Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.2.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.37754	0.359
27DAP/17DAP	0.52724	0.039
39DAP/27DAP	0.73523	0.376
41DAP/39DAP	0.65836	0.062
42DAP/41DAP	1.08694	1
43DAP/42DAP	1.2509	0.676
47DAP/43DAP	1.66309	0.208
52DAP/47DAP	0.45564	0.045
57DAP/52DAP	1.04392	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.66953	0.049
17DAP/reference	0.49012	0.008
27DAP/reference	0.64027	0.026
39DAP/reference	0.43242	0.01
41DAP/reference	0.32529	0.008
42DAP/reference	0.5833	0.001
43DAP/reference	0.54432	0.014
47DAP/reference	0.65133	0.001
52DAP/reference	0.52464	0.013
57DAP/reference	0.75275	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.07963	0.036
27DAP/17DAP	0.6823	0.179
39DAP/27DAP	0.56628	0.054
41DAP/39DAP	1.08709	0.827
42DAP/41DAP	0.96954	0.721
43DAP/42DAP	0.86381	0.132
47DAP/43DAP	1.18117	0.124
52DAP/47DAP	0.99136	0.93
57DAP/52DAP	1.20032	0.341
57DAP/7DAP	0.65207	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92704	0.296
17DAP/reference	0.72109	0.014
27DAP/reference	0.50607	0.01
39DAP/reference	0.44219	0.011
41DAP/reference	0.367	0.009
42DAP/reference	0.55973	0.017
43DAP/reference	0.3227	0.01
47DAP/reference	0.43283	0.038
52DAP/reference	0.36769	0.009
57DAP/reference	0.34963	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.46675	0.007
17DAP/reference	0.54534	0.009
27DAP/reference	0.65044	0.051
39DAP/reference	0.63392	0.045
41DAP/reference	0.59072	0.026
42DAP/reference	0.48934	0.01
43DAP/reference	0.30321	0.002
47DAP/reference	0.3991	0.007
52DAP/reference	0.48142	0.008
57DAP/reference	0.35708	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.10384	0.016
17DAP/reference	1.82439	0.157
27DAP/reference	1.26295	0.137
39DAP/reference	1.01598	0.889
41DAP/reference	0.76957	0.064
42DAP/reference	0.6037	0.016
43DAP/reference	0.63542	0.023
47DAP/reference	0.62235	0.008
52DAP/reference	0.60254	0.059
57DAP/reference	1.80515	0.031

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.82409	0.841
26DAP/20DAP	0.96945	1
34DAP/26DAP	0.74825	0.139
51DAP/34DAP	0.52606	0.059
52DAP/51DAP	0.92473	1
53DAP/52DAP	0.65342	0.489
55DAP/53DAP	0.82009	0.389
57DAP/55DAP	1.24559	0.474
62DAP/57DAP	1.66597	0.8
68DAP/62DAP	0.87425	0.722
68DAP/14DAP	1.39306	0.049

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85895	0.076

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.79932	0.254
Mature Green Tomato/Ripe Tomato	2.25214	0.064
Immature Eggplant/Mature Eggplant	0.48681	0.062
Ripe Pepper/Ripe Tomato	1.77387	1
Mature Eggplant/Ripe Tomato	1.83879	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10578	0.877
1-1-2/M82	1.40148	1
12-2/M82	0.75975	0.955
12-4/M82	0.97431	1
1-3/M82	1.41659	0.479
2-1-1/M82	1.06986	0.689
2-1/M82	0.6118	0.325
2-6/M82	0.9383	1
3-2/M82	1.18186
4-1-1/M82	1.12869	1
4-1/M82	0.70094
4-3-2/M82	1.28742	1
4-3/M82	1.41028	0.268
5-3/M82	0.94566	1
6-2/M82	1.00071	1
6-3/M82	1.03353	1
7-1/M82	1.01721	1
7-2/M82	1.41265	0.318
9-3-2/M82	1.32799	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.0879	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.91663	1
IL12-4/WTpooled	0.94414	1
IL1-4/WTpooled	1.04807
WT/WTpooled	1.02359	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	0.94682	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97319	1
DC3000/delta hrp 6h	0.92796	0.95
DC3000/delta hrp 12h	1.26024	1
DC3000/delta hrp 24h	1.00828	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.72392	0.085
DC3000 delta B/DC3000 delta AB	0.45858	0.024

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01669	1
Exp 36h	0.85389	0.661
Exp 60h	0.82312	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95047	1
Var 0h	1.0592	0.98
Var 12h I row2-row1	0.88004	0.338
Var 12h NI row2-row1	1.04598	0.649
Var 36h I row2-row1	0.92867	0.805
Var 36h NI row2-row1	1.07774	1
Var 60h I row2-row1	1.19754	0.543
Var 60h NI row2-row1	1.00342	1
Time course 0hI-0hNI	0.98669	0.981
Time course 12hI-12hNI	1.0074	0.888
Time course 36hI-36hNI	0.95215	0.179
Time course 60hI-60hNI	0.31027	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)	1.00604	1
transgenic ySAMdc/azygous control (breaker)	1.71909	0.172
transgenic ySAMdc/azygous control (red)	0.90417	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.63188	0.131

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.32079	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	8.46957	0.083
Manapal/WT (break)	1.89468	0.123
Manapal/WT (red)	1.67348	0.413