Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.18.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2161	0.315
27DAP/17DAP	1.06412	0.922
39DAP/27DAP	0.99416	0.82
41DAP/39DAP	0.97542	0.841
42DAP/41DAP	1.16034	0.642
43DAP/42DAP	1.03615	1
47DAP/43DAP	1.22934	0.647
52DAP/47DAP	0.85213	0.609
57DAP/52DAP	1.07367	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11115	0.154
17DAP/reference	1.36873	0.068
27DAP/reference	1.21096	0.205
39DAP/reference	1.39053	0.191
41DAP/reference	1.19457	0.203
42DAP/reference	1.11805	0.632
43DAP/reference	0.92696	0.5
47DAP/reference	1.06573	0.752
52DAP/reference	1.2597	0.048
57DAP/reference	0.94676	0.415

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06407	0.699
27DAP/17DAP	1.15854	0.333
39DAP/27DAP	1.10695	0.383
41DAP/39DAP	1.00831	1
42DAP/41DAP	1.02251	1
43DAP/42DAP	1.07032	0.192
47DAP/43DAP	1.03323	0.822
52DAP/47DAP	1.03958	0.868
57DAP/52DAP	1.01136	1
57DAP/7DAP	1.19666	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83559	0.129
17DAP/reference	1.03706	1
27DAP/reference	0.96643	0.462
39DAP/reference	0.80081	0.034
41DAP/reference	0.84368	0.098
42DAP/reference	0.95857	0.436
43DAP/reference	0.89775	0.23
47DAP/reference	1.08283	0.659
52DAP/reference	0.94898	0.363
57DAP/reference	0.94299	0.411

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10937	0.724
17DAP/reference	1.30902	0.007
27DAP/reference	1.36394	0.047
39DAP/reference	1.05743	0.602
41DAP/reference	1.21479	0.293
42DAP/reference	1.36948	0.008
43DAP/reference	1.0069	0.787
47DAP/reference	1.1629	0.282
52DAP/reference	1.03897	0.988
57DAP/reference	1.18258	0.409

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08767	0.984
17DAP/reference	1.11595	0.712
27DAP/reference	1.05733	0.721
39DAP/reference	0.98903	0.693
41DAP/reference	0.9235	0.512
42DAP/reference	0.78783	0.134
43DAP/reference	0.92884	0.384
47DAP/reference	1.16106	0.294
52DAP/reference	1.00786	0.732
57DAP/reference	1.19367	0.116

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11621	1
26DAP/20DAP	0.84994	0.512
34DAP/26DAP	0.96345	0.92
51DAP/34DAP	1.01465	0.925
52DAP/51DAP	0.98747	1
53DAP/52DAP	1.08213	0.768
55DAP/53DAP	1.11857	0.782
57DAP/55DAP	1.46051	0.203
62DAP/57DAP	0.91048	0.681
68DAP/62DAP	1.25769	1
68DAP/14DAP	0.96529

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.22618	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.34811	0.237
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	3.34639	1
Mature Eggplant/Ripe Tomato	2.58427

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	0.93713
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	1.71692
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.97421
IL7-3/WTpooled	0.896
IL12-4/WTpooled	1.17451	0.646
IL1-4/WTpooled	1.39321	1
WT/WTpooled	0.98496	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	0.98356	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97139	1
DC3000/delta hrp 6h	0.99305	0.95
DC3000/delta hrp 12h	1.28202	1
DC3000/delta hrp 24h	0.87955	0.246

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.86476	0.027
DC3000 delta B/DC3000 delta AB	0.83342	0.03

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.13023	1
Exp 36h	0.74889	0.471
Exp 60h	0.68871	0.32

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00994	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.94311	0.565
Var 12h NI row2-row1	0.9113	0.488
Var 36h I row2-row1	1.03153	1
Var 36h NI row2-row1	0.98928	0.852
Var 60h I row2-row1	1.0425	1
Var 60h NI row2-row1	1.08269	0.904
Time course 0hI-0hNI	0.99266	1
Time course 12hI-12hNI	0.96926	0.79
Time course 36hI-36hNI	1.00945	0.89
Time course 60hI-60hNI	0.73546	0.006

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)	1.05808	0.863
transgenic ySAMdc/azygous control (breaker)	1.38082	0.178
transgenic ySAMdc/azygous control (red)	0.97477	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.19613	0.083

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.41193	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.46954	0.084
Manapal/WT (break)	1.8843	0.123
Manapal/WT (red)	1.16499	0.413