Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.2.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07895	0.838
27DAP/17DAP	1.42693	0.599
39DAP/27DAP	1.02547	0.899
41DAP/39DAP	1.29267	0.58
42DAP/41DAP	0.84741	1
43DAP/42DAP	1.02405	0.937
47DAP/43DAP	0.87707	0.591
52DAP/47DAP	1.31101	0.596
57DAP/52DAP	0.86293	0.853

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12169	0.121
17DAP/reference	1.04275	0.412
27DAP/reference	0.96299	0.525
39DAP/reference	1.08441	0.111
41DAP/reference	1.15524	0.624
42DAP/reference	1.04319	0.414
43DAP/reference	0.97748	0.653
47DAP/reference	1.10252	0.233
52DAP/reference	1.00321	0.768
57DAP/reference	0.92093	0.096

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03737	0.91
27DAP/17DAP	1.11928	0.9
39DAP/27DAP	1.14776	0.603
41DAP/39DAP	0.833	0.434
42DAP/41DAP	1.03064	0.913
43DAP/42DAP	0.81877	0.04
47DAP/43DAP	0.86024	0.184
52DAP/47DAP	1.0626	0.868
57DAP/52DAP	0.7844	0.091
57DAP/7DAP	0.90647

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82145	0.27
17DAP/reference	0.50257	0.031
27DAP/reference	1.18341	0.804
39DAP/reference	0.82622	0.17
41DAP/reference	0.91036	0.284
42DAP/reference	1.12424	0.889
43DAP/reference	0.97166	0.58
47DAP/reference	1.20103	0.458
52DAP/reference	0.87654	0.083
57DAP/reference	1.03682	0.694

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25741	0.246
17DAP/reference	1.44252	0.008
27DAP/reference	1.17076	0.192
39DAP/reference	1.38005	0.015
41DAP/reference	1.07619	0.752
42DAP/reference	1.03595	0.879
43DAP/reference	1.2423	0.035
47DAP/reference	1.05761	0.603
52DAP/reference	1.1425	0.343
57DAP/reference	1.31043	0.045

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00788	1
17DAP/reference	1.03199	0.9
27DAP/reference	0.96895
39DAP/reference	1.032	0.792
41DAP/reference	1.1176	0.605
42DAP/reference	1.31727	0.016
43DAP/reference	1.12461	0.139
47DAP/reference	1.13816	0.03
52DAP/reference	0.89856	0.464
57DAP/reference	1.17461	0.121

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07311	1
26DAP/20DAP	1.65761	0.663
34DAP/26DAP	1.27217	0.819
51DAP/34DAP	1.07284	0.627
52DAP/51DAP	0.92532	1
53DAP/52DAP	1.05904	0.895
55DAP/53DAP	1.28094	0.452
57DAP/55DAP	0.87282	0.545
62DAP/57DAP	0.97158	0.994
68DAP/62DAP	0.73412	0.227
68DAP/14DAP	0.69037	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.11498	0.627

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.29358	0.016
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.69749	1
Mature Eggplant/Ripe Tomato	1.41138	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98198	1
1-1-2/M82	0.9802	1
12-2/M82	N/A	N/A
12-4/M82	0.87992	0.33
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	0.99576
4-1-1/M82	0.71102
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.09522
5-3/M82	1.17238	0.455
6-2/M82	1.24715	0.253
6-3/M82	1.50809
7-1/M82	N/A	N/A
7-2/M82	1.16232
9-3-2/M82	1.12356

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.65231
IL2-6/WTpooled	1.0185	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.06073	1
IL12-4/WTpooled	0.91517	1
IL1-4/WTpooled	1.09281
WT/WTpooled	1.11961	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	1.75815	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06283	0.894
DC3000/delta hrp 6h	1.08064	1
DC3000/delta hrp 12h	1.08988	1
DC3000/delta hrp 24h	0.92508	0.323

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	0.77575

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.89151	1
Exp 36h	0.88852	0.661
Exp 60h	1.00961	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95568	1
Var 0h	1.07964	1
Var 12h I row2-row1	1.10977	0.406
Var 12h NI row2-row1	0.78462	0.627
Var 36h I row2-row1	0.9925	1
Var 36h NI row2-row1	0.73744	1
Var 60h I row2-row1	0.98631	1
Var 60h NI row2-row1	0.94755	1
Time course 0hI-0hNI	1.03691	0.867
Time course 12hI-12hNI	0.95993	0.739
Time course 36hI-36hNI	0.957	0.323
Time course 60hI-60hNI	0.92547	0.161

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)	1.02062	0.36
transgenic ySAMdc/azygous control (breaker)	1.20122	1
transgenic ySAMdc/azygous control (red)	1.0596	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99246	0.694

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.22942	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00004	1
Manapal/WT (break)	1.22039	0.381
Manapal/WT (red)	1.0828	1