Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.2.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99096	0.83
27DAP/17DAP	0.86405	0.694
39DAP/27DAP	0.89935	0.663
41DAP/39DAP	0.96182	0.715
42DAP/41DAP	1.32532	0.825
43DAP/42DAP	0.8937	0.801
47DAP/43DAP	1.18373	0.904
52DAP/47DAP	0.97977	0.72
57DAP/52DAP	1.38186	0.958

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.69072	0.024
17DAP/reference	0.87961	0.158
27DAP/reference	0.9201	0.286
39DAP/reference	0.88531	0.078
41DAP/reference	0.8481	0.065
42DAP/reference	0.88604	0.022
43DAP/reference	0.96672	0.576
47DAP/reference	1.01544	0.764
52DAP/reference	1.06973	1
57DAP/reference	1.13235	0.07

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.28649	0.379
27DAP/17DAP	0.88144	0.684
39DAP/27DAP	1.02995	1
41DAP/39DAP	1.14462	0.807
42DAP/41DAP	0.94706	0.679
43DAP/42DAP	1.53132	0.134
47DAP/43DAP	1.03398	0.973
52DAP/47DAP	1.29361	0.492
57DAP/52DAP	1.03368	0.929
57DAP/7DAP	2.37039

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87808	0.296
17DAP/reference	1.17317	0.822
27DAP/reference	0.8262	0.117
39DAP/reference	0.88769	0.264
41DAP/reference	1.09978	0.723
42DAP/reference	1.06358	1
43DAP/reference	0.89238	0.192
47DAP/reference	0.9356	0.504
52DAP/reference	1.34007	0.139
57DAP/reference	1.31761	0.108

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78129	0.017
17DAP/reference	0.71516	0.006
27DAP/reference	0.91969	0.188
39DAP/reference	0.96358	0.214
41DAP/reference	0.8615	0.141
42DAP/reference	0.88028	0.108
43DAP/reference	0.84996	0.08
47DAP/reference	0.80156	0.012
52DAP/reference	1.04338	0.559
57DAP/reference	0.80148	0.054

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88993	0.214
17DAP/reference	0.75531	0.072
27DAP/reference	1.10552	0.164
39DAP/reference	0.97417	0.693
41DAP/reference	0.93404	0.56
42DAP/reference	0.85306	0.172
43DAP/reference	0.96172	0.503
47DAP/reference	1.02128	1
52DAP/reference	1.20639	0.549
57DAP/reference	1.17039	0.075

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.32057	0.966
26DAP/20DAP	1.37876	0.322
34DAP/26DAP	0.88737	0.848
51DAP/34DAP	0.86036	0.504
52DAP/51DAP	1.1363	0.888
53DAP/52DAP	0.92788	0.824
55DAP/53DAP	1.12843	0.826
57DAP/55DAP	0.93953	0.812
62DAP/57DAP	1.03761	1
68DAP/62DAP	1.55398	0.088
68DAP/14DAP	1.41252	0.328

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.49097	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.35037	0.082
Mature Green Tomato/Ripe Tomato	0.83677	0.226
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	4.44034	0.258
Mature Eggplant/Ripe Tomato	0.79875

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.08036
12-2/M82	N/A	N/A
12-4/M82	0.72199	0.282
1-3/M82	1.33109
2-1-1/M82	0.62294
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	1.11032
4-3/M82	1.06142	1
5-3/M82	1.02346	1
6-2/M82	N/A	N/A
6-3/M82	1.07109
7-1/M82	1.14893
7-2/M82	1.05837	0.291
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.10113	0.277
IL2-6/WTpooled	0.92673	1
IL7-5/WTpooled	0.66473	1
IL7-3/WTpooled	1.13773	1
IL12-4/WTpooled	0.98933	1
IL1-4/WTpooled	1.07397	1
WT/WTpooled	0.93296	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	1.11139	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93181	1
DC3000/delta hrp 6h	0.91305	0.95
DC3000/delta hrp 12h	1.08651	1
DC3000/delta hrp 24h	0.78484	0.036

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	1.00688	1
Exp 36h	0.8723	0.504
Exp 60h	0.92925	0.664

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	1.21944	0.98
Var 12h I row2-row1	0.88289	0.77
Var 12h NI row2-row1	0.57183	0.627
Var 36h I row2-row1	0.72907	0.742
Var 36h NI row2-row1	0.59049	0.645
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.83385	0.631
Time course 0hI-0hNI	1.02357	0.852
Time course 12hI-12hNI	0.96181	0.745
Time course 36hI-36hNI	1.07814	0.58
Time course 60hI-60hNI	0.73296	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)	1.11516	0.482
transgenic ySAMdc/azygous control (breaker)	1.1763	0.248
transgenic ySAMdc/azygous control (red)	1.21112	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03519	0.092

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00246	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.19152	0.093
Manapal/WT (break)	2.01668	0.14
Manapal/WT (red)	1.73166	0.134