Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.2.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07236	1
27DAP/17DAP	1.23981	0.804
39DAP/27DAP	0.80395	0.443
41DAP/39DAP	1.37893	0.323
42DAP/41DAP	0.98445	1
43DAP/42DAP	1.00319	0.925
47DAP/43DAP	0.93461	0.736
52DAP/47DAP	0.96271	0.777
57DAP/52DAP	1.03761	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13764	0.105
17DAP/reference	1.04299	0.22
27DAP/reference	1.0162	0.981
39DAP/reference	0.9873	0.68
41DAP/reference	1.06356	0.587
42DAP/reference	0.92132	0.02
43DAP/reference	1.07417	0.36
47DAP/reference	0.85722	0.004
52DAP/reference	0.84289	0.131
57DAP/reference	0.7749	0.065

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92243	0.277
27DAP/17DAP	0.97015	0.821
39DAP/27DAP	1.07127	0.57
41DAP/39DAP	1.14962	0.315
42DAP/41DAP	0.99071	0.865
43DAP/42DAP	1.0728	0.162
47DAP/43DAP	1.01038	0.934
52DAP/47DAP	1.00351	1
57DAP/52DAP	0.98515	0.745
57DAP/7DAP	1.03646	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83428	0.066
17DAP/reference	0.87179	0.031
27DAP/reference	0.77242	0.01
39DAP/reference	0.84892	0.043
41DAP/reference	0.85898	0.107
42DAP/reference	0.75128	0.01
43DAP/reference	0.85332	0.04
47DAP/reference	0.87239	0.383
52DAP/reference	0.82111	0.083
57DAP/reference	0.91569	0.093

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07166	0.315
17DAP/reference	1.16766	0.021
27DAP/reference	0.93636	0.22
39DAP/reference	1.12354	0.868
41DAP/reference	1.20124	0.146
42DAP/reference	0.87037	0.098
43DAP/reference	1.12822	0.215
47DAP/reference	0.9916	0.625
52DAP/reference	0.97738	0.576
57DAP/reference	1.28103	0.054

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82378	0.036
17DAP/reference	0.95531	0.477
27DAP/reference	0.75604	0.025
39DAP/reference	0.80462	0.019
41DAP/reference	0.84234	0.024
42DAP/reference	0.76396	0.071
43DAP/reference	0.79951	0.027
47DAP/reference	1.0844	0.066
52DAP/reference	0.77011	0.204
57DAP/reference	0.66404	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97032	1
26DAP/20DAP	0.85355	0.512
34DAP/26DAP	0.94722	0.741
51DAP/34DAP	0.9842	0.873
52DAP/51DAP	1.02486	0.742
53DAP/52DAP	0.95167	0.505
55DAP/53DAP	1.08329	0.712
57DAP/55DAP	1.13603	0.424
62DAP/57DAP	1.16844	0.158
68DAP/62DAP	0.96484	0.834
68DAP/14DAP	0.86029	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.79269	0.034

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.75677	0.132
Immature Eggplant/Mature Eggplant	1.39034
Ripe Pepper/Ripe Tomato	0.82644
Mature Eggplant/Ripe Tomato	1.19819	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99723	1
1-1-2/M82	0.91869	1
12-2/M82	1.1674	1
12-4/M82	0.97629	1
1-3/M82	1.03622	1
2-1-1/M82	1.38991	0.422
2-1/M82	N/A	N/A
2-6/M82	1.26851	0.425
3-2/M82	0.6819
4-1-1/M82	1.17429	0.977
4-1/M82	0.90035	1
4-3-2/M82	0.92886	1
4-3/M82	0.92526	1
5-3/M82	1.1146	1
6-2/M82	1.1591	1
6-3/M82	1.05773	1
7-1/M82	1.07234
7-2/M82	1.09579	1
9-3-2/M82	0.85989	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.7389	0.321
IL2-6/WTpooled	1.11053	0.788
IL7-5/WTpooled	1.86317	0.65
IL7-3/WTpooled	0.90548	0.298
IL12-4/WTpooled	0.99852	1
IL1-4/WTpooled	1.06816
WT/WTpooled	1.03369	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	1.4003	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.79665	0.246
DC3000/delta hrp 6h	1.21371	1
DC3000/delta hrp 12h	1.25251	1
DC3000/delta hrp 24h	1.20293	0.347

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.16024	0.076
DC3000 delta B/DC3000 delta AB	1.11249	0.332

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07963	1
Exp 36h	1.48555	0.693
Exp 60h	1.32341	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95958	1
Var 0h	0.99547	1
Var 12h I row2-row1	1.06287	0.348
Var 12h NI row2-row1	0.95335	0.82
Var 36h I row2-row1	1.12154	1
Var 36h NI row2-row1	1.43286	1
Var 60h I row2-row1	1.23842	0.562
Var 60h NI row2-row1	1.02375	1
Time course 0hI-0hNI	1.11169	0.63
Time course 12hI-12hNI	1.11199	0.281
Time course 36hI-36hNI	1.5045	0.006
Time course 60hI-60hNI	1.27299	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)	1.44311	0.612
transgenic ySAMdc/azygous control (breaker)	0.24415	0.125
transgenic ySAMdc/azygous control (red)	1.35974	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03562	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.51913	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.85971	1
Manapal/WT (break)	1.04838	1
Manapal/WT (red)	0.55794	0.181