Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.12.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02763	0.867
27DAP/17DAP	1.34074	0.653
39DAP/27DAP	0.8946	0.549
41DAP/39DAP	0.9716	0.777
42DAP/41DAP	0.84128	1
43DAP/42DAP	0.88627	0.708
47DAP/43DAP	1.1845	0.584
52DAP/47DAP	0.9386	0.752
57DAP/52DAP	1.08955	0.894

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81891	0.025
17DAP/reference	1.18889	0.22
27DAP/reference	0.88804	0.152
39DAP/reference	1.1371	0.453
41DAP/reference	1.15477	0.221
42DAP/reference	0.90582	0.129
43DAP/reference	1.01746	1
47DAP/reference	0.88773	0.098
52DAP/reference	0.68013	0.016
57DAP/reference	0.90693	0.248

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.41966	0.038
27DAP/17DAP	1.11955	0.836
39DAP/27DAP	0.8909	0.456
41DAP/39DAP	1.04379	1
42DAP/41DAP	1.10981	0.635
43DAP/42DAP	0.80432	0.06
47DAP/43DAP	0.97548	0.877
52DAP/47DAP	1.15944	0.539
57DAP/52DAP	1.17097	0.442
57DAP/7DAP	1.0179	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81973	0.052
17DAP/reference	0.91283	0.144
27DAP/reference	0.93283	0.231
39DAP/reference	0.78152	0.02
41DAP/reference	0.85056	0.09
42DAP/reference	0.73828	0.014
43DAP/reference	0.96965	0.44
47DAP/reference	0.79433	0.128
52DAP/reference	0.89485	0.196
57DAP/reference	0.93899	0.314

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08299	0.605
17DAP/reference	1.1421	0.471
27DAP/reference	0.87423	0.22
39DAP/reference	0.73715	0.083
41DAP/reference	0.83093	0.091
42DAP/reference	0.95263	0.482
43DAP/reference	1.43537	0.59
47DAP/reference	1.12345	0.182
52DAP/reference	1.02961	1
57DAP/reference	1.16881	0.523

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84658	0.158
17DAP/reference	1.09845	0.612
27DAP/reference	1.00103	0.883
39DAP/reference	1.02728	0.752
41DAP/reference	0.99846	0.826
42DAP/reference	1.02991	0.877
43DAP/reference	0.90844	0.246
47DAP/reference	0.87313	0.139
52DAP/reference	0.86382	0.31
57DAP/reference	0.69445	0.024

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89334	1
26DAP/20DAP	1.25153	0.409
34DAP/26DAP	0.81402	0.24
51DAP/34DAP	1.03725	0.988
52DAP/51DAP	0.83686	0.151
53DAP/52DAP	1.0938	0.608
55DAP/53DAP	0.72294	0.102
57DAP/55DAP	1.73705	0.461
62DAP/57DAP	1.15218	0.902
68DAP/62DAP	0.8244	0.245
68DAP/14DAP	0.55339

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.66976	0.034

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.55355	0.03
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	1.24699	0.536
1-1-2/M82	0.98661	1
12-2/M82	N/A	N/A
12-4/M82	1.16681	1
1-3/M82	0.64253	0.378
2-1-1/M82	0.88143
2-1/M82	N/A	N/A
2-6/M82	0.95302	1
3-2/M82	0.67968
4-1-1/M82	0.93769	1
4-1/M82	0.85855
4-3-2/M82	0.87799	1
4-3/M82	N/A	N/A
5-3/M82	0.94979	1
6-2/M82	N/A	N/A
6-3/M82	1.01622	1
7-1/M82	0.94986
7-2/M82	1.09322	1
9-3-2/M82	1.01533	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.06172
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	1.07991	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97358	1
DC3000/delta hrp 6h	1.05589	1
DC3000/delta hrp 12h	1.06755	1
DC3000/delta hrp 24h	1.11706	0.397

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14631	0.408
DC3000 delta B/DC3000 delta AB	0.94577	0.589

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	0.64167	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0211	1
Var 0h	1.54588	0.98
Var 12h I row2-row1	0.99902	1
Var 12h NI row2-row1	1.08619	1
Var 36h I row2-row1	1.14171	0.742
Var 36h NI row2-row1	1.05367	1
Var 60h I row2-row1	0.88426	0.582
Var 60h NI row2-row1	1.04132	0.904
Time course 0hI-0hNI	1.0895	0.719
Time course 12hI-12hNI	0.99491	1
Time course 36hI-36hNI	0.98751	0.621
Time course 60hI-60hNI	1.06293	0.426

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)	2.97765	0.482
transgenic ySAMdc/azygous control (breaker)	1.39807	1
transgenic ySAMdc/azygous control (red)	1.18127	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99459	0.737

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04342	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.97287	1
Manapal/WT (red)	0.89621	0.607