Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.11.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98616	0.847
27DAP/17DAP	1.22152	0.842
39DAP/27DAP	1.88777	0.332
41DAP/39DAP	0.79905	0.389
42DAP/41DAP	1.20393	0.873
43DAP/42DAP	0.86761	0.829
47DAP/43DAP	1.24868	0.394
52DAP/47DAP	0.97994	0.842
57DAP/52DAP	1.04205	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3051	0.023
17DAP/reference	1.27182	0.117
27DAP/reference	1.23921	0.103
39DAP/reference	1.39115	0.035
41DAP/reference	1.15314	0.221
42DAP/reference	1.38782	0.001
43DAP/reference	1.33018	0.009
47DAP/reference	1.13349	0.048
52DAP/reference	0.90516	0.172
57DAP/reference	0.92269	0.199

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9168	0.428
27DAP/17DAP	1.04797	0.928
39DAP/27DAP	1.01534	0.799
41DAP/39DAP	1.00305	1
42DAP/41DAP	0.9808	0.797
43DAP/42DAP	0.99513	1
47DAP/43DAP	1.02044	0.93
52DAP/47DAP	0.96098	0.778
57DAP/52DAP	1.06173	0.601
57DAP/7DAP	0.9539	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18705	0.17
17DAP/reference	1.11673	0.754
27DAP/reference	0.98163	0.53
39DAP/reference	1.11216	0.669
41DAP/reference	1.06136	0.812
42DAP/reference	1.09275	0.686
43DAP/reference	1.14208	0.457
47DAP/reference	1.30277	0.024
52DAP/reference	1.35592	0.034
57DAP/reference	1.19514	0.17

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14257	0.102
17DAP/reference	1.44023	0.007
27DAP/reference	1.56448	0.013
39DAP/reference	1.2705	0.041
41DAP/reference	1.33187	0.006
42DAP/reference	1.36389	0.008
43DAP/reference	1.22671	0.352
47DAP/reference	1.4886	0.009
52DAP/reference	1.17477	0.013
57DAP/reference	1.27015	0.015

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07797	0.518
17DAP/reference	1.02993	0.898
27DAP/reference	1.02788	1
39DAP/reference	1.36319	0.019
41DAP/reference	1.32574	0.03
42DAP/reference	1.24736	0.194
43DAP/reference	1.42969	0.055
47DAP/reference	1.08925	0.085
52DAP/reference	1.23686	0.312
57DAP/reference	0.86364	0.171

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95427	1
26DAP/20DAP	1.13909	0.433
34DAP/26DAP	0.99466	1
51DAP/34DAP	0.98586	0.893
52DAP/51DAP	0.98845	1
53DAP/52DAP	1.02025	0.935
55DAP/53DAP	0.93271	0.619
57DAP/55DAP	1.14415	0.474
62DAP/57DAP	1.07575	0.569
68DAP/62DAP	0.75059	0.177
68DAP/14DAP	0.74107	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95671	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.49312	0.063
Mature Green Tomato/Ripe Tomato	0.66452	0.119
Immature Eggplant/Mature Eggplant	0.88054	0.125
Ripe Pepper/Ripe Tomato	0.41974	0.224
Mature Eggplant/Ripe Tomato	0.64936	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9732	0.944
1-1-2/M82	0.78084
12-2/M82	0.91222	0.862
12-4/M82	0.83743	0.259
1-3/M82	1.80127	0.248
2-1-1/M82	1.39737	0.343
2-1/M82	1.63451	0.345
2-6/M82	1.10269
3-2/M82	N/A	N/A
4-1-1/M82	0.99801
4-1/M82	N/A	N/A
4-3-2/M82	0.63985
4-3/M82	1.23495	0.268
5-3/M82	1.1706	1
6-2/M82	1.21284	1
6-3/M82	1.71523
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.69333

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.156	0.441
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.8654	1
IL12-4/WTpooled	1.03203	0.785
IL1-4/WTpooled	1.02857	0.426
WT/WTpooled	0.93474	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	1.16959	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.26738	0.774
DC3000/delta hrp 6h	0.95546	0.95
DC3000/delta hrp 12h	1.013	1
DC3000/delta hrp 24h	1.00332	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05982	0.333
DC3000 delta B/DC3000 delta AB	1.15631	0.243

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95055	1
Exp 36h	1.06793	1
Exp 60h	1.2481	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01907	1
Var 0h	0.85716	0.457
Var 12h I row2-row1	1.15065	0.283
Var 12h NI row2-row1	1.00143	1
Var 36h I row2-row1	0.88295	1
Var 36h NI row2-row1	0.99149	0.852
Var 60h I row2-row1	0.90728	0.292
Var 60h NI row2-row1	1.02619	0.904
Time course 0hI-0hNI	1.00598	1
Time course 12hI-12hNI	1.04051	0.639
Time course 36hI-36hNI	1.29067	0.009
Time course 60hI-60hNI	1.55825	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)	1.08185	0.431
transgenic ySAMdc/azygous control (breaker)	1.12575	0.248
transgenic ySAMdc/azygous control (red)	1.07339	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.12603	0.055

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98358	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.75925	0.172
Manapal/WT (break)	0.88279	1
Manapal/WT (red)	1.31038	0.142