Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.1.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92399	0.558
27DAP/17DAP	1.07573	1
39DAP/27DAP	1.34123	0.524
41DAP/39DAP	0.93854	0.772
42DAP/41DAP	1.0705	0.913
43DAP/42DAP	0.77947	0.513
47DAP/43DAP	0.99543	0.864
52DAP/47DAP	1.04261	0.953
57DAP/52DAP	1.0937	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32269	0.093
17DAP/reference	1.10657	0.22
27DAP/reference	1.0709	0.709
39DAP/reference	1.12803	0.497
41DAP/reference	1.20975	0.014
42DAP/reference	1.21191	0.012
43DAP/reference	1.24564	0.142
47DAP/reference	1.42803	0.002
52DAP/reference	1.53353	0.01
57DAP/reference	1.02685	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97434	0.663
27DAP/17DAP	0.98131	0.919
39DAP/27DAP	0.86384	0.045
41DAP/39DAP	1.19614	0.895
42DAP/41DAP	0.93053	0.62
43DAP/42DAP	0.71889
47DAP/43DAP	1.04452	0.906
52DAP/47DAP	0.97218	0.9
57DAP/52DAP	0.93869	0.646
57DAP/7DAP	0.66907	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07454	0.524
17DAP/reference	0.99702	0.599
27DAP/reference	0.96682	0.43
39DAP/reference	0.90954	0.264
41DAP/reference	0.75758	0.073
42DAP/reference	0.95709	0.482
43DAP/reference	0.99709	0.665
47DAP/reference	1.15273	0.421
52DAP/reference	0.91811	0.077
57DAP/reference	0.95964	0.411

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.48476	0.038
17DAP/reference	1.64199	0.01
27DAP/reference	1.35242	0.05
39DAP/reference	1.22504	0.263
41DAP/reference	1.54826	0.03
42DAP/reference	1.30081	0.016
43DAP/reference	1.20726	0.827
47DAP/reference	1.29809	0.008
52DAP/reference	1.21379	0.012
57DAP/reference	1.30152	0.039

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08197	0.659
17DAP/reference	0.96487	0.668
27DAP/reference	0.90052	0.174
39DAP/reference	0.97504	0.544
41DAP/reference	0.93468	0.512
42DAP/reference	1.21442	0.239
43DAP/reference	1.22114	0.343
47DAP/reference	1.42517	0.042
52DAP/reference	1.1091	0.623
57DAP/reference	1.40297	0.095

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.71711	0.787
26DAP/20DAP	0.87251	0.223
34DAP/26DAP	1.45516	1
51DAP/34DAP	N/A	N/A
52DAP/51DAP	1.7059	0.082
53DAP/52DAP	1.37976	0.343
55DAP/53DAP	0.94423	0.735
57DAP/55DAP	1.2678	0.881
62DAP/57DAP	0.77713	0.681
68DAP/62DAP	0.73081	0.579
68DAP/14DAP	0.77761	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.22901	0.591

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.37364	0.089
Mature Green Tomato/Ripe Tomato	1.39845	0.134
Immature Eggplant/Mature Eggplant	1.10271	0.398
Ripe Pepper/Ripe Tomato	0.49057	0.224
Mature Eggplant/Ripe Tomato	1.06207	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96342	0.841
1-1-2/M82	0.978	1
12-2/M82	0.8632	0.721
12-4/M82	0.91345	1
1-3/M82	0.84826	0.501
2-1-1/M82	1.12921	0.457
2-1/M82	0.671
2-6/M82	1.07069
3-2/M82	0.89687
4-1-1/M82	0.95887	1
4-1/M82	N/A	N/A
4-3-2/M82	0.90719
4-3/M82	1.00058	1
5-3/M82	1.01964	1
6-2/M82	0.96238	1
6-3/M82	1.03498	1
7-1/M82	0.9548	0.408
7-2/M82	1.14922	0.385
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.72188	0.247
IL2-6/WTpooled	1.2441	0.419
IL7-5/WTpooled	1.19283	0.792
IL7-3/WTpooled	0.72655	0.418
IL12-4/WTpooled	1.00047	1
IL1-4/WTpooled	1.06639	1
WT/WTpooled	1.07274	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	0.98631	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99436	1
DC3000/delta hrp 6h	1.09676	0.95
DC3000/delta hrp 12h	1.23382	1
DC3000/delta hrp 24h	1.13729	0.088

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.12769	0.06
DC3000 delta B/DC3000 delta AB	1.00795	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.11511	1
Exp 36h	0.93417	0.879
Exp 60h	1.0567	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0438	1
Var 0h	1.03624	1
Var 12h I row2-row1	1.07883	1
Var 12h NI row2-row1	1.13717	1
Var 36h I row2-row1	0.88456	1
Var 36h NI row2-row1	0.91437	0.743
Var 60h I row2-row1	0.99155	1
Var 60h NI row2-row1	0.81799	0.977
Time course 0hI-0hNI	1.01496	1
Time course 12hI-12hNI	1.13097	0.512
Time course 36hI-36hNI	1.06838	0.316
Time course 60hI-60hNI	1.17089	0.187

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)	1.09083	0.384
transgenic ySAMdc/azygous control (breaker)	0.81217	0.49
transgenic ySAMdc/azygous control (red)	0.9149	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03834	0.587

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.95773	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.19426	0.105
Manapal/WT (break)	1.25448	0.183
Manapal/WT (red)	1.11534	1