Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.20.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09539	0.755
27DAP/17DAP	1.20055	0.809
39DAP/27DAP	0.89163	0.549
41DAP/39DAP	1.33604	0.387
42DAP/41DAP	0.96174	1
43DAP/42DAP	1.04548	1
47DAP/43DAP	1.11786	0.825
52DAP/47DAP	0.84087	0.587
57DAP/52DAP	1.00552	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01427	0.787
17DAP/reference	1.0985	0.029
27DAP/reference	1.00021	0.904
39DAP/reference	1.07498	0.026
41DAP/reference	1.08051	0.451
42DAP/reference	0.92454	0.059
43DAP/reference	1.06962	0.142
47DAP/reference	0.927	0.098
52DAP/reference	0.68857	0.015
57DAP/reference	0.79144	0.028

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98722	0.763
27DAP/17DAP	0.95468	0.724
39DAP/27DAP	0.98314	0.919
41DAP/39DAP	1.11991	1
42DAP/41DAP	1.02756	0.976
43DAP/42DAP	1.13015	0.324
47DAP/43DAP	0.94703	0.743
52DAP/47DAP	1.08905	0.742
57DAP/52DAP	0.9421	0.514
57DAP/7DAP	0.99933	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88228	0.08
17DAP/reference	0.90053	0.014
27DAP/reference	0.80043	0.01
39DAP/reference	0.97824	0.23
41DAP/reference	0.96104	0.166
42DAP/reference	0.96268	0.16
43DAP/reference	0.9205	0.027
47DAP/reference	0.84426	0.044
52DAP/reference	0.90662	0.022
57DAP/reference	0.91649	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06338	0.449
17DAP/reference	1.01388	0.999
27DAP/reference	0.81776	0.071
39DAP/reference	0.86163	0.132
41DAP/reference	0.78915	0.067
42DAP/reference	0.8462	0.046
43DAP/reference	1.10148	0.453
47DAP/reference	0.90677	0.097
52DAP/reference	1.05877	0.368
57DAP/reference	1.2448	0.078

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84935	0.135
17DAP/reference	0.96542	0.579
27DAP/reference	0.87828	0.051
39DAP/reference	0.89982	0.083
41DAP/reference	0.89775	0.132
42DAP/reference	0.72074	0.087
43DAP/reference	0.74799	0.076
47DAP/reference	0.91029	0.296
52DAP/reference	0.80969	0.098
57DAP/reference	0.44723	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97187	1
26DAP/20DAP	0.90724	1
34DAP/26DAP	1.03363	1
51DAP/34DAP	0.90193	0.428
52DAP/51DAP	1.14848	0.15
53DAP/52DAP	1.15792	0.221
55DAP/53DAP	1.06288	0.622
57DAP/55DAP	0.99389	0.914
62DAP/57DAP	1.11029	0.445
68DAP/62DAP	0.92589	0.722
68DAP/14DAP	0.89347	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96411	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.06597	0.835
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99767	1
1-1-2/M82	0.81613
12-2/M82	1.21651	1
12-4/M82	0.96236	1
1-3/M82	0.80741	0.501
2-1-1/M82	0.99331
2-1/M82	N/A	N/A
2-6/M82	1.11643	0.594
3-2/M82	0.93382	1
4-1-1/M82	0.99979	1
4-1/M82	1.08486	0.853
4-3-2/M82	1.00765	1
4-3/M82	0.8279	0.72
5-3/M82	0.90095	0.642
6-2/M82	0.71607
6-3/M82	0.94062	1
7-1/M82	0.86886	0.803
7-2/M82	0.91449	0.796
9-3-2/M82	0.94048	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.04588	0.493
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.93941	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.90968	0.415
WT/WTpooled	N/A	N/A

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.74701
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.03136	1
DC3000/delta hrp 24h	0.97393	0.988

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.97756	1
DC3000 delta B/DC3000 delta AB	0.99824	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04249	1
Exp 36h	1.78331	0.371
Exp 60h	1.45522	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9871	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.98704	1
Var 12h NI row2-row1	0.90151	0.82
Var 36h I row2-row1	0.99321	1
Var 36h NI row2-row1	1.27294	1
Var 60h I row2-row1	1.05085	1
Var 60h NI row2-row1	1.21929	0.904
Time course 0hI-0hNI	1.14124	0.764
Time course 12hI-12hNI	1.06472	0.741
Time course 36hI-36hNI	1.07435	0.28
Time course 60hI-60hNI	1.78351	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)	0.89521	0.391
transgenic ySAMdc/azygous control (breaker)	1.10245	1
transgenic ySAMdc/azygous control (red)	0.99765	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9878	0.673

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.0083	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98317	1
Manapal/WT (break)	0.99956	1
Manapal/WT (red)	0.85006	0.503