Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.9.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.43085	0.315
27DAP/17DAP	0.96474	0.922
39DAP/27DAP	0.83946	0.338
41DAP/39DAP	0.99826	0.852
42DAP/41DAP	1.38619	0.722
43DAP/42DAP	0.99498	0.932
47DAP/43DAP	1.24007	0.659
52DAP/47DAP	0.92039	0.754
57DAP/52DAP	1.06959	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22695	0.278
17DAP/reference	1.0883	0.33
27DAP/reference	1.00045	0.867
39DAP/reference	0.96946	0.587
41DAP/reference	1.11093	0.203
42DAP/reference	1.25617	0.003
43DAP/reference	1.089	0.057
47DAP/reference	1.02932	0.535
52DAP/reference	0.95265	0.283
57DAP/reference	0.88114	0.068

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.45463	0.036
27DAP/17DAP	0.80706	0.39
39DAP/27DAP	1.1015	0.465
41DAP/39DAP	1.0775	0.807
42DAP/41DAP	1.10883	0.343
43DAP/42DAP	0.96611	0.641
47DAP/43DAP	1.1368	0.095
52DAP/47DAP	1.02111	0.919
57DAP/52DAP	1.00697	0.929
57DAP/7DAP	1.05914	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.48663	0.082
17DAP/reference	1.48436	0.03
27DAP/reference	1.39805	0.006
39DAP/reference	1.34992	0.141
41DAP/reference	1.44504	0.042
42DAP/reference	N/A	N/A
43DAP/reference	2.16573	0.006
47DAP/reference	1.19371	0.618
52DAP/reference	1.7307	0.007
57DAP/reference	2.0863	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09541	0.33
17DAP/reference	1.54496	0.032
27DAP/reference	1.22636	0.026
39DAP/reference	1.2135	0.132
41DAP/reference	1.12365	0.548
42DAP/reference	1.05022	1
43DAP/reference	1.30756	0.347
47DAP/reference	1.09378	0.321
52DAP/reference	1.22789	0.223
57DAP/reference	1.39756	0.022

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31732	0.149
17DAP/reference	1.18816	0.279
27DAP/reference	0.81176
39DAP/reference	1.70229	0.048
41DAP/reference	1.40627	0.025
42DAP/reference	1.23851	0.459
43DAP/reference	1.41025	0.172
47DAP/reference	0.97847	0.558
52DAP/reference	1.54895	0.22
57DAP/reference	0.99995	0.444

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14673	0.966
26DAP/20DAP	1.44	0.177
34DAP/26DAP	0.89397	0.783
51DAP/34DAP	1.20259	0.192
52DAP/51DAP	0.98011	1
53DAP/52DAP	1.11399	0.806
55DAP/53DAP	0.87033	0.462
57DAP/55DAP	1.21862	0.826
62DAP/57DAP	1.05436	0.833
68DAP/62DAP	0.89317	0.747
68DAP/14DAP	0.48689	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.69966	0.047

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.10837	0.089
Mature Green Tomato/Ripe Tomato	1.09058	0.577
Immature Eggplant/Mature Eggplant	1.06411	0.379
Ripe Pepper/Ripe Tomato	0.23525	0.224
Mature Eggplant/Ripe Tomato	0.52474	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.08709
1-1-2/M82	1.33575	1
12-2/M82	1.03723
12-4/M82	1.07983	1
1-3/M82	1.7514	0.248
2-1-1/M82	0.87239	0.465
2-1/M82	1.22646
2-6/M82	0.85601
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.02099
4-3-2/M82	1.08694	0.262
4-3/M82	1.12163	1
5-3/M82	1.12481	1
6-2/M82	1.15205
6-3/M82	N/A	N/A
7-1/M82	0.95986
7-2/M82	N/A	N/A
9-3-2/M82	1.24295

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	2.55139	0.277
IL2-6/WTpooled	0.98521	1
IL7-5/WTpooled	1.00101	1
IL7-3/WTpooled	6.32794	1
IL12-4/WTpooled	1.93129	0.516
IL1-4/WTpooled	3.16974	0.426
WT/WTpooled	0.9122	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	0.97979	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02132	0.921
DC3000/delta hrp 6h	1.17457	1
DC3000/delta hrp 12h	1.05212	1
DC3000/delta hrp 24h	1.3336	0.243

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07452	0.476
DC3000 delta B/DC3000 delta AB	0.99861	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06402	1
Exp 36h	0.89331	0.623
Exp 60h	1.13968	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01238	1
Var 0h	0.578	0.936
Var 12h I row2-row1	0.91225	0.467
Var 12h NI row2-row1	1.04807	1
Var 36h I row2-row1	1.17082	0.368
Var 36h NI row2-row1	1.05557	1
Var 60h I row2-row1	0.96899	0.952
Var 60h NI row2-row1	0.91674	0.977
Time course 0hI-0hNI	1.01851	0.852
Time course 12hI-12hNI	0.93948	0.511
Time course 36hI-36hNI	1.18246	0.218
Time course 60hI-60hNI	0.71804	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)	0.98073	0.338
transgenic ySAMdc/azygous control (breaker)	0.72049	0.15
transgenic ySAMdc/azygous control (red)	0.9106	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00933	0.587

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03005	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.01115	1
Manapal/WT (break)	1.0816	0.183
Manapal/WT (red)	0.66568	0.181