Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.10.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08391	0.709
27DAP/17DAP	1.20299	0.801
39DAP/27DAP	0.80923	0.487
41DAP/39DAP	1.34145	0.318
42DAP/41DAP	1.14116	0.832
43DAP/42DAP	1.02863	0.937
47DAP/43DAP	1.06666	0.68
52DAP/47DAP	0.83349	0.565
57DAP/52DAP	1.06367	0.995

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95317	0.39
17DAP/reference	1.09109	0.064
27DAP/reference	1.08199	0.17
39DAP/reference	1.01864	0.691
41DAP/reference	0.96703	0.667
42DAP/reference	0.97426	0.268
43DAP/reference	1.00625	1
47DAP/reference	1.02266	0.541
52DAP/reference	0.92712	0.3
57DAP/reference	0.98927	0.639

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97143	0.697
27DAP/17DAP	0.93567	0.821
39DAP/27DAP	1.00999	0.854
41DAP/39DAP	0.93093	0.885
42DAP/41DAP	1.01264	0.932
43DAP/42DAP	1.11886	0.086
47DAP/43DAP	1.00631	0.957
52DAP/47DAP	0.91572	0.585
57DAP/52DAP	0.99308	0.848
57DAP/7DAP	0.95201	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83506	0.086
17DAP/reference	0.76026	0.011
27DAP/reference	0.81829	0.01
39DAP/reference	0.85405	0.011
41DAP/reference	0.89003	0.037
42DAP/reference	0.79248	0.016
43DAP/reference	0.84592	0.025
47DAP/reference	0.90191	0.222
52DAP/reference	0.85972	0.015
57DAP/reference	0.87079	0.083

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95633	0.412
17DAP/reference	1.0043	1
27DAP/reference	0.87128	0.06
39DAP/reference	0.93351	0.25
41DAP/reference	0.91959	0.137
42DAP/reference	0.95911	0.392
43DAP/reference	0.94551	0.269
47DAP/reference	1.05238	0.205
52DAP/reference	0.96385	0.239
57DAP/reference	1.01606	0.688

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83584	0.026
17DAP/reference	0.88643	0.136
27DAP/reference	0.81291	0.032
39DAP/reference	0.79121	0.007
41DAP/reference	0.87911	0.021
42DAP/reference	0.80669	0.017
43DAP/reference	0.85308	0.02
47DAP/reference	0.93545	0.249
52DAP/reference	0.77366	0.093
57DAP/reference	0.74221	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02814	0.966
26DAP/20DAP	0.79938	0.317
34DAP/26DAP	1.02993	1
51DAP/34DAP	1.08782	0.677
52DAP/51DAP	1.02866	0.783
53DAP/52DAP	0.84793	0.489
55DAP/53DAP	0.91465	0.675
57DAP/55DAP	1.13259	0.525
62DAP/57DAP	0.98633	0.994
68DAP/62DAP	1.07827	0.707
68DAP/14DAP	0.81132	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90356	0.211

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.71246	0.196
Mature Green Tomato/Ripe Tomato	0.66892	0.042
Immature Eggplant/Mature Eggplant	0.55609	0.069
Ripe Pepper/Ripe Tomato	0.93101	1
Mature Eggplant/Ripe Tomato	0.93651	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.13443	0.574
1-1-2/M82	0.94696	1
12-2/M82	1.03706	1
12-4/M82	1.131	1
1-3/M82	0.98836	1
2-1-1/M82	1.044
2-1/M82	N/A	N/A
2-6/M82	0.95914	1
3-2/M82	0.97555	1
4-1-1/M82	0.91153	1
4-1/M82	1.04371	1
4-3-2/M82	1.01789	1
4-3/M82	1.03463	1
5-3/M82	1.00062	1
6-2/M82	1.04101	1
6-3/M82	1.04747	1
7-1/M82	1.06812
7-2/M82	1.06688	1
9-3-2/M82	0.67223	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.1633	0.365
IL2-6/WTpooled	1.11285	0.659
IL7-5/WTpooled	1.04265	1
IL7-3/WTpooled	0.94563	1
IL12-4/WTpooled	1.05219	0.891
IL1-4/WTpooled	0.97059	1
WT/WTpooled	0.9767	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	0.85889	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00919	1
DC3000/delta hrp 6h	1.05312	1
DC3000/delta hrp 12h	0.95424	1
DC3000/delta hrp 24h	1.12644	0.264

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07335	0.441
DC3000 delta B/DC3000 delta AB	1.00892	0.771

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90221	1
Exp 36h	0.84172	0.539
Exp 60h	0.81195	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96622	1
Var 0h	0.80114	0.933
Var 12h I row2-row1	1.11119	0.263
Var 12h NI row2-row1	0.93036	0.394
Var 36h I row2-row1	1.17241	1
Var 36h NI row2-row1	1.06568	1
Var 60h I row2-row1	1.59812	1
Var 60h NI row2-row1	1.13236	0.904
Time course 0hI-0hNI	1.0442	0.852
Time course 12hI-12hNI	1.00378	0.892
Time course 36hI-36hNI	0.91134	0.053
Time course 60hI-60hNI	0.74449	0.007

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)	1.0149	0.455
transgenic ySAMdc/azygous control (breaker)	1.20284	0.248
transgenic ySAMdc/azygous control (red)	1.23663	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95089	0.07

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.74001	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.20002	0.307
Manapal/WT (break)	0.76309	1
Manapal/WT (red)	1.02585	1