Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.18.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77659	0.078
27DAP/17DAP	1.45378	0.761
39DAP/27DAP	1.25899	0.511
41DAP/39DAP	1.0655	0.925
42DAP/41DAP	0.86256	0.774
43DAP/42DAP	0.92525	0.815
47DAP/43DAP	0.75095	0.236
52DAP/47DAP	1.23775	0.53
57DAP/52DAP	0.90716	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96635	0.465
17DAP/reference	0.99039	0.819
27DAP/reference	1.1107	0.539
39DAP/reference	1.00403	1
41DAP/reference	1.01941	0.667
42DAP/reference	0.99593	0.547
43DAP/reference	0.94769	0.316
47DAP/reference	0.99479	0.636
52DAP/reference	1.17521	0.092
57DAP/reference	1.02758	0.704

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.72449	0.038
27DAP/17DAP	1.03794	0.9
39DAP/27DAP	0.94747	0.616
41DAP/39DAP	1.05598	0.896
42DAP/41DAP	1.02468	0.927
43DAP/42DAP	0.97898	0.801
47DAP/43DAP	0.96898	0.823
52DAP/47DAP	0.70738	0.075
57DAP/52DAP	0.87346	0.424
57DAP/7DAP	0.8759	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87187	0.146
17DAP/reference	0.87461	0.011
27DAP/reference	0.67779	0.01
39DAP/reference	1.03402	0.779
41DAP/reference	0.90065	0.07
42DAP/reference	0.90264	0.106
43DAP/reference	0.95556	0.279
47DAP/reference	0.89789	0.293
52DAP/reference	0.89254	0.163
57DAP/reference	0.86141	0.018

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94665	0.548
17DAP/reference	0.98859	0.642
27DAP/reference	1.14543	0.072
39DAP/reference	0.94811	0.152
41DAP/reference	1.03017	1
42DAP/reference	1.09268	0.5
43DAP/reference	1.00413	0.681
47DAP/reference	1.00405	1
52DAP/reference	1.01936	1
57DAP/reference	0.85076	0.021

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79328	0.059
17DAP/reference	0.9844	0.696
27DAP/reference	0.78754	0.038
39DAP/reference	0.87157	0.05
41DAP/reference	0.83051	0.064
42DAP/reference	0.87546	0.22
43DAP/reference	0.94543	0.432
47DAP/reference	0.92535	0.231
52DAP/reference	0.72631	0.071
57DAP/reference	1.10443	0.66

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06483	1
26DAP/20DAP	1.18223	0.399
34DAP/26DAP	0.77069	0.387
51DAP/34DAP	0.81793	0.498
52DAP/51DAP	1.03326	0.792
53DAP/52DAP	1.02004	1
55DAP/53DAP	1.04103	0.911
57DAP/55DAP	0.79449	0.133
62DAP/57DAP	1.05312	1
68DAP/62DAP	1.17441	0.729
68DAP/14DAP	1.32155	0.063

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.2205	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.43636	0.064
Immature Eggplant/Mature Eggplant	1.41317	0.222
Ripe Pepper/Ripe Tomato	0.27133	0.293
Mature Eggplant/Ripe Tomato	0.73622

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.99547	1
12-2/M82	0.93668
12-4/M82	0.99641	1
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	1.1227
4-1/M82	0.84827
4-3-2/M82	1.28005
4-3/M82	1.51246
5-3/M82	0.97226	0.642
6-2/M82	1.16283
6-3/M82	0.94855
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	2.00277

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.02302
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.68618
IL12-4/WTpooled	1.13604	0.785
IL1-4/WTpooled	0.8387	0.444
WT/WTpooled	1.1669	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	0.91118	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.68571	1
DC3000/delta hrp 6h	1.15206
DC3000/delta hrp 12h	1.22912	1
DC3000/delta hrp 24h	1.12947	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.25125	0.045
DC3000 delta B/DC3000 delta AB	1.33023	0.112

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.72271	1
Exp 36h	1.06023	1
Exp 60h	1.11945	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.93079	1
Var 0h	0.99129	1
Var 12h I row2-row1	0.81201	0.338
Var 12h NI row2-row1	1.03701	1
Var 36h I row2-row1	1.23157	0.601
Var 36h NI row2-row1	1.01898	1
Var 60h I row2-row1	0.71981	0.374
Var 60h NI row2-row1	0.82616	0.69
Time course 0hI-0hNI	1.14037	0.63
Time course 12hI-12hNI	1.00826	0.9
Time course 36hI-36hNI	1.21092	0.128
Time course 60hI-60hNI	2.04188	0.008

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)	1.05879	0.431
transgenic ySAMdc/azygous control (breaker)	0.89701	0.251
transgenic ySAMdc/azygous control (red)	0.92289	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02994	0.119

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05156	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.08575	1
Manapal/WT (break)	0.89589	1
Manapal/WT (red)	0.70259	0.199