Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.16.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09509	0.904
27DAP/17DAP	1.04088	0.919
39DAP/27DAP	1.40819	0.341
41DAP/39DAP	1.11022	0.442
42DAP/41DAP	1.19263	0.871
43DAP/42DAP	1.02559	1
47DAP/43DAP	1.24053	0.576
52DAP/47DAP	1.40933	0.543
57DAP/52DAP	1.27448	0.908

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.42579	0.008
17DAP/reference	1.00926	1
27DAP/reference	1.31659	0.023
39DAP/reference	1.29294	0.025
41DAP/reference	1.23742	0.187
42DAP/reference	1.3062	0.001
43DAP/reference	1.18406	0.025
47DAP/reference	1.4858	0.001
52DAP/reference	1.66838	0.01
57DAP/reference	1.75703	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92487	0.542
27DAP/17DAP	1.09051	0.751
39DAP/27DAP	1.31732	0.241
41DAP/39DAP	1.10298	0.817
42DAP/41DAP	1.02405	0.934
43DAP/42DAP	0.9166	0.367
47DAP/43DAP	1.05218	0.948
52DAP/47DAP	1.11398	0.624
57DAP/52DAP	0.92228	0.558
57DAP/7DAP	2.98598	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18339	0.227
17DAP/reference	1.03289	1
27DAP/reference	1.08929	0.551
39DAP/reference	1.3787	0.107
41DAP/reference	1.19769	0.086
42DAP/reference	1.44975	0.076
43DAP/reference	1.92603	0.008
47DAP/reference	1.55014	0.014
52DAP/reference	2.01744	0.007
57DAP/reference	1.65974	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26629	0.294
17DAP/reference	1.17006	0.113
27DAP/reference	1.47898	0.018
39DAP/reference	1.12908	0.355
41DAP/reference	1.06724	0.766
42DAP/reference	1.4179	0.008
43DAP/reference	1.13257	0.441
47DAP/reference	1.39494	0.011
52DAP/reference	0.92717	0.171
57DAP/reference	0.96034	0.433

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.7283	0.02
17DAP/reference	0.98355	0.709
27DAP/reference	1.11507	0.085
39DAP/reference	1.12013	0.134
41DAP/reference	1.05134	0.916
42DAP/reference	1.34719	0.049
43DAP/reference	1.55979	0.06
47DAP/reference	1.08094	0.68
52DAP/reference	1.29239	0.082
57DAP/reference	2.48975	0.015

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13907	0.966
26DAP/20DAP	0.9434	1
34DAP/26DAP	1.36903	0.819
51DAP/34DAP	0.96055	0.779
52DAP/51DAP	1.24315	0.413
53DAP/52DAP	1.10008	0.753
55DAP/53DAP	1.21715	0.468
57DAP/55DAP	1.00093	0.97
62DAP/57DAP	0.72128	0.005
68DAP/62DAP	1.3223	0.85
68DAP/14DAP	1.29338	0.521

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.19187	0.496

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.99722	0.886
Mature Green Tomato/Ripe Tomato	1.058	0.881
Immature Eggplant/Mature Eggplant	1.42052	0.05
Ripe Pepper/Ripe Tomato	1.13649	1
Mature Eggplant/Ripe Tomato	1.25681	1

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	0.97265	1
IL7-5/WTpooled	0.4139
IL7-3/WTpooled	0.52151	0.418
IL12-4/WTpooled	1.16824	0.624
IL1-4/WTpooled	0.70876	0.435
WT/WTpooled	0.9182	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	0.78613

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.82362	0.774
DC3000/delta hrp 6h	1.00028	0.95
DC3000/delta hrp 12h	0.9448	1
DC3000/delta hrp 24h	1.23496	0.535

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	0.9507	1
Exp 36h	1.06766	1
Exp 60h	1.23829	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03549	1
Var 0h	1.04367	1
Var 12h I row2-row1	2.05288	0.443
Var 12h NI row2-row1	1.74447	1
Var 36h I row2-row1	1.01302	1
Var 36h NI row2-row1	0.75472	1
Var 60h I row2-row1	1.01416
Var 60h NI row2-row1	0.63424	0.756
Time course 0hI-0hNI	0.92097	0.475
Time course 12hI-12hNI	1.0719	0.724
Time course 36hI-36hNI	1.00457	0.908
Time course 60hI-60hNI	1.115	0.302

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)	0.99302	0.862
transgenic ySAMdc/azygous control (breaker)	0.96146	1
transgenic ySAMdc/azygous control (red)	1.04965	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04799	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.78207	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.78056	0.172
Manapal/WT (break)	1.29003	0.381
Manapal/WT (red)	1.01648	1