Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.3.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08902	0.681
27DAP/17DAP	1.22169	0.742
39DAP/27DAP	1.21639	0.729
41DAP/39DAP	0.91454	0.636
42DAP/41DAP	1.14666	0.755
43DAP/42DAP	1.27046	0.507
47DAP/43DAP	0.8978	0.66
52DAP/47DAP	1.25029	0.763
57DAP/52DAP	0.86119	0.803

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03902	0.638
17DAP/reference	1.02607	0.907
27DAP/reference	1.27032	0.036
39DAP/reference	1.07851	0.359
41DAP/reference	1.02727	0.963
42DAP/reference	0.93502	0.268
43DAP/reference	1.38109
47DAP/reference	0.92493	0.258
52DAP/reference	1.59426	0.009
57DAP/reference	0.61172	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03338	0.947
27DAP/17DAP	1.11085	0.842
39DAP/27DAP	1.5555	0.064
41DAP/39DAP	0.54637	0.022
42DAP/41DAP	1.11009	0.365
43DAP/42DAP	1.47447	0.02
47DAP/43DAP	0.81002	0.039
52DAP/47DAP	1.20155	0.424
57DAP/52DAP	1.04481	1
57DAP/7DAP	1.17907	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03119	1
17DAP/reference	0.86788	0.253
27DAP/reference	0.74953	0.109
39DAP/reference	0.96755	0.474
41DAP/reference	1.05158	0.637
42DAP/reference	0.99818	0.641
43DAP/reference	1.01034	0.608
47DAP/reference	0.90996	0.504
52DAP/reference	1.04869	1
57DAP/reference	0.92699	0.291

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07897	0.97
17DAP/reference	1.21417	0.083
27DAP/reference	1.27095	0.054
39DAP/reference	1.40921	0.034
41DAP/reference	1.275	0.057
42DAP/reference	1.27147	0.028
43DAP/reference	0.9968	0.657
47DAP/reference	0.91185	0.319
52DAP/reference	1.16455	0.194
57DAP/reference	0.96335	0.46

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.66899	0.031
17DAP/reference	1.18304	0.436
27DAP/reference	1.0576	0.871
39DAP/reference	1.26626	0.275
41DAP/reference	1.06501	0.889
42DAP/reference	1.29505	0.818
43DAP/reference	1.21269	0.439
47DAP/reference	1.31086	0.055
52DAP/reference	1.02249	1
57DAP/reference	1.68625	0.009

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.71646	0.966
26DAP/20DAP	1.32633	0.253
34DAP/26DAP	1.32323	0.542
51DAP/34DAP	1.506	0.035
52DAP/51DAP	0.90411	1
53DAP/52DAP	0.96924	0.862
55DAP/53DAP	0.59337	0.021
57DAP/55DAP	1.09039	0.944
62DAP/57DAP	1.38289	0.902
68DAP/62DAP	1.2812	0.767
68DAP/14DAP	1.33274	0.265

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.76306	0.072

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.07742	1
Mature Green Tomato/Ripe Tomato	1.30167	0.814
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.0892
Mature Eggplant/Ripe Tomato	0.09027	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00779	1
1-1-2/M82	0.96849	1
12-2/M82	0.97722	0.955
12-4/M82	1.04046	1
1-3/M82	0.93073	0.441
2-1-1/M82	1.02434	1
2-1/M82	1.44778	1
2-6/M82	0.95088	1
3-2/M82	1.57282	0.549
4-1-1/M82	1.11883	0.977
4-1/M82	0.98983	1
4-3-2/M82	0.87375	0.698
4-3/M82	0.95816	1
5-3/M82	0.97581	1
6-2/M82	0.96291	1
6-3/M82	1.00913	1
7-1/M82	0.93724	1
7-2/M82	0.925	0.881
9-3-2/M82	1.03139	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.76864	0.243
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.92663	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.94482	0.834
WT/WTpooled	N/A	N/A

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	0.88746	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98941	1
DC3000/delta hrp 6h	1.14515
DC3000/delta hrp 12h	1.21838	1
DC3000/delta hrp 24h	1.14674	0.411

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.88001	0.232
DC3000 delta B/DC3000 delta AB	0.81137	0.063

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.81498	0.749
Exp 60h	1.00413	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96043	1
Var 0h	0.47548	1
Var 12h I row2-row1	1.00525	1
Var 12h NI row2-row1	0.90147	0.488
Var 36h I row2-row1	0.84946	0.805
Var 36h NI row2-row1	1.40773	1
Var 60h I row2-row1	0.93661	0.439
Var 60h NI row2-row1	1.29409	0.904
Time course 0hI-0hNI	0.9475	0.617
Time course 12hI-12hNI	0.95588	0.637
Time course 36hI-36hNI	0.82754	0.029
Time course 60hI-60hNI	0.41529	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)	1.04052	0.339
transgenic ySAMdc/azygous control (breaker)	0.82156	0.49
transgenic ySAMdc/azygous control (red)	1.03348	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99552	0.832

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.95811	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87587	1
Manapal/WT (break)	1.19779	0.381
Manapal/WT (red)	1.09122	1