Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.10.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02815	0.932
27DAP/17DAP	1.18351	0.825
39DAP/27DAP	0.92408	0.62
41DAP/39DAP	1.10974	0.758
42DAP/41DAP	1.04664	0.986
43DAP/42DAP	1.02345	1
47DAP/43DAP	1.15617	0.702
52DAP/47DAP	0.94671	0.823
57DAP/52DAP	1.00688	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96341	0.489
17DAP/reference	0.84398	0.022
27DAP/reference	0.9974	0.867
39DAP/reference	0.97104	0.6
41DAP/reference	0.99468	0.814
42DAP/reference	1.00422	1
43DAP/reference	1.06514	0.445
47DAP/reference	0.98232	0.503
52DAP/reference	0.88319	0.167
57DAP/reference	1.01745	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95155	0.376
27DAP/17DAP	0.97385	0.724
39DAP/27DAP	1.01451	0.77
41DAP/39DAP	1.02863	0.817
42DAP/41DAP	1.01416	0.961
43DAP/42DAP	0.97325	0.482
47DAP/43DAP	0.96161	0.534
52DAP/47DAP	0.9603	0.746
57DAP/52DAP	0.99801	0.897
57DAP/7DAP	0.97752	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84206	0.104
17DAP/reference	0.72184	0.011
27DAP/reference	0.6969	0.01
39DAP/reference	0.76478	0.011
41DAP/reference	0.80011	0.032
42DAP/reference	0.71988	0.012
43DAP/reference	0.78544	0.018
47DAP/reference	0.86789	0.066
52DAP/reference	0.70285	0.012
57DAP/reference	0.81216	0.025

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02292	0.993
17DAP/reference	1.00108	0.786
27DAP/reference	0.90929	0.144
39DAP/reference	0.94801	0.257
41DAP/reference	0.87663	0.08
42DAP/reference	0.99887	0.655
43DAP/reference	0.98606	0.67
47DAP/reference	1.08287	0.256
52DAP/reference	0.94883	0.28
57DAP/reference	1.04737	0.14

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78565	0.047
17DAP/reference	0.959	0.571
27DAP/reference	0.82249	0.048
39DAP/reference	0.75978	0.024
41DAP/reference	0.75726	0.028
42DAP/reference	0.71396	0.018
43DAP/reference	0.84839	0.049
47DAP/reference	0.97042	0.357
52DAP/reference	0.90535	0.368
57DAP/reference	0.84696	0.045

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0071	0.966
26DAP/20DAP	0.87606	0.512
34DAP/26DAP	1.005	1
51DAP/34DAP	1.06998	0.55
52DAP/51DAP	0.96658	1
53DAP/52DAP	1.07206	0.489
55DAP/53DAP	0.98701	0.886
57DAP/55DAP	1.18145	0.525
62DAP/57DAP	0.99529	1
68DAP/62DAP	0.84839	0.641
68DAP/14DAP	1.42967	0.069

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90045	0.032

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.09723	0.417
Mature Green Tomato/Ripe Tomato	1.31748	0.07
Immature Eggplant/Mature Eggplant	1.91638	0.05
Ripe Pepper/Ripe Tomato	2.13768	0.258
Mature Eggplant/Ripe Tomato	2.3316	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96566	0.944
1-1-2/M82	1.03123	1
12-2/M82	0.95462	0.955
12-4/M82	1.01003	1
1-3/M82	0.92832	0.501
2-1-1/M82	0.88822	0.683
2-1/M82	1.03271	1
2-6/M82	0.97704	1
3-2/M82	0.94269	0.752
4-1-1/M82	1.05114	1
4-1/M82	0.92922	1
4-3-2/M82	0.8147	0.487
4-3/M82	0.95816	1
5-3/M82	0.99848	1
6-2/M82	0.97497	1
6-3/M82	1.00943	1
7-1/M82	0.9777	1
7-2/M82	0.97341	0.796
9-3-2/M82	1.07459	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.18269	0.493
IL2-6/WTpooled	1.03863	0.788
IL7-5/WTpooled	0.77412	1
IL7-3/WTpooled	0.94859	1
IL12-4/WTpooled	0.90653	1
IL1-4/WTpooled	0.88034	0.834
WT/WTpooled	1.01448	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	1.3781	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.90146	1
DC3000/delta hrp 6h	1.17682	1
DC3000/delta hrp 12h	1.03731	1
DC3000/delta hrp 24h	0.96437	0.818

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.89928	0.065
DC3000 delta B/DC3000 delta AB	0.92872	0.297

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92624	1
Exp 36h	0.95805	1
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0125	1
Var 0h	0.80457	0.98
Var 12h I row2-row1	1.06792	0.443
Var 12h NI row2-row1	0.98893	1
Var 36h I row2-row1	0.98437	1
Var 36h NI row2-row1	1.47326	1
Var 60h I row2-row1	1.15014	1
Var 60h NI row2-row1	1.1503	0.904
Time course 0hI-0hNI	0.98184	0.943
Time course 12hI-12hNI	1.00131	1
Time course 36hI-36hNI	0.89393	0.049
Time course 60hI-60hNI	0.8528	0.026

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)	0.73083	0.314
transgenic ySAMdc/azygous control (breaker)	1.271	0.248
transgenic ySAMdc/azygous control (red)	1.17578	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03883	0.155

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.08843	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.62673	0.172
Manapal/WT (break)	0.65953	0.333
Manapal/WT (red)	0.76572	0.181