Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.10.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.42119	0.365
27DAP/17DAP	1.1863	0.793
39DAP/27DAP	1.3988	0.546
41DAP/39DAP	0.64434	0.092
42DAP/41DAP	1.60918	0.325
43DAP/42DAP	1.11003	0.999
47DAP/43DAP	0.68203	0.197
52DAP/47DAP	0.91334	0.681
57DAP/52DAP	1.0198	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97632	0.562
17DAP/reference	1.21584	0.014
27DAP/reference	1.09077	0.246
39DAP/reference	1.07084	0.453
41DAP/reference	1.30538	0.014
42DAP/reference	0.96407	0.268
43DAP/reference	0.98168	0.708
47DAP/reference	0.92224	0.148
52DAP/reference	0.75589	0.029
57DAP/reference	0.72542	0.012

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.38483	0.051
27DAP/17DAP	0.97506	0.887
39DAP/27DAP	1.11399	0.492
41DAP/39DAP	1.0373	0.909
42DAP/41DAP	1.15743	0.753
43DAP/42DAP	0.96019	0.665
47DAP/43DAP	1.06273	0.934
52DAP/47DAP	1.17649	0.432
57DAP/52DAP	1.01392	0.892
57DAP/7DAP	1.21696	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10763	0.481
17DAP/reference	0.97063	0.447
27DAP/reference	1.10704	0.088
39DAP/reference	0.78808	0.043
41DAP/reference	0.75276	0.052
42DAP/reference	0.76374	0.021
43DAP/reference	1.17765	0.325
47DAP/reference	1.07721	0.549
52DAP/reference	1.08502	0.459
57DAP/reference	1.21728	0.147

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15694	0.238
17DAP/reference	1.05864	0.338
27DAP/reference	0.98867	0.598
39DAP/reference	0.9233	0.195
41DAP/reference	0.93622	0.291
42DAP/reference	0.90042	0.212
43DAP/reference	1.19722	0.185
47DAP/reference	0.9764	0.368
52DAP/reference	1.03918	0.528
57DAP/reference	1.38991	0.012

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00291	1
17DAP/reference	1.14394	0.133
27DAP/reference	0.92097	0.566
39DAP/reference	1.03854	0.962
41DAP/reference	1.08298	0.471
42DAP/reference	0.98113	0.671
43DAP/reference	0.74666	0.032
47DAP/reference	0.91986	0.286
52DAP/reference	1.04585	0.851
57DAP/reference	2.02533	0.954

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.26043	0.966
26DAP/20DAP	0.89163	0.512
34DAP/26DAP	1.33654	0.819
51DAP/34DAP	1.00017	0.967
52DAP/51DAP	1.17386	0.154
53DAP/52DAP	1.0939	0.537
55DAP/53DAP	0.98461	0.852
57DAP/55DAP	1.14587	0.955
62DAP/57DAP	0.88718	0.088
68DAP/62DAP	0.6221	0.059
68DAP/14DAP	0.63343	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.30213	0.527

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.0947	0.058
Mature Green Tomato/Ripe Tomato	1.04482	0.835
Immature Eggplant/Mature Eggplant	0.66697	0.111
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	5.54497	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.85293
1-1-2/M82	0.80104
12-2/M82	N/A	N/A
12-4/M82	1.03965
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	0.88856
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.07842
5-3/M82	0.99306	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.06405
7-2/M82	0.9878	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.98514	1
IL2-6/WTpooled	1.44839	0.419
IL7-5/WTpooled	1.3883	0.792
IL7-3/WTpooled	0.86719	0.418
IL12-4/WTpooled	0.87569	0.71
IL1-4/WTpooled	1.14296	1
WT/WTpooled	0.96629	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	0.99945	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95553	1
DC3000/delta hrp 6h	0.97738	0.95
DC3000/delta hrp 12h	1.17187	1
DC3000/delta hrp 24h	1.12576	0.821

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11968	0.515
DC3000 delta B/DC3000 delta AB	1.36003	0.164

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.10733	1
Exp 36h	0.93985	0.879
Exp 60h	0.9661	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03422	1
Var 0h	0.91101	1
Var 12h I row2-row1	0.99463	1
Var 12h NI row2-row1	0.89596	0.713
Var 36h I row2-row1	1.09102	0.283
Var 36h NI row2-row1	0.81577	0.584
Var 60h I row2-row1	0.93806	0.582
Var 60h NI row2-row1	1.02863	1
Time course 0hI-0hNI	1.02868	0.852
Time course 12hI-12hNI	1.06594	0.773
Time course 36hI-36hNI	1.49597	0.28
Time course 60hI-60hNI	1.23173	0.037

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)	0.80238	0.314
transgenic ySAMdc/azygous control (breaker)	0.46074	0.131
transgenic ySAMdc/azygous control (red)	1.55245	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06773	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.40024	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80582	1
Manapal/WT (break)	0.90895	1
Manapal/WT (red)	1.61927	0.137