Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.6.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.70663	0.077
27DAP/17DAP	1.08927	0.859
39DAP/27DAP	1.26293	0.759
41DAP/39DAP	1.41446	0.915
42DAP/41DAP	1.71833	0.797
43DAP/42DAP	0.7473	0.713
47DAP/43DAP	0.8862	0.618
52DAP/47DAP	0.65775	0.236
57DAP/52DAP	0.73833	0.344

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81233	0.032
17DAP/reference	0.92598	0.169
27DAP/reference	1.03234	0.831
39DAP/reference	0.97838	0.691
41DAP/reference	1.01182	0.808
42DAP/reference	1.15699	0.011
43DAP/reference	1.20894	0.012
47DAP/reference	1.29367	0.005
52DAP/reference	1.10414	0.43
57DAP/reference	1.02278	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92447	0.35
27DAP/17DAP	1.02028	0.943
39DAP/27DAP	0.97065	0.775
41DAP/39DAP	1.25454	0.735
42DAP/41DAP	0.94286	0.717
43DAP/42DAP	0.90847	0.597
47DAP/43DAP	1.09633	1
52DAP/47DAP	4.13756	0.089
57DAP/52DAP	1.25581	0.36
57DAP/7DAP	2.37316

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87626	0.146
17DAP/reference	0.91902	0.295
27DAP/reference	1.0057	0.8
39DAP/reference	1.07079	0.74
41DAP/reference	1.10721	0.678
42DAP/reference	1.1749	0.534
43DAP/reference	0.93316	0.321
47DAP/reference	0.96666	0.671
52DAP/reference	1.363	0.008
57DAP/reference	1.11887	0.356

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95125	0.58
17DAP/reference	0.89877	0.23
27DAP/reference	0.89015	0.093
39DAP/reference	0.82034	0.011
41DAP/reference	0.92493	0.096
42DAP/reference	0.94583	0.261
43DAP/reference	0.93524	0.352
47DAP/reference	0.82665	0.013
52DAP/reference	0.89637	0.04
57DAP/reference	0.89153	0.125

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12352	0.433
17DAP/reference	0.97741	0.696
27DAP/reference	1.01113
39DAP/reference	0.80548	0.328
41DAP/reference	1.68996	0.058
42DAP/reference	1.37226	0.034
43DAP/reference	1.47008	0.018
47DAP/reference	1.6097	0.009
52DAP/reference	1.40021	0.17
57DAP/reference	1.1596	0.116

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04294	1
26DAP/20DAP	1.07877	0.953
34DAP/26DAP	1.21413	0.114
51DAP/34DAP	1.69902	0.473
52DAP/51DAP	1.66129	0.163
53DAP/52DAP	0.79452	0.301
55DAP/53DAP	1.01761
57DAP/55DAP	1.51996	0.091
62DAP/57DAP	1.27598	0.303
68DAP/62DAP	1.08275	0.821
68DAP/14DAP	2.43165	0.024

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.80406	0.097

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.37413	0.073
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.75479	0.05
Ripe Pepper/Ripe Tomato	2.28817	0.258
Mature Eggplant/Ripe Tomato	0.44859

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	0.92977	0.321
IL2-6/WTpooled	0.9461	1
IL7-5/WTpooled	0.93165	1
IL7-3/WTpooled	0.71196	0.31
IL12-4/WTpooled	0.95159	1
IL1-4/WTpooled	0.93516	0.444
WT/WTpooled	1.03123	0.957

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.90676	1
DC3000/delta hrp 6h	1.0504	1
DC3000/delta hrp 12h	1.00023	1
DC3000/delta hrp 24h	1.10202

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	1.0113	1
Exp 36h	1.04627	1
Exp 60h	1.37342	0.22

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03345	1
Var 0h	1.00158	1
Var 12h I row2-row1	0.89974	0.363
Var 12h NI row2-row1	1.07305	1
Var 36h I row2-row1	0.87516	0.313
Var 36h NI row2-row1	0.66785	0.584
Var 60h I row2-row1	1.3499	0.562
Var 60h NI row2-row1	1.17435	1
Time course 0hI-0hNI	0.73487	0.11
Time course 12hI-12hNI	0.87222	0.188
Time course 36hI-36hNI	0.70577	0.044
Time course 60hI-60hNI	0.46493	0.007

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)	0.8979	0.291
transgenic ySAMdc/azygous control (breaker)	1.02592	1
transgenic ySAMdc/azygous control (red)	1.28056	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05106	0.041

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82069	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.25976	0.14
Manapal/WT (break)	0.80204	0.299
Manapal/WT (red)	0.92381	0.863