Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.20.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96768	0.722
27DAP/17DAP	1.49064	0.647
39DAP/27DAP	0.78747	0.425
41DAP/39DAP	1.65985	0.367
42DAP/41DAP	1.06994	1
43DAP/42DAP	1.09713	1
47DAP/43DAP	1.04167	0.959
52DAP/47DAP	1.17321	0.804
57DAP/52DAP	1.04813	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77074	0.03
17DAP/reference	0.81534	0.012
27DAP/reference	0.86632	0.052
39DAP/reference	0.83912	0.054
41DAP/reference	0.91272	0.201
42DAP/reference	0.91787	0.019
43DAP/reference	0.9559	0.448
47DAP/reference	0.90929	0.032
52DAP/reference	1.04985	0.912
57DAP/reference	0.97641	0.479

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05556	0.687
27DAP/17DAP	1.03342	0.928
39DAP/27DAP	1.10496	0.46
41DAP/39DAP	1.02623	0.896
42DAP/41DAP	0.99432	0.869
43DAP/42DAP	1.14925	0.134
47DAP/43DAP	0.94286	0.666
52DAP/47DAP	0.92005	0.739
57DAP/52DAP	0.92043	0.514
57DAP/7DAP	0.90281	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8245	0.082
17DAP/reference	0.90554	0.192
27DAP/reference	0.89969	0.146
39DAP/reference	0.76905	0.056
41DAP/reference	0.75938	0.021
42DAP/reference	0.79144	0.031
43DAP/reference	0.97068	0.44
47DAP/reference	0.97701	0.671
52DAP/reference	0.91328	0.254
57DAP/reference	0.9329	0.24

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85	0.041
17DAP/reference	0.76547	0.011
27DAP/reference	0.85457	0.081
39DAP/reference	0.77576	0.021
41DAP/reference	1.03904	1
42DAP/reference	0.82411	0.05
43DAP/reference	0.81975	0.053
47DAP/reference	0.8226	0.02
52DAP/reference	0.90274	0.143
57DAP/reference	0.83962	0.063

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03421	0.75
17DAP/reference	0.88353	0.136
27DAP/reference	0.91766	0.113
39DAP/reference	0.80195	0.018
41DAP/reference	0.91915	0.148
42DAP/reference	0.88857	0.134
43DAP/reference	0.837	0.036
47DAP/reference	1.00304	1
52DAP/reference	1.30591	0.398
57DAP/reference	0.87106	0.053

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10031	1
26DAP/20DAP	0.94269	0.512
34DAP/26DAP	0.84497	0.539
51DAP/34DAP	1.17651	0.746
52DAP/51DAP	1.07708	0.588
53DAP/52DAP	1.2246	0.179
55DAP/53DAP	0.94415	0.709
57DAP/55DAP	0.80854	0.42
62DAP/57DAP	1.12887	0.868
68DAP/62DAP	1.84533	0.278
68DAP/14DAP	2.18863	0.094

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.40661	0.081

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.88501	0.377
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.19458
Mature Eggplant/Ripe Tomato	1.90645	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95316	0.944
1-1-2/M82	0.96238	1
12-2/M82	1.00852
12-4/M82	0.93837	1
1-3/M82	0.82114	0.441
2-1-1/M82	1.14055
2-1/M82	0.58844
2-6/M82	1.01865	0.594
3-2/M82	0.91426	0.455
4-1-1/M82	0.94461	1
4-1/M82	0.81623	1
4-3-2/M82	0.98914	1
4-3/M82	0.83146	0.72
5-3/M82	0.97906	1
6-2/M82	0.90579	1
6-3/M82	1.21724	1
7-1/M82	0.99761	1
7-2/M82	1.20291	1
9-3-2/M82	0.92121	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.97375	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.24143	1
IL7-3/WTpooled	1.12842
IL12-4/WTpooled	0.94736
IL1-4/WTpooled	1.0106	1
WT/WTpooled	1.11999	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	1.03541	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91986	1
DC3000/delta hrp 6h	1.13888	1
DC3000/delta hrp 12h	0.97372	1
DC3000/delta hrp 24h	1.17287	0.254

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.48268
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.23314	1
Exp 36h	1.14606	1
Exp 60h	1.2414	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96825	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.58698	0.338
Var 12h NI row2-row1	1.00019
Var 36h I row2-row1	0.83146	1
Var 36h NI row2-row1	0.80779	0.61
Var 60h I row2-row1	0.80702	0.292
Var 60h NI row2-row1	0.88613	1
Time course 0hI-0hNI	0.95284	0.572
Time course 12hI-12hNI	0.94893	0.54
Time course 36hI-36hNI	0.99539	0.718
Time course 60hI-60hNI	1.17373	0.037

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)	0.94229	0.362
transgenic ySAMdc/azygous control (breaker)	1.07831	1
transgenic ySAMdc/azygous control (red)	1.02214	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.10381	0.033

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88832	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97554	1
Manapal/WT (break)	1.08581	1
Manapal/WT (red)	0.76398	0.181