Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.20.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07241	0.827
27DAP/17DAP	1.08553	0.871
39DAP/27DAP	0.7828	0.474
41DAP/39DAP	1.48404	0.153
42DAP/41DAP	1.13662	0.945
43DAP/42DAP	1.24622	0.712
47DAP/43DAP	1.30413	0.513
52DAP/47DAP	1.18641	0.641
57DAP/52DAP	1.09668	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00695	1
17DAP/reference	1.00386	1
27DAP/reference	0.98406	0.725
39DAP/reference	0.97043	0.691
41DAP/reference	1.16304	0.241
42DAP/reference	1.04366	0.869
43DAP/reference	0.93332	0.316
47DAP/reference	0.89049	0.007
52DAP/reference	0.8098	0.096
57DAP/reference	0.87525	0.156

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16737	0.593
27DAP/17DAP	1.15004	0.69
39DAP/27DAP	1.09421	0.691
41DAP/39DAP	1.08929	0.861
42DAP/41DAP	1.11043	0.727
43DAP/42DAP	1.08843	1
47DAP/43DAP	0.88832	0.332
52DAP/47DAP	0.98793	0.93
57DAP/52DAP	1.04598	0.929
57DAP/7DAP	0.75815	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16805	0.185
17DAP/reference	1.07416	0.688
27DAP/reference	1.01483	1
39DAP/reference	0.97026	0.411
41DAP/reference	0.97119	0.469
42DAP/reference	1.00815	0.828
43DAP/reference	0.94948	0.305
47DAP/reference	1.14786	0.377
52DAP/reference	1.15333	0.086
57DAP/reference	1.18572	0.125

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96212	0.655
17DAP/reference	0.9307	0.245
27DAP/reference	0.84194	0.09
39DAP/reference	0.95358	0.37
41DAP/reference	0.93513	0.205
42DAP/reference	0.85111	0.121
43DAP/reference	0.90454	0.206
47DAP/reference	0.80459	0.012
52DAP/reference	0.96016	0.38
57DAP/reference	0.97474	0.519

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05041	0.903
17DAP/reference	1.00474	0.886
27DAP/reference	1.01536	0.967
39DAP/reference	1.04336	0.858
41DAP/reference	1.12571	0.249
42DAP/reference	0.98075	0.671
43DAP/reference	0.95564	0.484
47DAP/reference	0.9414	0.259
52DAP/reference	1.00195	0.888
57DAP/reference	0.82306	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9564	1
26DAP/20DAP	1.0414	1
34DAP/26DAP	1.03397	1
51DAP/34DAP	0.69069	0.492
52DAP/51DAP	0.68464	1
53DAP/52DAP	0.72792	0.242
55DAP/53DAP	0.90705	0.515
57DAP/55DAP	0.81976	0.391
62DAP/57DAP	1.18975	0.8
68DAP/62DAP	1.95185	0.015
68DAP/14DAP	1.80372	0.059

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.10943	0.212

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.84446	0.2
Immature Eggplant/Mature Eggplant	1.9173	0.058
Ripe Pepper/Ripe Tomato	0.9101	1
Mature Eggplant/Ripe Tomato	0.69369	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92311	0.944
1-1-2/M82	0.84841	1
12-2/M82	0.93187	0.955
12-4/M82	0.95421	1
1-3/M82	0.77915	0.378
2-1-1/M82	0.96127
2-1/M82	N/A	N/A
2-6/M82	1.1601	0.452
3-2/M82	0.91474	0.752
4-1-1/M82	1.11597	1
4-1/M82	0.81242	1
4-3-2/M82	0.77065
4-3/M82	0.71232	0.611
5-3/M82	0.86208	0.642
6-2/M82	1.09932
6-3/M82	0.99502	1
7-1/M82	N/A	N/A
7-2/M82	1.04516	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.80934	1
IL2-6/WTpooled	0.92124	1
IL7-5/WTpooled	1.01366	1
IL7-3/WTpooled	0.71048	0.31
IL12-4/WTpooled	0.86568	1
IL1-4/WTpooled	0.70976	0.402
WT/WTpooled	1.0372	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	1.25522

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94153	1
DC3000/delta hrp 6h	1.07909	1
DC3000/delta hrp 12h	1.03854	1
DC3000/delta hrp 24h	1.00319	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96787	1
Exp 36h	1.18538	1
Exp 60h	1.3251	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96349	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.03339	0.692
Var 12h NI row2-row1	0.91585	0.713
Var 36h I row2-row1	1.06735	1
Var 36h NI row2-row1	1.68893	1
Var 60h I row2-row1	1.08376	1
Var 60h NI row2-row1	1.35915	0.904
Time course 0hI-0hNI	1.01115	1
Time course 12hI-12hNI	0.95836	0.889
Time course 36hI-36hNI	0.92157	0.28
Time course 60hI-60hNI	1.02589	1

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)	1.06386	0.3
transgenic ySAMdc/azygous control (breaker)	1.15678	0.248
transgenic ySAMdc/azygous control (red)	0.86316	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08369	0.041

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.89563	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96645	1
Manapal/WT (break)	0.98935	1
Manapal/WT (red)	0.87806	0.36