Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.8.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14472	0.545
27DAP/17DAP	1.04383	0.91
39DAP/27DAP	0.87984	0.41
41DAP/39DAP	1.41636	0.426
42DAP/41DAP	1.51787	0.216
43DAP/42DAP	1.17874	0.869
47DAP/43DAP	1.10196	0.842
52DAP/47DAP	0.78833	0.421
57DAP/52DAP	1.12897	0.853

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97618	0.539
17DAP/reference	1.06928	0.057
27DAP/reference	1.0409	0.365
39DAP/reference	0.98466	0.762
41DAP/reference	1.00351	1
42DAP/reference	0.95052	0.064
43DAP/reference	1.02539	0.518
47DAP/reference	0.94037	0.116
52DAP/reference	0.95517	0.416
57DAP/reference	0.91561	0.051

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92973	0.251
27DAP/17DAP	1.00881	1
39DAP/27DAP	1.05042	0.534
41DAP/39DAP	1.01387	0.883
42DAP/41DAP	1.03017	0.872
43DAP/42DAP	1.0832	0.04
47DAP/43DAP	1.05477	0.65
52DAP/47DAP	0.92766	0.677
57DAP/52DAP	1.00893	1
57DAP/7DAP	1.13951	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92748	0.108
17DAP/reference	0.93025	0.056
27DAP/reference	0.95215	0.012
39DAP/reference	1.0184	0.486
41DAP/reference	0.97545	0.284
42DAP/reference	0.97117	0.117
43DAP/reference	0.92519	0.241
47DAP/reference	0.90479	0.168
52DAP/reference	0.95049	0.196
57DAP/reference	0.96482	0.149

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05418	0.416
17DAP/reference	1.0352	0.415
27DAP/reference	0.88608	0.129
39DAP/reference	0.81228	0.117
41DAP/reference	0.82955	0.105
42DAP/reference	0.90336	0.237
43DAP/reference	1.02801	0.719
47DAP/reference	0.93629	0.051
52DAP/reference	0.92259	0.327
57DAP/reference	1.00996	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93056	0.098
17DAP/reference	0.98211	0.778
27DAP/reference	0.92132	0.069
39DAP/reference	0.92787	0.029
41DAP/reference	0.93963	0.293
42DAP/reference	0.95668	0.671
43DAP/reference	0.85925	0.095
47DAP/reference	0.95121	0.325
52DAP/reference	0.8565	0.121
57DAP/reference	0.68305	0.023

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10693	0.47
26DAP/20DAP	0.99073	1
34DAP/26DAP	0.98044	0.97
51DAP/34DAP	1.08125	0.429
52DAP/51DAP	1.02495	0.783
53DAP/52DAP	1.07617	0.623
55DAP/53DAP	1.14531	0.361
57DAP/55DAP	0.99667	0.904
62DAP/57DAP	1.2458	0.833
68DAP/62DAP	0.93352	0.722
68DAP/14DAP	1.03293	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96659	0.493

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.68552	0.179
Mature Green Tomato/Ripe Tomato	0.51159	0.038
Immature Eggplant/Mature Eggplant	0.4057	0.062
Ripe Pepper/Ripe Tomato	16.5271	1
Mature Eggplant/Ripe Tomato	13.6482	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04349	0.877
1-1-2/M82	1.07552	1
12-2/M82	0.97176	0.955
12-4/M82	1.04478	1
1-3/M82	0.8686
2-1-1/M82	1.06595	0.457
2-1/M82	1.36557
2-6/M82	1.15207	0.695
3-2/M82	0.53854	1
4-1-1/M82	N/A	N/A
4-1/M82	1.58342	0.853
4-3-2/M82	1.12891	1
4-3/M82	0.85828	1
5-3/M82	0.92773	0.642
6-2/M82	0.81782
6-3/M82	1.01011	1
7-1/M82	1.16247
7-2/M82	1.02292	1
9-3-2/M82	1.14469	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.13729	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.03635
IL12-4/WTpooled	0.72749	0.543
IL1-4/WTpooled	1.03027	1
WT/WTpooled	1.02819	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	0.96775	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98654	1
DC3000/delta hrp 6h	0.87791	0.95
DC3000/delta hrp 12h	1.06644	1
DC3000/delta hrp 24h	1.0371	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14028	0.042
DC3000 delta B/DC3000 delta AB	1.12038	0.274

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.88209	1
Exp 36h	0.84016	0.449
Exp 60h	1.16114	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00531	1
Var 0h	1.1186	0.936
Var 12h I row2-row1	1.04338	0.58
Var 12h NI row2-row1	0.93059	0.713
Var 36h I row2-row1	0.73605	1
Var 36h NI row2-row1	0.91087	0.45
Var 60h I row2-row1	1.27834	0.562
Var 60h NI row2-row1	1.26429	0.904
Time course 0hI-0hNI	1.06142	0.764
Time course 12hI-12hNI	1.00206	1
Time course 36hI-36hNI	1.00974	1
Time course 60hI-60hNI	1.14179	0.115

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)	0.97884	0.485
transgenic ySAMdc/azygous control (breaker)	1.1956	0.248
transgenic ySAMdc/azygous control (red)	1.08592	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9973	0.757

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.73793	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.19806	0.096
Manapal/WT (break)	1.14225	1
Manapal/WT (red)	1.19865	0.413