Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.3.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07573	0.893
27DAP/17DAP	0.83843	0.641
39DAP/27DAP	0.93684	0.719
41DAP/39DAP	1.00124	0.873
42DAP/41DAP	1.14058	0.999
43DAP/42DAP	1.09135	1
47DAP/43DAP	0.88005	0.492
52DAP/47DAP	1.37362	0.485
57DAP/52DAP	2.08272	0.972

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19045	0.121
17DAP/reference	0.76388	0.016
27DAP/reference	0.87307	0.17
39DAP/reference	1.36104	0.664
41DAP/reference	0.81013	0.065
42DAP/reference	1.5557	0.002
43DAP/reference	0.8142
47DAP/reference	0.87875	0.137
52DAP/reference	0.9227	0.292
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0157	1
27DAP/17DAP	0.79991	0.259
39DAP/27DAP	0.76028	0.144
41DAP/39DAP	1.22891	0.887
42DAP/41DAP	0.7774	0.248
43DAP/42DAP	1.34038	0.478
47DAP/43DAP	1.14472	0.837
52DAP/47DAP	1.45102	0.192
57DAP/52DAP	1.18582	0.638
57DAP/7DAP	2.16981

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05624	0.65
17DAP/reference	1.2043	0.018
27DAP/reference	1.25073	0.018
39DAP/reference	1.41409	0.023
41DAP/reference	1.51553	0.01
42DAP/reference	1.36328	0.021
43DAP/reference	1.23855	0.066
47DAP/reference	1.19042	0.031
52DAP/reference	1.32321	0.02
57DAP/reference	1.39693	0.037

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14754	0.507
17DAP/reference	1.34092	0.008
27DAP/reference	1.5016	0.044
39DAP/reference	1.61846	0.014
41DAP/reference	1.87947	0.006
42DAP/reference	1.60009	0.008
43DAP/reference	0.97389	0.507
47DAP/reference	1.0606	0.332
52DAP/reference	1.11241	0.135
57DAP/reference	1.05348	0.957

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11692	0.545
17DAP/reference	1.0263	0.778
27DAP/reference	1.05902	0.644
39DAP/reference	1.10915	0.318
41DAP/reference	1.08315	0.486
42DAP/reference	1.44959	0.043
43DAP/reference	1.50555	0.028
47DAP/reference	0.84466	0.207
52DAP/reference	1.6721	0.04
57DAP/reference	1.77234	0.009

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.17697	0.966
26DAP/20DAP	1.58894
34DAP/26DAP	1.25517	1
51DAP/34DAP	1.46505	0.706
52DAP/51DAP	1.35398
53DAP/52DAP	0.99116	0.983
55DAP/53DAP	1.506	0.05
57DAP/55DAP	0.98947	0.925
62DAP/57DAP	0.50079
68DAP/62DAP	1.23752	0.148
68DAP/14DAP	1.33016	0.521

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.55548	0.74

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.71397
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.91234	0.448
Ripe Pepper/Ripe Tomato	0.04306	1
Mature Eggplant/Ripe Tomato	0.20653

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	1.01877	1
IL2-6/WTpooled	1.14734	0.419
IL7-5/WTpooled	0.99864	1
IL7-3/WTpooled	0.84317	0.418
IL12-4/WTpooled	0.91808	0.71
IL1-4/WTpooled	1.01057	1
WT/WTpooled	1.03934	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	0.63265	0.226

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.90121	1
DC3000/delta hrp 6h	0.96673	0.95
DC3000/delta hrp 12h	0.95989	1
DC3000/delta hrp 24h	1.04334	1

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	0.47029	0.022

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.83566	1
Exp 36h	0.76429	0.504
Exp 60h	0.77572	0.29

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0031	1
Var 0h	1.67733	0.782
Var 12h I row2-row1	1.03564	0.736
Var 12h NI row2-row1	1.07854	1
Var 36h I row2-row1	0.8399	0.805
Var 36h NI row2-row1	1.46717	0.253
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.30144	0.904
Time course 0hI-0hNI	0.84569	0.166
Time course 12hI-12hNI	0.98244	0.893
Time course 36hI-36hNI	0.88188	0.028
Time course 60hI-60hNI	0.18737	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)	1.52544	0.312
transgenic ySAMdc/azygous control (breaker)	0.77298	0.173
transgenic ySAMdc/azygous control (red)	1.1901	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01819	0.525

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.15004	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.53038	0.172
Manapal/WT (break)	1.2687	0.381
Manapal/WT (red)	1.12759	1