Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.19.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.3093	0.315
27DAP/17DAP	1.09767	0.874
39DAP/27DAP	1.92028	0.702
41DAP/39DAP	0.72678	0.103
42DAP/41DAP	1.32564	0.868
43DAP/42DAP	1.00839	0.937
47DAP/43DAP	0.86175	0.562
52DAP/47DAP	1.09516	0.982
57DAP/52DAP	1.05169	0.995

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30444	0.062
17DAP/reference	1.1989	0.016
27DAP/reference	1.26182	0.034
39DAP/reference	1.34477	0.012
41DAP/reference	1.32464	0.016
42DAP/reference	1.36597	0.015
43DAP/reference	1.33625
47DAP/reference	1.15822	0.666
52DAP/reference	1.65041	0.007
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03839	0.785
27DAP/17DAP	1.06228	0.798
39DAP/27DAP	1.05582	0.611
41DAP/39DAP	0.95687	0.849
42DAP/41DAP	0.98828	0.84
43DAP/42DAP	0.97086	0.709
47DAP/43DAP	1.03332	0.906
52DAP/47DAP	0.99476	0.951
57DAP/52DAP	1.04453	0.732
57DAP/7DAP	1.10291	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05297	0.481
17DAP/reference	0.98982	0.447
27DAP/reference	1.06074	0.073
39DAP/reference	1.0359	0.252
41DAP/reference	1.04625	0.56
42DAP/reference	0.99419	0.641
43DAP/reference	0.93052	0.047
47DAP/reference	1.36671	0.067
52DAP/reference	0.94344	0.179
57DAP/reference	0.97158	0.411

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14335	0.12
17DAP/reference	1.30463	0.022
27DAP/reference	1.60415	0.014
39DAP/reference	1.51357	0.036
41DAP/reference	1.7745	0.012
42DAP/reference	1.56649	0.023
43DAP/reference	1.11037	0.497
47DAP/reference	1.2823	0.012
52DAP/reference	1.47785	0.006
57DAP/reference	1.3243	0.013

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98274	0.455
17DAP/reference	1.09046	0.436
27DAP/reference	1.00981	1
39DAP/reference	1.07117	0.062
41DAP/reference	0.98699	0.512
42DAP/reference	1.4183	0.124
43DAP/reference	1.52533	0.16
47DAP/reference	1.23222	0.115
52DAP/reference	0.97319	0.663
57DAP/reference	2.05524	0.032

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.83704	0.997
26DAP/20DAP	0.98286	1
34DAP/26DAP	0.97086	0.945
51DAP/34DAP	0.89912	0.274
52DAP/51DAP	0.99016	1
53DAP/52DAP	1.04714	0.819
55DAP/53DAP	1.04611	0.733
57DAP/55DAP	0.91421	0.59
62DAP/57DAP	0.8905	0.681
68DAP/62DAP	0.89732	0.747
68DAP/14DAP	1.06729	0.714

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0067	0.855

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.95683	0.658
Mature Green Tomato/Ripe Tomato	1.11927	0.814
Immature Eggplant/Mature Eggplant	1.20897	0.116
Ripe Pepper/Ripe Tomato	0.88241	1
Mature Eggplant/Ripe Tomato	0.87172	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95393	0.944
1-1-2/M82	1.13946	1
12-2/M82	1.12754	1
12-4/M82	0.98394
1-3/M82	1.30714	0.255
2-1-1/M82	1.0832	1
2-1/M82	0.76389	0.322
2-6/M82	0.95928	1
3-2/M82	0.99901
4-1-1/M82	1.08096	1
4-1/M82	1.33129
4-3-2/M82	1.28454	0.253
4-3/M82	1.04553	1
5-3/M82	1.06849	1
6-2/M82	0.97611	1
6-3/M82	1.16274	1
7-1/M82	1.14329	1
7-2/M82	1.09245	1
9-3-2/M82	0.88966

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.26152	0.365
IL2-6/WTpooled	0.96797	1
IL7-5/WTpooled	1.05446	1
IL7-3/WTpooled	1.57447	1
IL12-4/WTpooled	1.22388	0.595
IL1-4/WTpooled	0.88436	0.834
WT/WTpooled	1.09751	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	1.01166	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09826	0.724
DC3000/delta hrp 6h	0.90083	0.95
DC3000/delta hrp 12h	1.09903	1
DC3000/delta hrp 24h	1.09962	0.308

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.19129	0.134
DC3000 delta B/DC3000 delta AB	1.10674	0.332

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.14661	1
Exp 36h	0.79497	0.263
Exp 60h	1.22659	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97951	1
Var 0h	0.55417	0.252
Var 12h I row2-row1	1.01848	0.736
Var 12h NI row2-row1	1.56516	1
Var 36h I row2-row1	0.85079	1
Var 36h NI row2-row1	0.9119	0.706
Var 60h I row2-row1	1.03551	0.562
Var 60h NI row2-row1	1.09572	0.904
Time course 0hI-0hNI	1.0419	0.799
Time course 12hI-12hNI	1.02041	0.82
Time course 36hI-36hNI	1.06182	0.355
Time course 60hI-60hNI	1.69403	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)	1.0718	0.571
transgenic ySAMdc/azygous control (breaker)	1.08254	1
transgenic ySAMdc/azygous control (red)	0.9373	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.15485	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.79831	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.52474	0.172
Manapal/WT (break)	0.83087	0.333
Manapal/WT (red)	0.93296	0.503