Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.17.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07679	0.904
27DAP/17DAP	1.12925	0.881
39DAP/27DAP	1.1681	0.643
41DAP/39DAP	0.72561	0.231
42DAP/41DAP	0.78604	0.774
43DAP/42DAP	1.04206	0.937
47DAP/43DAP	1.24784	0.842
52DAP/47DAP	1.70501	0.388
57DAP/52DAP	1.06699	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96825	0.539
17DAP/reference	1.38784	0.384
27DAP/reference	1.0786	1
39DAP/reference	1.30111	0.144
41DAP/reference	1.24421	0.312
42DAP/reference	0.93464	0.157
43DAP/reference	0.88985	0.36
47DAP/reference	0.99882	0.674
52DAP/reference	0.95801	0.416
57DAP/reference	1.05374	0.901

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92114	0.47
27DAP/17DAP	1.11829	0.639
39DAP/27DAP	1.06208	0.742
41DAP/39DAP	1.23272	0.849
42DAP/41DAP	1.11206	0.582
43DAP/42DAP	1.18206	0.413
47DAP/43DAP	1.04608	0.892
52DAP/47DAP	0.99866	0.987
57DAP/52DAP	0.97187	0.737
57DAP/7DAP	1.35172	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71292	0.078
17DAP/reference	0.93136	0.253
27DAP/reference	1.42283	0.006
39DAP/reference	0.7056	0.02
41DAP/reference	0.8291	0.094
42DAP/reference	0.89229	0.106
43DAP/reference	0.78106	0.025
47DAP/reference	0.91719	0.383
52DAP/reference	0.81693	0.043
57DAP/reference	0.84702	0.056

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86113	0.353
17DAP/reference	0.93474	0.389
27DAP/reference	1.29056	0.26
39DAP/reference	1.05087	0.783
41DAP/reference	1.48082	0.153
42DAP/reference	1.27059	0.034
43DAP/reference	1.70206	0.065
47DAP/reference	1.04071	0.943
52DAP/reference	1.05535	0.559
57DAP/reference	1.03734	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70273	0.048
17DAP/reference	1.03302	0.854
27DAP/reference	1.06371	0.777
39DAP/reference	0.99584	0.755
41DAP/reference	1.05271	1
42DAP/reference	1.15114	0.272
43DAP/reference	0.76776	0.061
47DAP/reference	1.0376	0.994
52DAP/reference	0.80767	0.193
57DAP/reference	1.22565	0.592

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	4.87296	0.966
26DAP/20DAP	1.06981
34DAP/26DAP	0.71826
51DAP/34DAP	1.74436	0.1
52DAP/51DAP	1.29961	0.842
53DAP/52DAP	0.86113	0.52
55DAP/53DAP	1.18502	0.904
57DAP/55DAP	1.12018	0.927
62DAP/57DAP	0.96602	0.994
68DAP/62DAP	1.65723	0.375
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	5.1049	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.35911	0.331
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.39602	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01981
1-1-2/M82	1.00247
12-2/M82	N/A	N/A
12-4/M82	0.89073	0.619
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	0.71293
5-3/M82	0.95925	1
6-2/M82	1.21698
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.07381
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.39683	0.277
IL2-6/WTpooled	0.74414	0.348
IL7-5/WTpooled	0.83841
IL7-3/WTpooled	1.23585	0.362
IL12-4/WTpooled	0.99875	1
IL1-4/WTpooled	1.01936	1
WT/WTpooled	0.95559	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	0.89339	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11073	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.09618	1
DC3000/delta hrp 24h	1.16336	0.397

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	1.40577	1
Var 0h	0.52444	1
Var 12h I row2-row1	1.12372	0.196
Var 12h NI row2-row1	1.15175	0.34
Var 36h I row2-row1	1.14421	0.41
Var 36h NI row2-row1	1.04639	1
Var 60h I row2-row1	0.89289	0.292
Var 60h NI row2-row1	0.86116	0.866
Time course 0hI-0hNI	1.07061	0.764
Time course 12hI-12hNI	1.44815	0.006
Time course 36hI-36hNI	1.3563	0.015
Time course 60hI-60hNI	1.58934	0.009

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.60554	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	1.11984	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00696	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.76573	0.242