Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.14.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.36203	0.014
27DAP/17DAP	0.58858	0.099
39DAP/27DAP	0.80706	0.544
41DAP/39DAP	0.55743	0.104
42DAP/41DAP	0.92903	1
43DAP/42DAP	1.20522	1
47DAP/43DAP	0.68269	0.177
52DAP/47DAP	1.37331	0.902
57DAP/52DAP	1.00948	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.59993	0.006
17DAP/reference	1.67126	0.018
27DAP/reference	1.84978	0.008
39DAP/reference	0.79287	0.292
41DAP/reference	0.73169	0.016
42DAP/reference	0.8026	0.004
43DAP/reference	0.81826	0.018
47DAP/reference	0.74723	0.023
52DAP/reference	0.70958	0.026
57DAP/reference	0.92855	0.262

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.44415	0.034
27DAP/17DAP	1.30099	0.065
39DAP/27DAP	0.54296	0.031
41DAP/39DAP	0.84008	0.617
42DAP/41DAP	1.00448	0.887
43DAP/42DAP	0.85384	0.321
47DAP/43DAP	1.01962	0.971
52DAP/47DAP	1.17365	0.742
57DAP/52DAP	1.19777	0.493
57DAP/7DAP	0.37222	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23625	0.042
17DAP/reference	1.07887	0.123
27DAP/reference	0.95017	0.082
39DAP/reference	0.92946	0.015
41DAP/reference	0.81413	0.029
42DAP/reference	0.7313	0.01
43DAP/reference	0.93597	0.23
47DAP/reference	0.70508	0.101
52DAP/reference	0.87493	0.061
57DAP/reference	0.87902	0.041

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.77991	0.055
17DAP/reference	1.74736	0.007
27DAP/reference	1.09668	0.726
39DAP/reference	0.71862	0.085
41DAP/reference	0.78541	0.058
42DAP/reference	0.74928	0.089
43DAP/reference	0.65187	0.008
47DAP/reference	0.65911	0.01
52DAP/reference	0.5964	0.055
57DAP/reference	0.69056	0.079

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.39614	0.017
17DAP/reference	1.25259	0.139
27DAP/reference	1.21333	0.046
39DAP/reference	0.93425	0.299
41DAP/reference	0.93749	0.371
42DAP/reference	0.84772	0.134
43DAP/reference	0.84368	0.246
47DAP/reference	0.39923	0.007
52DAP/reference	0.89921	0.405
57DAP/reference	0.81313	0.053

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04068	1
26DAP/20DAP	1.33983	0.212
34DAP/26DAP	1.04835	1
51DAP/34DAP	0.6009	0.059
52DAP/51DAP	0.877	0.151
53DAP/52DAP	0.82121	0.056
55DAP/53DAP	0.56054	0.019
57DAP/55DAP	0.70868	0.08
62DAP/57DAP	0.83103	0.28
68DAP/62DAP	0.7713	0.543
68DAP/14DAP	0.39731	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.10663	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.50736	0.058
Mature Green Tomato/Ripe Tomato	5.6332	0.015
Immature Eggplant/Mature Eggplant	0.53322	0.057
Ripe Pepper/Ripe Tomato	12.7706	0.233
Mature Eggplant/Ripe Tomato	7.09769	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.89078	1
12-2/M82	N/A	N/A
12-4/M82	0.8216	0.619
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.95729
5-3/M82	1.1736	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.32772	0.277
IL2-6/WTpooled	0.9683	1
IL7-5/WTpooled	1.30598	0.792
IL7-3/WTpooled	1.0036	1
IL12-4/WTpooled	1.14732	0.646
IL1-4/WTpooled	1.05354	1
WT/WTpooled	1.02494	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	0.70376	0.201

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.75422	0.868
DC3000/delta hrp 6h	0.95175	0.95
DC3000/delta hrp 12h	1.15688	1
DC3000/delta hrp 24h	0.49165	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.31693	0.023
DC3000 delta B/DC3000 delta AB	0.39627	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94804	1
Exp 36h	0.73364	0.406
Exp 60h	0.53681	0.251

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00826	1
Var 0h	1.33472	0.782
Var 12h I row2-row1	0.8472	0.565
Var 12h NI row2-row1	0.83729	0.546
Var 36h I row2-row1	0.96515	1
Var 36h NI row2-row1	1.1707	1
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.09123	0.904
Time course 0hI-0hNI	1.0166	1
Time course 12hI-12hNI	0.84982	0.106
Time course 36hI-36hNI	0.69734	0.023
Time course 60hI-60hNI	0.06303	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)	0.82717	0.391
transgenic ySAMdc/azygous control (breaker)	0.87631	0.139
transgenic ySAMdc/azygous control (red)	1.03761	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.87997	0.256

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	3.90633	0.229

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.9261	1
Manapal/WT (break)	1.20436	1
Manapal/WT (red)	1.012	1