Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.13.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.4872	0.028
27DAP/17DAP	1.0427	0.92
39DAP/27DAP	0.87762	0.544
41DAP/39DAP	1.21184	0.921
42DAP/41DAP	0.98691	1
43DAP/42DAP	0.88076	0.776
47DAP/43DAP	0.6689	0.078
52DAP/47DAP	2.09147	0.112
57DAP/52DAP	0.81428	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09777	0.334
17DAP/reference	1.06461	0.342
27DAP/reference	0.99331	0.797
39DAP/reference	0.95374	0.446
41DAP/reference	1.00881	0.963
42DAP/reference	0.87905	0.038
43DAP/reference	1.02601	0.899
47DAP/reference	0.85162	0.008
52DAP/reference	0.87607	0.086
57DAP/reference	0.92858	0.131

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79395	0.073
27DAP/17DAP	0.88146	0.475
39DAP/27DAP	1.27751	0.219
41DAP/39DAP	1.09205	0.705
42DAP/41DAP	0.86942	0.318
43DAP/42DAP	1.15373	0.297
47DAP/43DAP	1.03416	0.973
52DAP/47DAP	1.6232	0.076
57DAP/52DAP	1.7037	0.091
57DAP/7DAP	1.25348	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97193	0.246
17DAP/reference	0.93111	0.072
27DAP/reference	1.03894	0.664
39DAP/reference	1.07901	0.411
41DAP/reference	0.97237	0.512
42DAP/reference	1.0906	0.686
43DAP/reference	1.24541	0.053
47DAP/reference	0.99168	1
52DAP/reference	0.88175	0.137
57DAP/reference	0.95122	0.341

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09152	0.524
17DAP/reference	0.95893	0.523
27DAP/reference	0.98027	0.576
39DAP/reference	1.26249	0.978
41DAP/reference	1.00005	0.615
42DAP/reference	1.10142	0.969
43DAP/reference	1.02234	1
47DAP/reference	0.91107	0.107
52DAP/reference	0.89365	0.203
57DAP/reference	1.23302	0.135

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91261	0.335
17DAP/reference	0.94244	0.488
27DAP/reference	0.96086	0.397
39DAP/reference	0.9359	0.271
41DAP/reference	0.84377	0.043
42DAP/reference	0.92214	0.361
43DAP/reference	0.75695	0.024
47DAP/reference	0.87258	0.054
52DAP/reference	0.94499	0.611
57DAP/reference	0.85372	0.184

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.70551	0.981
26DAP/20DAP	0.75359	0.512
34DAP/26DAP	1.20067	0.19
51DAP/34DAP	1.21588	0.164
52DAP/51DAP	1.18574	0.481
53DAP/52DAP	0.99627	0.951
55DAP/53DAP	1.13516	0.12
57DAP/55DAP	0.86333	0.577
62DAP/57DAP	1.06826	0.902
68DAP/62DAP	0.90029	0.505
68DAP/14DAP	1.12502	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.38126	0.055

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.35755	0.094
Mature Green Tomato/Ripe Tomato	0.26485	0.045
Immature Eggplant/Mature Eggplant	3.08977	0.05
Ripe Pepper/Ripe Tomato	0.22047
Mature Eggplant/Ripe Tomato	0.52723	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.15002
1-1-2/M82	1.23512
12-2/M82	2.74007
12-4/M82	1.06922	1
1-3/M82	1.2628
2-1-1/M82	1.11392
2-1/M82	N/A	N/A
2-6/M82	1.36151	0.594
3-2/M82	N/A	N/A
4-1-1/M82	1.44385
4-1/M82	1.19321
4-3-2/M82	1.31893
4-3/M82	1.38326	1
5-3/M82	0.61459	0.49
6-2/M82	3.47071	1
6-3/M82	0.92547	1
7-1/M82	0.64356
7-2/M82	1.72083	0.324
9-3-2/M82	1.09337

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.09867	0.277
IL2-6/WTpooled	0.94446	1
IL7-5/WTpooled	0.80722	1
IL7-3/WTpooled	1.03988	1
IL12-4/WTpooled	1.00747	1
IL1-4/WTpooled	0.88059	0.699
WT/WTpooled	1.02319	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	1.47319	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03916	0.921
DC3000/delta hrp 6h	1.20722	1
DC3000/delta hrp 12h	1.09284	1
DC3000/delta hrp 24h	1.41167	0.05

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.44929	0.045
DC3000 delta B/DC3000 delta AB	1.16267	0.259

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96066	1
Exp 36h	1.17361	1
Exp 60h	1.20834	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.06187	1
Var 0h	0.96788	0.98
Var 12h I row2-row1	1.51224	0.187
Var 12h NI row2-row1	0.93283	0.906
Var 36h I row2-row1	0.81958	0.575
Var 36h NI row2-row1	0.96612	0.791
Var 60h I row2-row1	1.11009	0.562
Var 60h NI row2-row1	1.28551	0.904
Time course 0hI-0hNI	0.97007	0.906
Time course 12hI-12hNI	1.27837	0.009
Time course 36hI-36hNI	0.94181	0.468
Time course 60hI-60hNI	1.20051	0.008

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)	1.1459	0.261
transgenic ySAMdc/azygous control (breaker)	0.49704	0.137
transgenic ySAMdc/azygous control (red)	1.12157	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.85328	0.048

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03393	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.61053	1
Manapal/WT (break)	0.7438	1
Manapal/WT (red)	0.4113	0.181