Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.18.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.72088	0.205
27DAP/17DAP	0.70391	0.191
39DAP/27DAP	1.1009	0.749
41DAP/39DAP	1.11112	0.859
42DAP/41DAP	1.57947	0.086
43DAP/42DAP	1.09325	1
47DAP/43DAP	1.04485	0.953
52DAP/47DAP	0.86203	0.609
57DAP/52DAP	1.03344	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82603	0.035
17DAP/reference	0.82598	0.012
27DAP/reference	0.9611	0.428
39DAP/reference	0.82128	0.023
41DAP/reference	0.85032	0.065
42DAP/reference	0.87559	0.005
43DAP/reference	0.87189	0.017
47DAP/reference	0.90709	0.021
52DAP/reference	0.81577	0.027
57DAP/reference	0.84746	0.023

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05804	0.826
27DAP/17DAP	1.05556	0.942
39DAP/27DAP	1.37014	0.308
41DAP/39DAP	0.9238	0.849
42DAP/41DAP	0.77122	0.211
43DAP/42DAP	1.01125	1
47DAP/43DAP	1.16179	0.827
52DAP/47DAP	0.96014	0.9
57DAP/52DAP	1.31555	0.574
57DAP/7DAP	1.63859	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.52843	0.037
17DAP/reference	1.37069	0.023
27DAP/reference	1.39159	0.013
39DAP/reference	1.73932	0.014
41DAP/reference	1.82343	0.032
42DAP/reference	1.69147	0.006
43DAP/reference	1.88247	0.014
47DAP/reference	1.31447	0.191
52DAP/reference	1.5931	0.007
57DAP/reference	1.74528	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89906	0.17
17DAP/reference	0.77712	0.005
27DAP/reference	0.84927	0.104
39DAP/reference	0.86749	0.077
41DAP/reference	0.91271	0.226
42DAP/reference	0.92406	0.289
43DAP/reference	0.91384	0.25
47DAP/reference	0.93205	0.102
52DAP/reference	0.80524	0.04
57DAP/reference	0.83513	0.035

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0536	0.984
17DAP/reference	1.14199	0.572
27DAP/reference	1.63786	0.018
39DAP/reference	1.43039	0.018
41DAP/reference	1.31615	0.019
42DAP/reference	1.29877	0.138
43DAP/reference	1.01554	0.712
47DAP/reference	0.86067	0.114
52DAP/reference	1.88306	0.357
57DAP/reference	0.99741	0.652

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00043	1
26DAP/20DAP	1.08382	1
34DAP/26DAP	1.31336	1
51DAP/34DAP	1.08307	0.937
52DAP/51DAP	1.33128	0.925
53DAP/52DAP	1.05279	0.929
55DAP/53DAP	0.87975	0.111
57DAP/55DAP	1.08264	1
62DAP/57DAP	1.11658	0.723
68DAP/62DAP	1.20524	0.657
68DAP/14DAP	1.76318	0.236

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91117	0.493

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.64824	0.179
Mature Green Tomato/Ripe Tomato	0.36506
Immature Eggplant/Mature Eggplant	0.83075	0.493
Ripe Pepper/Ripe Tomato	2.30542
Mature Eggplant/Ripe Tomato	1.2469

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	0.788	0.358
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	1.0982
5-3/M82	0.8575	1
6-2/M82	N/A	N/A
6-3/M82	1.05225	1
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	0.83766	0.321
IL2-6/WTpooled	0.73151	0.473
IL7-5/WTpooled	1.20449	1
IL7-3/WTpooled	0.81397	0.31
IL12-4/WTpooled	0.86485	1
IL1-4/WTpooled	0.81645	0.444
WT/WTpooled	1.10761	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	1.18077	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10509	0.921
DC3000/delta hrp 6h	0.99932	0.95
DC3000/delta hrp 12h	0.97112	1
DC3000/delta hrp 24h	1.09373	0.69

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	1.21989	1
Exp 36h	2.14065	0.693
Exp 60h	1.12964	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.88837	1
Var 0h	0.96046	1
Var 12h I row2-row1	1.15096	0.379
Var 12h NI row2-row1	0.6408	0.367
Var 36h I row2-row1	0.95573	1
Var 36h NI row2-row1	1.04056
Var 60h I row2-row1	0.98709	1
Var 60h NI row2-row1	0.72802	0.69
Time course 0hI-0hNI	1.1887	0.764
Time course 12hI-12hNI	1.71271	0.567
Time course 36hI-36hNI	1.83295	0.006
Time course 60hI-60hNI	4.29344	0.015

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)	1.0751	0.541
transgenic ySAMdc/azygous control (breaker)	1.07725	1
transgenic ySAMdc/azygous control (red)	1.0791	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00032	0.967

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97997	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8886	1
Manapal/WT (break)	1.21533	1
Manapal/WT (red)	0.60187	0.242