Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-1.4.15.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04455	0.827
27DAP/17DAP	1.15632	0.829
39DAP/27DAP	0.98148	0.749
41DAP/39DAP	1.23204	0.357
42DAP/41DAP	1.08809	0.978
43DAP/42DAP	1.07453	1
47DAP/43DAP	1.27963	0.463
52DAP/47DAP	0.91035	0.712
57DAP/52DAP	0.97107	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9167	0.098
17DAP/reference	1.00797	0.74
27DAP/reference	1.02698	0.375
39DAP/reference	0.98496	0.663
41DAP/reference	1.0059	0.963
42DAP/reference	0.96492	0.107
43DAP/reference	0.98048	0.728
47DAP/reference	0.96158	0.207
52DAP/reference	0.99896	0.709
57DAP/reference	0.95659	0.415

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01868	0.87
27DAP/17DAP	0.98526	0.854
39DAP/27DAP	0.99586	1
41DAP/39DAP	0.98661	1
42DAP/41DAP	0.99644	0.902
43DAP/42DAP	1.00736	0.746
47DAP/43DAP	0.9979	1
52DAP/47DAP	0.98313	0.901
57DAP/52DAP	0.97519	0.697
57DAP/7DAP	0.98597	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99303	0.682
17DAP/reference	0.93285	0.22
27DAP/reference	0.8845	0.026
39DAP/reference	0.94399	0.17
41DAP/reference	0.82558	0.079
42DAP/reference	0.90619	0.13
43DAP/reference	0.75292	0.011
47DAP/reference	0.87755	0.222
52DAP/reference	0.7219	0.012
57DAP/reference	0.79663	0.042

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96813	0.532
17DAP/reference	0.89536	0.016
27DAP/reference	0.9392	0.366
39DAP/reference	0.84848	0.097
41DAP/reference	0.89686	0.103
42DAP/reference	0.94582	0.321
43DAP/reference	1.05334	0.809
47DAP/reference	1.02627	0.454
52DAP/reference	1.00167	0.761
57DAP/reference	0.95122	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82977	0.031
17DAP/reference	1.02294	0.932
27DAP/reference	0.84126	0.032
39DAP/reference	0.87375	0.033
41DAP/reference	0.92551	0.293
42DAP/reference	0.81726	0.059
43DAP/reference	0.83457	0.048
47DAP/reference	0.96346	0.396
52DAP/reference	0.94046	0.538
57DAP/reference	0.92155	0.203

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00613	1
26DAP/20DAP	0.9821	1
34DAP/26DAP	1.07579	0.819
51DAP/34DAP	1.01183	0.962
52DAP/51DAP	0.99885	1
53DAP/52DAP	1.04423	0.768
55DAP/53DAP	1.00403	1
57DAP/55DAP	0.92849	0.744
62DAP/57DAP	0.91687	0.162
68DAP/62DAP	1.09809	0.788
68DAP/14DAP	1.04207	0.714

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95998	0.253

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.06103	0.666
Mature Green Tomato/Ripe Tomato	1.17235	0.299
Immature Eggplant/Mature Eggplant	1.27619	0.205
Ripe Pepper/Ripe Tomato	0.84194	1
Mature Eggplant/Ripe Tomato	0.80385	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96046	0.944
1-1-2/M82	0.8766	1
12-2/M82	1.14198	0.61
12-4/M82	0.85999	1
1-3/M82	0.9705	1
2-1-1/M82	1.04387	1
2-1/M82	1.25427	1
2-6/M82	0.92075	1
3-2/M82	0.68167	N/A
4-1-1/M82	1.02999	1
4-1/M82	1.05576	0.326
4-3-2/M82	0.84309	1
4-3/M82	1.03967	1
5-3/M82	1.03331	1
6-2/M82	1.10204	0.253
6-3/M82	0.97974	1
7-1/M82	1.00788	1
7-2/M82	0.98531	1
9-3-2/M82	0.68798	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.99801	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.8838	1
IL12-4/WTpooled	1.18826	0.839
IL1-4/WTpooled	1.17325	N/A
WT/WTpooled	1.0628	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	1.15091	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03038	0.921
DC3000/delta hrp 6h	1.1586	1
DC3000/delta hrp 12h	1.04457	1
DC3000/delta hrp 24h	1.09541	0.296

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.04898	0.333
DC3000 delta B/DC3000 delta AB	1.05004	0.528

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	1.17354	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98063	1
Var 0h	0.96611	1
Var 12h I row2-row1	1.03405	0.736
Var 12h NI row2-row1	1.04368	1
Var 36h I row2-row1	0.9932	1
Var 36h NI row2-row1	1.01565	1
Var 60h I row2-row1	1.16848	1
Var 60h NI row2-row1	1.07582	1
Time course 0hI-0hNI	1.07982	0.852
Time course 12hI-12hNI	1.01835	0.876
Time course 36hI-36hNI	1.02925	0.722
Time course 60hI-60hNI	1.34905	0.019

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)	0.9009	0.377
transgenic ySAMdc/azygous control (breaker)	1.28332	1
transgenic ySAMdc/azygous control (red)	1.2757	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9624	0.047

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82114	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.78209	1
Manapal/WT (break)	0.9215	1
Manapal/WT (red)	0.83281	0.229