference	1.18462	0.072
57DAP/reference	1.12594	0.259

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.57307
27DAP/17DAP	N/A	N/A
39DAP/27DAP	0.80138
41DAP/39DAP	0.82375
42DAP/41DAP	2.05757	0.886
43DAP/42DAP	1.19776	0.015
47DAP/43DAP	0.91159	0.857
52DAP/47DAP	1.18648	0.609
57DAP/52DAP	1.11665
57DAP/7DAP	0.42531

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05479	0.876
17DAP/reference	0.87182	0.192
27DAP/reference	1.00038	0.656
39DAP/reference	0.80303	0.073
41DAP/reference	0.70673	0.032
42DAP/reference	0.64491	0.048
43DAP/reference	0.99843	0.665
47DAP/reference	0.94952	0.671
52DAP/reference	0.93604	0.254
57DAP/reference	1.03248	0.851

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.45562	0.146
17DAP/reference	0.74942	0.434
27DAP/reference	0.9024	0.352
39DAP/reference	0.96858	0.509
41DAP/reference	0.89311	0.322
42DAP/reference	1.20578	0.369
43DAP/reference	0.82056	0.186
47DAP/reference	1.02937	1
52DAP/reference	0.85068
57DAP/reference	N/A	N/A

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03467	1
17DAP/reference	0.96649	0.579
27DAP/reference	1.10426	0.871
39DAP/reference	0.91267	0.271
41DAP/reference	0.95627	0.56
42DAP/reference	1.26397	0.45
43DAP/reference	0.94412	0.484
47DAP/reference	1.04088	1
52DAP/reference	5.34326	0.126
57DAP/reference	2.21475	0.037

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.63801	0.966
26DAP/20DAP	1.42709
34DAP/26DAP	0.21434
51DAP/34DAP	0.71913	0.419
52DAP/51DAP	0.48609	1
53DAP/52DAP	1.29621	0.858
55DAP/53DAP	0.79338	0.024
57DAP/55DAP	N/A	N/A
62DAP/57DAP	0.99449
68DAP/62DAP	2.24627
68DAP/14DAP	2.48165

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.44316

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
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	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	0.73747	0.321
IL2-6/WTpooled	1.02709	1
IL7-5/WTpooled	1.60125
IL7-3/WTpooled	1.12477	1
IL12-4/WTpooled	0.90221	1
IL1-4/WTpooled	1.15462	1
WT/WTpooled	0.89945	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	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	N/A	N/A

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	N/A	N/A
Var 0h	N/A	N/A
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	0.05445
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)	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	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)	N/A	N/A