Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.13.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03213	0.951
27DAP/17DAP	1.26251	0.847
39DAP/27DAP	1.13896	0.949
41DAP/39DAP	1.99346	0.266
42DAP/41DAP	1.09823	0.931
43DAP/42DAP	0.75324	0.485
47DAP/43DAP	0.87965	0.35
52DAP/47DAP	2.19903	0.26
57DAP/52DAP	0.78465	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04418	0.587
17DAP/reference	0.9102	0.138
27DAP/reference	0.91366	0.182
39DAP/reference	1.00474	0.903
41DAP/reference	0.89616	0.039
42DAP/reference	1.01139	1
43DAP/reference	0.89394	0.034
47DAP/reference	0.95596	0.148
52DAP/reference	1.01503	1
57DAP/reference	1.0541	0.202

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92291	0.484
27DAP/17DAP	1.11924	0.593
39DAP/27DAP	1.01589	0.77
41DAP/39DAP	1.11258	0.69
42DAP/41DAP	0.96947	0.721
43DAP/42DAP	0.90211	0.269
47DAP/43DAP	1.09475	0.552
52DAP/47DAP	0.99692	0.925
57DAP/52DAP	0.92583	0.572
57DAP/7DAP	0.72035	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85377	0.129
17DAP/reference	0.77519	0.021
27DAP/reference	0.86094	0.011
39DAP/reference	0.78107	0.021
41DAP/reference	0.82516	0.03
42DAP/reference	0.76125	0.014
43DAP/reference	0.78646	0.014
47DAP/reference	0.92585	0.383
52DAP/reference	0.93148	0.278
57DAP/reference	0.71808	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07605	0.22
17DAP/reference	1.04491	0.69
27DAP/reference	1.03007	0.961
39DAP/reference	0.98117	0.509
41DAP/reference	1.03426	0.862
42DAP/reference	1.07567	0.288
43DAP/reference	1.41241	0.081
47DAP/reference	1.09854	0.018
52DAP/reference	1.16414	0.085
57DAP/reference	0.99431	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83483	0.061
17DAP/reference	0.95143	0.537
27DAP/reference	0.82028	0.047
39DAP/reference	0.82268	0.054
41DAP/reference	0.87211	0.167
42DAP/reference	0.89695	0.108
43DAP/reference	0.81695	0.068
47DAP/reference	1.07189	0.543
52DAP/reference	0.77868	0.18
57DAP/reference	1.12926	0.539

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09572	0.735
26DAP/20DAP	0.95622	1
34DAP/26DAP	1.14318	1
51DAP/34DAP	0.89299	0.563
52DAP/51DAP	0.96863	1
53DAP/52DAP	1.17611	0.37
55DAP/53DAP	1.21751	0.295
57DAP/55DAP	1.03287	0.94
62DAP/57DAP	1.24548	1
68DAP/62DAP	0.83818	0.227
68DAP/14DAP	2.01291	0.346

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.7625	0.062

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.29023	0.081
Mature Green Tomato/Ripe Tomato	0.95795	0.715
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	3.09009	1
Mature Eggplant/Ripe Tomato	1.34586

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.1033	0.877
1-1-2/M82	0.9554	1
12-2/M82	1.27035	1
12-4/M82	0.95134	1
1-3/M82	0.95167	0.501
2-1-1/M82	1.06412	1
2-1/M82	N/A	N/A
2-6/M82	0.92281	1
3-2/M82	0.7011
4-1-1/M82	0.96355
4-1/M82	1.29954
4-3-2/M82	1.10048	1
4-3/M82	1.1531	1
5-3/M82	1.02978	1
6-2/M82	1.00544	1
6-3/M82	0.95439	1
7-1/M82	N/A	N/A
7-2/M82	1.12894	0.385
9-3-2/M82	0.74739	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.30752	0.46
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.83905	1
IL12-4/WTpooled	1.65885	0.673
IL1-4/WTpooled	0.7363
WT/WTpooled	0.75641	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	1.19908	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10578	0.75
DC3000/delta hrp 6h	1.06774	1
DC3000/delta hrp 12h	1.07605	1
DC3000/delta hrp 24h	0.96222	0.711

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	1.12235	0.558

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.85944	0.265
Exp 36h	1.39388	0.215
Exp 60h	1.55268	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.985	1
Var 0h	2.15936	0.936
Var 12h I row2-row1	1.05522	0.613
Var 12h NI row2-row1	0.74085	0.494
Var 36h I row2-row1	0.88675	0.805
Var 36h NI row2-row1	0.95677	0.743
Var 60h I row2-row1	1.17353	0.271
Var 60h NI row2-row1	1.12223	1
Time course 0hI-0hNI	1.0001	1
Time course 12hI-12hNI	1.00282	1
Time course 36hI-36hNI	1.11193	0.056
Time course 60hI-60hNI	1.52793	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)	1.03886	0.654
transgenic ySAMdc/azygous control (breaker)	3.27723	0.172
transgenic ySAMdc/azygous control (red)	1.15263	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03476	0.148

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.17072	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.59207	0.172
Manapal/WT (break)	0.58105	0.333
Manapal/WT (red)	1.07757	1