Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.1.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05569	0.919
27DAP/17DAP	0.75886	0.217
39DAP/27DAP	1.01102	0.82
41DAP/39DAP	0.99596	0.886
42DAP/41DAP	0.91491	1
43DAP/42DAP	1.12953	0.957
47DAP/43DAP	1.14697	0.727
52DAP/47DAP	1.18624	0.665
57DAP/52DAP	0.79208	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.41193	0.081
17DAP/reference	1.21051	0.048
27DAP/reference	1.16006	0.299
39DAP/reference	1.29733	0.013
41DAP/reference	1.49258	0.036
42DAP/reference	1.34144	0.039
43DAP/reference	1.21518	0.133
47DAP/reference	1.06818	0.535
52DAP/reference	1.32401	0.048
57DAP/reference	0.95788	0.435

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82172	0.153
27DAP/17DAP	0.88873	0.241
39DAP/27DAP	0.8969	0.274
41DAP/39DAP	1.02703	0.883
42DAP/41DAP	0.98485	0.825
43DAP/42DAP	1.12516	0.273
47DAP/43DAP	1.00026	0.985
52DAP/47DAP	0.9452	0.763
57DAP/52DAP	1.07269	0.638
57DAP/7DAP	0.83361	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.84861	0.026
17DAP/reference	1.36511	0.018
27DAP/reference	0.94775	0.375
39DAP/reference	1.91234	0.011
41DAP/reference	1.88194	0.016
42DAP/reference	2.27228	0.012
43DAP/reference	3.0875	0.007
47DAP/reference	1.72764	0.023
52DAP/reference	1.35655	0.007
57DAP/reference	1.35595	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15651	0.516
17DAP/reference	1.48086	0.176
27DAP/reference	1.31216	0.022
39DAP/reference	1.35647	0.027
41DAP/reference	1.46919	0.013
42DAP/reference	1.36228	0.009
43DAP/reference	1.4814	0.035
47DAP/reference	1.45583	0.008
52DAP/reference	1.50993	0.007
57DAP/reference	1.40191	0.244

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.55118	0.027
17DAP/reference	1.0849	0.488
27DAP/reference	1.3622	0.019
39DAP/reference	0.97257	0.464
41DAP/reference	0.92823	0.371
42DAP/reference	1.23597	0.097
43DAP/reference	1.46277	0.035
47DAP/reference	1.34909	0.014
52DAP/reference	1.44609	0.09
57DAP/reference	1.41727	0.304

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.24898
26DAP/20DAP	0.84618	0.512
34DAP/26DAP	1.07477	1
51DAP/34DAP	0.92638	0.618
52DAP/51DAP	1.15861	0.638
53DAP/52DAP	0.84061	0.167
55DAP/53DAP	1.14843	0.271
57DAP/55DAP	0.93804	0.819
62DAP/57DAP	0.98611	0.994
68DAP/62DAP	0.65162	0.087
68DAP/14DAP	0.87838	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91094	0.341

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.44703	0.287
Mature Green Tomato/Ripe Tomato	1.75776	0.267
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.38564	1
Mature Eggplant/Ripe Tomato	0.80444	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	1.00005
4-1-1/M82	N/A	N/A
4-1/M82	18.921
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	1.11354	0.493
IL2-6/WTpooled	1.0215	1
IL7-5/WTpooled	1.25905
IL7-3/WTpooled	0.77745	1
IL12-4/WTpooled	0.85079	0.71
IL1-4/WTpooled	0.92872	0.457
WT/WTpooled	1.01289	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	1.22409	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06887	0.846
DC3000/delta hrp 6h	1.19945	1
DC3000/delta hrp 12h	1.08914	1
DC3000/delta hrp 24h	1.02748	0.779

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.75671	0.023
DC3000 delta B/DC3000 delta AB	0.75876	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01686	1
Exp 36h	1.02608	0.943
Exp 60h	1.21432	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95494	1
Var 0h	0.7978	1
Var 12h I row2-row1	0.78197	0.418
Var 12h NI row2-row1	1.05468	1
Var 36h I row2-row1	1.21476	0.305
Var 36h NI row2-row1	1.14085	0.482
Var 60h I row2-row1	0.81075	0.832
Var 60h NI row2-row1	0.88051	0.977
Time course 0hI-0hNI	1.00201	1
Time course 12hI-12hNI	0.94517	0.698
Time course 36hI-36hNI	0.8803	0.077
Time course 60hI-60hNI	0.61877	0.007

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)	1.17591	0.36
transgenic ySAMdc/azygous control (breaker)	0.92341	0.49
transgenic ySAMdc/azygous control (red)	1.13129	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02429	0.556

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.84115	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07641	0.307
Manapal/WT (break)	1.15092	1
Manapal/WT (red)	1.79259	0.413