Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.9.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.41183	0.414
27DAP/17DAP	1.03197	1
39DAP/27DAP	1.09052	0.882
41DAP/39DAP	0.96122	0.873
42DAP/41DAP	1.25553	0.908
43DAP/42DAP	1.18799	1
47DAP/43DAP	1.5808	0.474
52DAP/47DAP	0.99537	0.924
57DAP/52DAP	0.83161	0.889

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07311	0.96
17DAP/reference	1.13978	0.083
27DAP/reference	1.04722	0.548
39DAP/reference	0.96576	0.5
41DAP/reference	1.16922	0.338
42DAP/reference	0.81913	0.007
43DAP/reference	0.94279	0.41
47DAP/reference	0.86512	0.011
52DAP/reference	1.04426	1
57DAP/reference	0.95738	0.456

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09639	0.881
27DAP/17DAP	1.0722	0.826
39DAP/27DAP	1.29244	0.46
41DAP/39DAP	1.30524	0.214
42DAP/41DAP	0.6989	0.009
43DAP/42DAP	0.90556	0.415
47DAP/43DAP	1.19663	0.119
52DAP/47DAP	0.95825	0.857
57DAP/52DAP	1.27395	0.145
57DAP/7DAP	2.35924	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0818	0.625
17DAP/reference	1.32618	0.011
27DAP/reference	1.15892	0.026
39DAP/reference	1.23518	0.09
41DAP/reference	1.00313	0.646
42DAP/reference	0.86994	0.144
43DAP/reference	1.19471	0.045
47DAP/reference	0.94013	0.383
52DAP/reference	1.18351	0.328
57DAP/reference	1.3863	0.024

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18546	0.164
17DAP/reference	0.97955	0.561
27DAP/reference	1.10201	0.573
39DAP/reference	1.0743	0.412
41DAP/reference	1.02445	1
42DAP/reference	0.84185	0.028
43DAP/reference	1.04915	0.831
47DAP/reference	0.96886	0.423
52DAP/reference	1.08659	0.343
57DAP/reference	1.07007	0.508

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04756	0.644
17DAP/reference	1.05605	0.944
27DAP/reference	1.30111	0.022
39DAP/reference	1.18451	0.019
41DAP/reference	1.13005	0.343
42DAP/reference	0.98157	0.671
43DAP/reference	1.04473	0.961
47DAP/reference	0.91132	0.089
52DAP/reference	1.56791	0.155
57DAP/reference	0.95664	0.444

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.21422	0.966
26DAP/20DAP	0.55338	0.244
34DAP/26DAP	1.09791	1
51DAP/34DAP	0.70655	0.108
52DAP/51DAP	1.07699	0.848
53DAP/52DAP	1.75306	0.154
55DAP/53DAP	0.88507	0.604
57DAP/55DAP	0.86289	0.479
62DAP/57DAP	1.07873	0.868
68DAP/62DAP	0.71109	0.29
68DAP/14DAP	0.88023	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96994	0.443

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
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	0.85891
1-1-2/M82	0.95931	0.958
12-2/M82	N/A	N/A
12-4/M82	0.6588
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	0.80581
3-2/M82	0.98094
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	0.99194	1
7-1/M82	N/A	N/A
7-2/M82	1.37065
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.39284	0.277
IL2-6/WTpooled	0.91495	1
IL7-5/WTpooled	0.80297	1
IL7-3/WTpooled	1.12117	1
IL12-4/WTpooled	1.15037	0.532
IL1-4/WTpooled	0.91013	0.699
WT/WTpooled	1.1015	0.686

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	0.85321	0.216

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04024	0.823
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.0085	1
DC3000/delta hrp 24h	1.14334	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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.1705	1
Var 0h	1.35238	0.782
Var 12h I row2-row1	0.96417	0.948
Var 12h NI row2-row1	1.09334
Var 36h I row2-row1	1.17204	0.298
Var 36h NI row2-row1	0.62591
Var 60h I row2-row1	0.87208	0.285
Var 60h NI row2-row1	0.42196	1
Time course 0hI-0hNI	0.88955	0.438
Time course 12hI-12hNI	1.08196	0.693
Time course 36hI-36hNI	1.30961	0.035
Time course 60hI-60hNI	1.24263	0.06

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)	1.18341	0.798
transgenic ySAMdc/azygous control (breaker)	2.29575	0.178
transgenic ySAMdc/azygous control (red)	1.56914	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9617	0.323

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.6942	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88808	1
Manapal/WT (break)	1.01971	1
Manapal/WT (red)	0.52022	0.181