Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.14.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03692	0.83
27DAP/17DAP	1.23704	0.849
39DAP/27DAP	1.05308	0.888
41DAP/39DAP	0.88626	0.636
42DAP/41DAP	0.94267	1
43DAP/42DAP	0.96144	0.895
47DAP/43DAP	1.1946	0.769
52DAP/47DAP	1.40617	0.922
57DAP/52DAP	0.90812	0.903

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23099	0.093
17DAP/reference	1.07822	1
27DAP/reference	1.07067	0.299
39DAP/reference	0.98554	0.816
41DAP/reference	1.14373	0.145
42DAP/reference	0.89873	0.028
43DAP/reference	1.0219	0.928
47DAP/reference	0.95877	0.322
52DAP/reference	0.93054	0.189
57DAP/reference	1.05346	0.405

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97404	0.697
27DAP/17DAP	0.98383	0.943
39DAP/27DAP	0.94388	0.759
41DAP/39DAP	1.11861	0.799
42DAP/41DAP	1.12982	1
43DAP/42DAP	1.61667	0.072
47DAP/43DAP	1.13125	0.149
52DAP/47DAP	1.1159	0.639
57DAP/52DAP	1.05807	0.911
57DAP/7DAP	0.89714	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20557	0.318
17DAP/reference	1.15043	0.627
27DAP/reference	1.03725	0.698
39DAP/reference	1.28003	0.028
41DAP/reference	1.17338	0.054
42DAP/reference	1.13704	0.308
43DAP/reference	1.26905	0.14
47DAP/reference	0.82539	0.128
52DAP/reference	1.23605	0.526
57DAP/reference	1.02412	0.746

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02497	0.776
17DAP/reference	1.09481	0.448
27DAP/reference	1.13049	0.163
39DAP/reference	1.04353	0.848
41DAP/reference	1.12189	0.416
42DAP/reference	1.09962	0.543
43DAP/reference	1.14188	0.489
47DAP/reference	1.04504	0.695
52DAP/reference	1.07103	0.528
57DAP/reference	0.96232	0.488

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21008	0.218
17DAP/reference	1.14688	0.228
27DAP/reference	1.06297	0.51
39DAP/reference	1.14345	0.318
41DAP/reference	1.8167	0.197
42DAP/reference	0.99598	1
43DAP/reference	0.82066	0.081
47DAP/reference	0.91084	0.269
52DAP/reference	1.09796	0.393
57DAP/reference	1.04113	0.8

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.75052
26DAP/20DAP	1.33846	0.635
34DAP/26DAP	1.0113	1
51DAP/34DAP	1.42935	0.036
52DAP/51DAP	1.20894	0.439
53DAP/52DAP	1.06809	0.783
55DAP/53DAP	0.60513	0.067
57DAP/55DAP	4.55112	0.666
62DAP/57DAP	1.43976	0.678
68DAP/62DAP	1.24579	0.754
68DAP/14DAP	0.94095	0.056

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97599	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.17937	0.058
Mature Green Tomato/Ripe Tomato	0.45768
Immature Eggplant/Mature Eggplant	0.72448	0.081
Ripe Pepper/Ripe Tomato	0.71327	0.293
Mature Eggplant/Ripe Tomato	1.53903	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
5-3/M82	N/A	N/A
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	1.13646	0.277
IL2-6/WTpooled	1.04031	0.788
IL7-5/WTpooled	1.05252	1
IL7-3/WTpooled	0.96166	1
IL12-4/WTpooled	0.95711	1
IL1-4/WTpooled	0.9805	1
WT/WTpooled	1.00068	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	1.2886	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.222	0.758
DC3000/delta hrp 6h	1.03987	1
DC3000/delta hrp 12h	0.98151	1
DC3000/delta hrp 24h	1.20601	1

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	1.08594	0.593

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.88176	0.328
Exp 36h	0.7744	0.426
Exp 60h	0.75776	0.253

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04012	1
Var 0h	1.2044	0.594
Var 12h I row2-row1	1.03095	0.654
Var 12h NI row2-row1	1.19116	1
Var 36h I row2-row1	0.77173	1
Var 36h NI row2-row1	1.00378	1
Var 60h I row2-row1	0.93771	0.952
Var 60h NI row2-row1	0.9978	1
Time course 0hI-0hNI	0.9202	0.649
Time course 12hI-12hNI	1.12707	0.246
Time course 36hI-36hNI	0.93184	0.183
Time course 60hI-60hNI	0.76909	0.026

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)	0.92542	0.33
transgenic ySAMdc/azygous control (breaker)	0.88061	0.251
transgenic ySAMdc/azygous control (red)	1.09186	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.88805	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.78679	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10386	1
Manapal/WT (break)	1.53785	0.14
Manapal/WT (red)	1.02968	1