Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.18.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13475	0.863
27DAP/17DAP	1.2357	0.895
39DAP/27DAP	0.98901	0.682
41DAP/39DAP	1.15653	0.715
42DAP/41DAP	1.03885	1
43DAP/42DAP	1.26847	0.892
47DAP/43DAP	0.95832	0.835
52DAP/47DAP	1.29512	0.736
57DAP/52DAP	1.36236	0.776

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98636	0.63
17DAP/reference	1.12761	0.012
27DAP/reference	0.99383	0.797
39DAP/reference	1.05051	0.318
41DAP/reference	1.05941	0.338
42DAP/reference	0.93127	0.103
43DAP/reference	0.99928	0.924
47DAP/reference	0.93789	0.161
52DAP/reference	0.75819	0.015
57DAP/reference	0.75338	0.02

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.93868	0.075
27DAP/17DAP	1.0064	0.943
39DAP/27DAP	0.77807	0.296
41DAP/39DAP	1.13373	0.801
42DAP/41DAP	0.92448	0.545
43DAP/42DAP	0.68656	0.076
47DAP/43DAP	1.03054	0.985
52DAP/47DAP	1.40566	0.543
57DAP/52DAP	1.14214	0.902
57DAP/7DAP	1.16099	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0873	0.576
17DAP/reference	1.18107	0.199
27DAP/reference	1.10443	0.974
39DAP/reference	1.46293	0.01
41DAP/reference	1.07772	0.524
42DAP/reference	1.29768	0.046
43DAP/reference	1.25681	0.015
47DAP/reference	1.06603	0.98
52DAP/reference	0.97128	0.435
57DAP/reference	1.10696	0.125

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05163	0.569
17DAP/reference	1.0005	0.924
27DAP/reference	1.01462	1
39DAP/reference	0.93713	0.314
41DAP/reference	0.90357	0.068
42DAP/reference	0.83995	0.015
43DAP/reference	0.98024	0.592
47DAP/reference	0.93745	0.141
52DAP/reference	0.92151	0.086
57DAP/reference	1.19365	0.269

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1069	0.142
17DAP/reference	1.11915	0.467
27DAP/reference	1.08013	0.34
39DAP/reference	1.11135	0.157
41DAP/reference	1.19554	0.734
42DAP/reference	0.9947	0.816
43DAP/reference	0.82713	0.052
47DAP/reference	0.96303	0.434
52DAP/reference	1.08314	0.601
57DAP/reference	0.72242	0.059

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.88873	0.65
26DAP/20DAP	1.10496	0.813
34DAP/26DAP	1.12609	1
51DAP/34DAP	0.84195	0.323
52DAP/51DAP	1.60025	0.534
53DAP/52DAP	0.76631	0.498
55DAP/53DAP	1.25272	0.671
57DAP/55DAP	0.90996	0.644
62DAP/57DAP	0.86112	0.681
68DAP/62DAP	0.67747	0.033
68DAP/14DAP	0.7419	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.40769	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.90526	0.591
Mature Green Tomato/Ripe Tomato	0.84708	0.086
Immature Eggplant/Mature Eggplant	0.79154	0.134
Ripe Pepper/Ripe Tomato	0.80545	1
Mature Eggplant/Ripe Tomato	0.86151	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96533	0.944
1-1-2/M82	0.92681	0.958
12-2/M82	1.01136	1
12-4/M82	0.94785	1
1-3/M82	0.75423	0.378
2-1-1/M82	1.16721	0.457
2-1/M82	N/A	N/A
2-6/M82	1.1427	0.405
3-2/M82	0.95628	1
4-1-1/M82	0.96352	1
4-1/M82	0.9473
4-3-2/M82	0.82217
4-3/M82	0.85225	1
5-3/M82	0.92589	1
6-2/M82	0.93023
6-3/M82	1.06299	1
7-1/M82	1.0506	1
7-2/M82	1.07121	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.68014
IL2-6/WTpooled	1.10881	0.46
IL7-5/WTpooled	0.9432	0.343
IL7-3/WTpooled	0.76653	0.418
IL12-4/WTpooled	1.02349	1
IL1-4/WTpooled	1.02773	1
WT/WTpooled	1.09912	0.911

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	1.23983	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03834	1
DC3000/delta hrp 6h	1.1424	1
DC3000/delta hrp 12h	1.04778	1
DC3000/delta hrp 24h	1.11156	0.553

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.79527	1
Exp 36h	0.90542	0.699
Exp 60h	0.86623	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	3.02809	0.936
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	0.90863	0.472
Time course 12hI-12hNI	0.81977	0.39
Time course 36hI-36hNI	0.73696	0.027
Time course 60hI-60hNI	0.48382	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)	1.00235	1
transgenic ySAMdc/azygous control (breaker)	1.30217	0.166
transgenic ySAMdc/azygous control (red)	1.13905	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04355	0.185

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93413	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87028	0.172
Manapal/WT (break)	0.88716	1
Manapal/WT (red)	1.44822	0.142