Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.17.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27269	0.463
27DAP/17DAP	1.22827	0.793
39DAP/27DAP	1.0331	0.7
41DAP/39DAP	1.29829	0.285
42DAP/41DAP	0.96104	1
43DAP/42DAP	0.95987	0.909
47DAP/43DAP	1.15683	0.42
52DAP/47DAP	1.03754	0.946
57DAP/52DAP	0.99424	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94833	0.465
17DAP/reference	1.32539	0.089
27DAP/reference	1.31669	0.077
39DAP/reference	1.06148	0.581
41DAP/reference	1.46859	0.058
42DAP/reference	1.1771	0.037
43DAP/reference	0.994	0.805
47DAP/reference	1.2447	0.003
52DAP/reference	1.49747	0.015
57DAP/reference	1.19757	0.153

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16628	0.23
27DAP/17DAP	0.98606	0.919
39DAP/27DAP	1.31726	0.28
41DAP/39DAP	0.80699	0.018
42DAP/41DAP	1.04208	0.872
43DAP/42DAP	1.0722	0.513
47DAP/43DAP	0.98863	0.939
52DAP/47DAP	1.21869	0.422
57DAP/52DAP	1.01819	1
57DAP/7DAP	1.10312	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04319	0.999
17DAP/reference	0.75992	0.035
27DAP/reference	0.88743	0.135
39DAP/reference	0.65232	0.012
41DAP/reference	0.94597	0.271
42DAP/reference	0.75749	0.02
43DAP/reference	0.94129	0.351
47DAP/reference	0.90251	0.383
52DAP/reference	0.91156	0.278
57DAP/reference	1.09084	0.654

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10597	0.787
17DAP/reference	1.15297	0.367
27DAP/reference	1.08305	0.961
39DAP/reference	1.07675	0.67
41DAP/reference	1.17176	0.199
42DAP/reference	0.99871	0.723
43DAP/reference	1.06501	0.814
47DAP/reference	1.13936	0.247
52DAP/reference	1.08657	0.596
57DAP/reference	1.61585	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94337	0.455
17DAP/reference	0.83402	0.167
27DAP/reference	1.04889	0.721
39DAP/reference	0.9899	0.693
41DAP/reference	1.07022	0.939
42DAP/reference	1.04086	0.893
43DAP/reference	1.10877	0.531
47DAP/reference	1.37168	0.372
52DAP/reference	0.75382	0.153
57DAP/reference	1.14255	0.362

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06106	1
26DAP/20DAP	0.92736	1
34DAP/26DAP	1.11476	0.819
51DAP/34DAP	1.15653	0.326
52DAP/51DAP	0.87947	1
53DAP/52DAP	1.14834	0.428
55DAP/53DAP	1.09832	0.504
57DAP/55DAP	1.03378	0.955
62DAP/57DAP	0.9784	0.994
68DAP/62DAP	0.76265	0.29
68DAP/14DAP	0.66127	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92156	0.358

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.81176	0.2
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.23595
Mature Eggplant/Ripe Tomato	1.73014	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.84155	0.877
1-1-2/M82	0.93631	1
12-2/M82	1.19113	1
12-4/M82	1.14458	1
1-3/M82	2.76109	0.248
2-1-1/M82	0.97323	0.683
2-1/M82	1.04554	1
2-6/M82	0.74211	1
3-2/M82	0.93829	1
4-1-1/M82	1.25482	0.968
4-1/M82	0.74118	0.737
4-3-2/M82	0.92588	0.487
4-3/M82	2.05532	1
5-3/M82	1.13218	1
6-2/M82	1.14209	1
6-3/M82	0.79573	0.433
7-1/M82	0.83061
7-2/M82	1.54654	1
9-3-2/M82	0.79236	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.84977	0.243
IL2-6/WTpooled	1.17273	0.46
IL7-5/WTpooled	0.86264	0.483
IL7-3/WTpooled	0.74499	0.31
IL12-4/WTpooled	1.06633	0.839
IL1-4/WTpooled	0.9915	0.834
WT/WTpooled	0.99878	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	0.89314	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08591	0.914
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.92031	1
DC3000/delta hrp 24h	0.85888	0.19

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.76194	0.171
DC3000 delta B/DC3000 delta AB	0.88387	0.217

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	1.00976	1
Var 0h	1.06222	1
Var 12h I row2-row1	0.79081	0.338
Var 12h NI row2-row1	0.92101	0.713
Var 36h I row2-row1	0.90041	1
Var 36h NI row2-row1	1.24846	0.482
Var 60h I row2-row1	0.77372	0.832
Var 60h NI row2-row1	1.08653	0.904
Time course 0hI-0hNI	1.04079	0.852
Time course 12hI-12hNI	0.95337	0.698
Time course 36hI-36hNI	0.74741	0.023
Time course 60hI-60hNI	0.30613	0.006

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)	0.95644	0.567
transgenic ySAMdc/azygous control (breaker)	0.83523	0.251
transgenic ySAMdc/azygous control (red)	0.90798	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	1.23805	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89407	1
Manapal/WT (break)	1.11537	1
Manapal/WT (red)	1.15693	1