Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.14.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95198	0.689
27DAP/17DAP	1.18546	0.854
39DAP/27DAP	1.03405	1
41DAP/39DAP	1.07103	0.584
42DAP/41DAP	0.98053	1
43DAP/42DAP	0.94453	0.877
47DAP/43DAP	1.60277	0.502
52DAP/47DAP	2.41045	0.108
57DAP/52DAP	0.99352	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19785	0.013
17DAP/reference	1.13126	0.148
27DAP/reference	1.10386	0.029
39DAP/reference	0.96703	0.575
41DAP/reference	0.99922	1
42DAP/reference	1.10612	0.05
43DAP/reference	0.99859	0.924
47DAP/reference	1.8862	0.001
52DAP/reference	2.03291	0.008
57DAP/reference	1.19024	0.082

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.62188	0.046
27DAP/17DAP	1.22802	0.442
39DAP/27DAP	0.82171	0.083
41DAP/39DAP	0.85218	0.246
42DAP/41DAP	0.96932	0.721
43DAP/42DAP	1.1652	0.162
47DAP/43DAP	0.93719	0.554
52DAP/47DAP	1.30308	0.245
57DAP/52DAP	1.53332	0.198
57DAP/7DAP	0.42684	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93155	0.246
17DAP/reference	0.85364	0.021
27DAP/reference	1.01098	1
39DAP/reference	0.89112	0.031
41DAP/reference	0.91896	0.044
42DAP/reference	0.94252	0.1
43DAP/reference	0.83645	0.035
47DAP/reference	0.833	0.066
52DAP/reference	0.81682	0.014
57DAP/reference	0.742	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24858	0.083
17DAP/reference	1.45846	0.007
27DAP/reference	1.17827	0.075
39DAP/reference	0.90391	0.298
41DAP/reference	0.99588	0.601
42DAP/reference	1.18229	0.153
43DAP/reference	0.93851	0.423
47DAP/reference	1.01888	0.89
52DAP/reference	0.89348	0.121
57DAP/reference	0.96672	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08029	1
17DAP/reference	1.08159	0.757
27DAP/reference	0.84264	0.147
39DAP/reference	0.82086	0.033
41DAP/reference	0.8568	0.046
42DAP/reference	0.90398	0.22
43DAP/reference	0.88567	0.102
47DAP/reference	0.9692	0.509
52DAP/reference	1.26933	0.295
57DAP/reference	2.12079	0.01

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.75184	0.159
26DAP/20DAP	0.89777	0.512
34DAP/26DAP	0.86371	0.666
51DAP/34DAP	0.54201	0.063
52DAP/51DAP	1.05531	0.915
53DAP/52DAP	0.79433	0.113
55DAP/53DAP	0.80294	0.544
57DAP/55DAP	0.71279	0.3
62DAP/57DAP	1.19579	0.217
68DAP/62DAP	0.86709	0.668
68DAP/14DAP	0.3311	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.59921	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	4.44505	0.058
Mature Green Tomato/Ripe Tomato	0.21918	0.017
Immature Eggplant/Mature Eggplant	0.359	0.058
Ripe Pepper/Ripe Tomato	0.18352	0.224
Mature Eggplant/Ripe Tomato	0.13628	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98412	0.961
1-1-2/M82	0.81534	1
12-2/M82	N/A	N/A
12-4/M82	1.28153
1-3/M82	0.85162
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.17819	0.594
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.99099	1
4-3-2/M82	1.33902
4-3/M82	2.31735
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	0.40025
7-1/M82	1.41758
7-2/M82	0.77636
9-3-2/M82	1.15851	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.57496	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.8803
IL12-4/WTpooled	0.87601	1
IL1-4/WTpooled	1.00339	1
WT/WTpooled	0.89579	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	1.26653	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97677	1
DC3000/delta hrp 6h	1.13554	1
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.45941	0.028

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.55416	0.025
DC3000 delta B/DC3000 delta AB	0.52715	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99556	1
Exp 36h	0.7303	0.539
Exp 60h	0.69842	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97401	1
Var 0h	0.85287	1
Var 12h I row2-row1	0.91644	0.338
Var 12h NI row2-row1	0.92418	0.627
Var 36h I row2-row1	1.03708	1
Var 36h NI row2-row1	1.06609	1
Var 60h I row2-row1	1.27013	0.543
Var 60h NI row2-row1	1.02655	1
Time course 0hI-0hNI	1.11009	0.486
Time course 12hI-12hNI	0.9285	0.324
Time course 36hI-36hNI	0.79556	0.038
Time course 60hI-60hNI	0.22902	0.005

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)	0.78989	0.324
transgenic ySAMdc/azygous control (breaker)	1.15349	1
transgenic ySAMdc/azygous control (red)	0.69638	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94032	0.196

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.21013	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.78385	0.09
Manapal/WT (break)	1.36197	1
Manapal/WT (red)	2.998	0.142