Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.14.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84413	0.339
27DAP/17DAP	1.47872	0.588
39DAP/27DAP	1.38185	0.524
41DAP/39DAP	1.18533	0.447
42DAP/41DAP	0.85079	0.774
43DAP/42DAP	0.90324	0.829
47DAP/43DAP	1.10423	0.965
52DAP/47DAP	1.08192	0.827
57DAP/52DAP	0.86412	0.711

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.59844	0.01
17DAP/reference	1.42774	0.014
27DAP/reference	1.40224	0.01
39DAP/reference	1.31429	0.051
41DAP/reference	1.50531	0.014
42DAP/reference	1.46631	0.001
43DAP/reference	1.32571	0.044
47DAP/reference	1.55747	0.003
52DAP/reference	1.58403	0.014
57DAP/reference	1.45026	0.07

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02276	1
27DAP/17DAP	0.97685	0.878
39DAP/27DAP	1.05444	0.698
41DAP/39DAP	1.06326	0.853
42DAP/41DAP	0.97046	0.734
43DAP/42DAP	0.81143	0.029
47DAP/43DAP	1.0556	0.798
52DAP/47DAP	1.08407	0.724
57DAP/52DAP	1.14574	0.308
57DAP/7DAP	0.99322	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05737	0.813
17DAP/reference	0.75663	0.012
27DAP/reference	0.74558	0.01
39DAP/reference	0.83487	0.034
41DAP/reference	0.83047	0.107
42DAP/reference	0.75769	0.023
43DAP/reference	0.89636	0.151
47DAP/reference	1.0677	0.632
52DAP/reference	0.78441	0.017
57DAP/reference	0.83159	0.042

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25866	0.037
17DAP/reference	1.66055	0.025
27DAP/reference	1.51433	0.016
39DAP/reference	1.44338	0.013
41DAP/reference	1.44642	0.008
42DAP/reference	1.39449	0.012
43DAP/reference	1.33375	0.15
47DAP/reference	1.30699	0.022
52DAP/reference	1.37485	0.007
57DAP/reference	1.48429	0.009

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06435	1
17DAP/reference	1.15506	0.638
27DAP/reference	0.8004	0.063
39DAP/reference	0.82977	0.111
41DAP/reference	0.91753	0.209
42DAP/reference	0.88345	0.361
43DAP/reference	0.99525	0.66
47DAP/reference	1.43098	0.005
52DAP/reference	1.05481	0.714
57DAP/reference	1.0878	0.909

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98269	1
26DAP/20DAP	1.37922	0.147
34DAP/26DAP	1.12525	0.819
51DAP/34DAP	1.04038	0.854
52DAP/51DAP	0.85991	1
53DAP/52DAP	0.90753	0.426
55DAP/53DAP	0.85766	0.188
57DAP/55DAP	1.07335	0.881
62DAP/57DAP	0.9604	0.994
68DAP/62DAP	0.80332	0.505
68DAP/14DAP	0.82019	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.69146	0.061

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.66847	0.089
Mature Green Tomato/Ripe Tomato	0.509	0.04
Immature Eggplant/Mature Eggplant	0.80281	0.105
Ripe Pepper/Ripe Tomato	0.33441	0.224
Mature Eggplant/Ripe Tomato	0.73794	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.74617
1-1-2/M82	0.81817	1
12-2/M82	1.41443
12-4/M82	1.03996	1
1-3/M82	1.47662	0.479
2-1-1/M82	1.32839
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.07072	0.967
4-1-1/M82	N/A	N/A
4-1/M82	0.9687	1
4-3-2/M82	1.35677	0.284
4-3/M82	0.77302
5-3/M82	0.90336	1
6-2/M82	N/A	N/A
6-3/M82	1.31963
7-1/M82	1.00866	1
7-2/M82	1.06534	1
9-3-2/M82	0.9394	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.22567
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.87412	0.538
IL1-4/WTpooled	1.05062	1
WT/WTpooled	1.13434	0.686

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	1.21227	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04764	0.921
DC3000/delta hrp 6h	0.84526	0.95
DC3000/delta hrp 12h	1.169	1
DC3000/delta hrp 24h	3.1438	0.026

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.47258	0.145
DC3000 delta B/DC3000 delta AB	1.17999	0.24

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00329	1
Exp 36h	0.87976	0.699
Exp 60h	1.03237	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02182	1
Var 0h	1.05027	0.936
Var 12h I row2-row1	1.01566	1
Var 12h NI row2-row1	1.0019	1
Var 36h I row2-row1	1.20653	0.908
Var 36h NI row2-row1	0.81684	0.402
Var 60h I row2-row1	0.91929	0.582
Var 60h NI row2-row1	0.87394	0.458
Time course 0hI-0hNI	1.05885	0.852
Time course 12hI-12hNI	1.11789	0.36
Time course 36hI-36hNI	1.53802	0.005
Time course 60hI-60hNI	2.74002	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)	1.29237	0.321
transgenic ySAMdc/azygous control (breaker)	1.02182	1
transgenic ySAMdc/azygous control (red)	1.07928	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.88072	0.052

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.95598	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84627	1
Manapal/WT (break)	0.78575	1
Manapal/WT (red)	0.76167	0.181