Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.14.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05853	0.812
27DAP/17DAP	1.39896	0.681
39DAP/27DAP	1.48537	0.181
41DAP/39DAP	0.89773	0.579
42DAP/41DAP	0.88244	1
43DAP/42DAP	0.78362	0.456
47DAP/43DAP	1.22495	0.481
52DAP/47DAP	1.35356	0.525
57DAP/52DAP	1.24654	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82886	0.121
17DAP/reference	N/A	N/A
27DAP/reference	1.65767	0.52
39DAP/reference	N/A	N/A
41DAP/reference	1.77281	0.012
42DAP/reference	1.14713	0.609
43DAP/reference	0.66591
47DAP/reference	1.13393	0.558
52DAP/reference	1.25604
57DAP/reference	1.53116	0.31

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91284	0.415
27DAP/17DAP	1.14779	0.407
39DAP/27DAP	1.21968	0.3
41DAP/39DAP	0.92454	0.747
42DAP/41DAP	1.13895	0.124
43DAP/42DAP	1.31397	0.072
47DAP/43DAP	0.97351	0.877
52DAP/47DAP	0.80628	0.063
57DAP/52DAP	0.90245	0.484
57DAP/7DAP	1.01599	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.17683	0.025
17DAP/reference	3.03529	0.006
27DAP/reference	2.859	0.006
39DAP/reference	3.17319	0.005
41DAP/reference	2.8139	0.011
42DAP/reference	3.27846	0.007
43DAP/reference	3.75995	0.007
47DAP/reference	2.65269	0.049
52DAP/reference	3.16712	0.007
57DAP/reference	2.77949	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1079	0.852
17DAP/reference	0.97246	0.536
27DAP/reference	1.16432	0.404
39DAP/reference	0.98359	0.569
41DAP/reference	0.89304	0.148
42DAP/reference	0.95341	0.433
43DAP/reference	0.93954	0.414
47DAP/reference	1.17993	0.048
52DAP/reference	1.10837	1
57DAP/reference	0.84981	0.318

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.34645	0.023
17DAP/reference	1.73812	0.303
27DAP/reference	3.78994	0.02
39DAP/reference	3.56872	0.016
41DAP/reference	2.50123	0.008
42DAP/reference	3.43426	0.008
43DAP/reference	3.25956	0.014
47DAP/reference	1.06236	0.585
52DAP/reference	3.64142	0.036
57DAP/reference	2.96033	0.067

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97182	1
26DAP/20DAP	1.41198	0.165
34DAP/26DAP	0.99719	1
51DAP/34DAP	1.26201	0.045
52DAP/51DAP	0.94129	1
53DAP/52DAP	0.96583	0.83
55DAP/53DAP	0.64575	0.021
57DAP/55DAP	1.5331	0.178
62DAP/57DAP	0.96361	0.871
68DAP/62DAP	1.2428	0.182
68DAP/14DAP	1.75121	0.04

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.34012	0.113

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.21991	0.176
Mature Green Tomato/Ripe Tomato	0.92423	0.487
Immature Eggplant/Mature Eggplant	1.39332	0.05
Ripe Pepper/Ripe Tomato	0.15148	0.224
Mature Eggplant/Ripe Tomato	0.74097	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94327	0.944
1-1-2/M82	1.02367	1
12-2/M82	1.11668	1
12-4/M82	0.94198	0.619
1-3/M82	1.39879	0.26
2-1-1/M82	0.9035	0.784
2-1/M82	0.84014	0.519
2-6/M82	0.9	1
3-2/M82	1.13507	0.717
4-1-1/M82	0.95101
4-1/M82	0.93134	1
4-3-2/M82	0.81461	0.698
4-3/M82	0.95611	1
5-3/M82	1.06509	1
6-2/M82	0.98715	1
6-3/M82	1.03994	1
7-1/M82	0.96741	1
7-2/M82	0.9694	1
9-3-2/M82	0.92839	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	N/A	N/A
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	1.05185	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01475	1
DC3000/delta hrp 6h	0.8625	0.95
DC3000/delta hrp 12h	1.04043	1
DC3000/delta hrp 24h	1.2617	0.045

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.71662	0.043
DC3000 delta B/DC3000 delta AB	1.25281	0.223

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.16728	1
Exp 36h	1.7762	0.326
Exp 60h	1.30742	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01659	1
Var 0h	0.81364	1
Var 12h I row2-row1	1.23371	0.379
Var 12h NI row2-row1	1.09531	0.34
Var 36h I row2-row1	0.94314	0.805
Var 36h NI row2-row1	0.77878	0.329
Var 60h I row2-row1	0.99163	1
Var 60h NI row2-row1	1.06039	0.904
Time course 0hI-0hNI	0.92175	0.495
Time course 12hI-12hNI	1.11064	0.152
Time course 36hI-36hNI	1.62423	0.005
Time course 60hI-60hNI	3.60387	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)	1.02201	0.798
transgenic ySAMdc/azygous control (breaker)	1.23099	0.172
transgenic ySAMdc/azygous control (red)	0.93801	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09635	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.86188	1
Manapal/WT (break)	0.89115	1
Manapal/WT (red)	0.97931	0.728