Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.1.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93106	0.617
27DAP/17DAP	0.69223	0.157
39DAP/27DAP	0.81855	0.447
41DAP/39DAP	1.16122	0.676
42DAP/41DAP	1.09644	0.978
43DAP/42DAP	1.25093	0.613
47DAP/43DAP	0.9766	0.876
52DAP/47DAP	1.00832	0.916
57DAP/52DAP	0.94145	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17174	0.02
17DAP/reference	1.08314	0.096
27DAP/reference	0.98042	0.642
39DAP/reference	1.32356	0.051
41DAP/reference	1.23642	0.241
42DAP/reference	1.15002	0.119
43DAP/reference	1.13243	0.044
47DAP/reference	1.06549	0.167
52DAP/reference	0.96006	0.461
57DAP/reference	0.95839	0.34

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23109	0.161
27DAP/17DAP	0.78735	0.179
39DAP/27DAP	0.71411	0.051
41DAP/39DAP	1.06045	0.88
42DAP/41DAP	0.90623	0.436
43DAP/42DAP	0.90365	0.256
47DAP/43DAP	0.96597	0.877
52DAP/47DAP	1.76123	0.216
57DAP/52DAP	0.90549	0.448
57DAP/7DAP	0.74393	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08962	0.246
17DAP/reference	1.0545	0.627
27DAP/reference	1.1016	0.664
39DAP/reference	0.85613	0.23
41DAP/reference	0.96511	0.469
42DAP/reference	0.78335	0.018
43DAP/reference	0.89077	0.115
47DAP/reference	1.00223	1
52DAP/reference	0.88208	0.09
57DAP/reference	0.78859	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02958	0.531
17DAP/reference	1.0509	0.773
27DAP/reference	1.15754	0.297
39DAP/reference	1.25088	0.026
41DAP/reference	1.17216	0.416
42DAP/reference	1.0338	0.934
43DAP/reference	1.30465	0.014
47DAP/reference	0.97133	0.423
52DAP/reference	1.13495	0.194
57DAP/reference	1.23424	0.08

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.37198	0.024
17DAP/reference	1.50105	0.052
27DAP/reference	0.99552	0.763
39DAP/reference	1.15464	0.052
41DAP/reference	1.11203	0.239
42DAP/reference	1.18744	0.433
43DAP/reference	1.24742	0.098
47DAP/reference	1.30439	0.015
52DAP/reference	0.9647	0.623
57DAP/reference	1.15833	0.132

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.33925	0.966
26DAP/20DAP	1.0721
34DAP/26DAP	1.52972	0.542
51DAP/34DAP	1.0421	0.925
52DAP/51DAP	1.32221	0.232
53DAP/52DAP	1.14726	0.47
55DAP/53DAP	0.95652	0.852
57DAP/55DAP	0.69994	0.268
62DAP/57DAP	0.84921	0.088
68DAP/62DAP	1.47586	0.178
68DAP/14DAP	1.32318	0.042

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.84774	0.558

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.50869	0.025
Immature Eggplant/Mature Eggplant	0.62468	0.079
Ripe Pepper/Ripe Tomato	0.83591
Mature Eggplant/Ripe Tomato	0.58457	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.13574
1-1-2/M82	1.07577	1
12-2/M82	1.14428	1
12-4/M82	0.90661
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	0.93413	1
3-2/M82	1.01944
4-1-1/M82	1.01709
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.87444	1
6-2/M82	0.70536
6-3/M82	N/A	N/A
7-1/M82	0.83308	0.476
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	0.79703	0.247
IL2-6/WTpooled	1.50965	0.456
IL7-5/WTpooled	0.90769	1
IL7-3/WTpooled	0.55114	0.418
IL12-4/WTpooled	0.8157	1
IL1-4/WTpooled	1.56689
WT/WTpooled	1.01279	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	0.77328	0.216

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.90223	0.941
DC3000/delta hrp 6h	1.01859	0.95
DC3000/delta hrp 12h	1.08978	1
DC3000/delta hrp 24h	0.41869	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.48198	0.029
DC3000 delta B/DC3000 delta AB	0.40314

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.08413	1
Exp 36h	0.79668	0.661
Exp 60h	0.62071	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99943	1
Var 0h	1.08065	0.98
Var 12h I row2-row1	0.61584	0.338
Var 12h NI row2-row1	1.0627	1
Var 36h I row2-row1	1.0197	1
Var 36h NI row2-row1	1.20672	1
Var 60h I row2-row1	1.38232	0.487
Var 60h NI row2-row1	0.8949	0.866
Time course 0hI-0hNI	0.9585	0.729
Time course 12hI-12hNI	0.95363	0.701
Time course 36hI-36hNI	0.78844	0.023
Time course 60hI-60hNI	0.10149	0.005

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)	1.12075	0.331
transgenic ySAMdc/azygous control (breaker)	1.19317	0.248
transgenic ySAMdc/azygous control (red)	1.53558	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95429	0.168

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.22052	0.227

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	5.91821	0.086
Manapal/WT (break)	6.1113	0.126
Manapal/WT (red)	3.89857	0.133