Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.15.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15678	0.656
27DAP/17DAP	1.09736	0.849
39DAP/27DAP	0.74826	0.399
41DAP/39DAP	1.56996	0.265
42DAP/41DAP	1.00806	1
43DAP/42DAP	1.00276	0.937
47DAP/43DAP	1.13121	0.269
52DAP/47DAP	1.12568	0.997
57DAP/52DAP	0.8406	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92414	0.159
17DAP/reference	0.99439	0.858
27DAP/reference	1.01646	0.721
39DAP/reference	1.0343	0.286
41DAP/reference	1.01579	0.624
42DAP/reference	1.01094	0.782
43DAP/reference	1.00788	0.866
47DAP/reference	1.00591	1
52DAP/reference	1.04149	0.141
57DAP/reference	1.08146	0.114

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95986	0.542
27DAP/17DAP	1.00043	1
39DAP/27DAP	1.03476	0.698
41DAP/39DAP	1.08242	0.774
42DAP/41DAP	0.97458	0.743
43DAP/42DAP	1.00837	0.664
47DAP/43DAP	1.01628	0.897
52DAP/47DAP	0.95745	0.778
57DAP/52DAP	0.96567	0.605
57DAP/7DAP	0.93391	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92506	0.296
17DAP/reference	0.92034	0.094
27DAP/reference	1.00236	0.698
39DAP/reference	0.93139	0.17
41DAP/reference	1.13789	0.072
42DAP/reference	0.99074	0.612
43DAP/reference	1.04214	0.83
47DAP/reference	0.88217	0.128
52DAP/reference	0.92489	0.115
57DAP/reference	0.96174	0.328

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93689	0.11
17DAP/reference	0.97941	0.474
27DAP/reference	0.90681	0.139
39DAP/reference	0.94598	0.183
41DAP/reference	0.97384	0.441
42DAP/reference	0.99524	0.655
43DAP/reference	1.02638	0.769
47DAP/reference	1.05099	0.291
52DAP/reference	0.97839	0.407
57DAP/reference	0.99996	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98371	0.566
17DAP/reference	0.94548	0.335
27DAP/reference	0.92501	0.108
39DAP/reference	0.87621	0.046
41DAP/reference	0.87703	0.055
42DAP/reference	0.83435	0.032
43DAP/reference	0.85238	0.037
47DAP/reference	1.01184	1
52DAP/reference	0.78459	0.153
57DAP/reference	0.84361	0.048

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02097	0.966
26DAP/20DAP	0.8811	0.512
34DAP/26DAP	0.99896	1
51DAP/34DAP	1.0674	0.795
52DAP/51DAP	1.01973	0.821
53DAP/52DAP	1.02387	1
55DAP/53DAP	0.92291	0.5
57DAP/55DAP	1.09793	0.841
62DAP/57DAP	0.96378	0.871
68DAP/62DAP	0.99283	0.885
68DAP/14DAP	1.01479	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87991	0.062

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.93541	0.487
Immature Eggplant/Mature Eggplant	1.53752
Ripe Pepper/Ripe Tomato	2.14452	1
Mature Eggplant/Ripe Tomato	1.44339	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94011	0.944
1-1-2/M82	0.95147	1
12-2/M82	0.94014	0.74
12-4/M82	1.00841	1
1-3/M82	0.85487	0.339
2-1-1/M82	1.16259	0.689
2-1/M82	1.33524
2-6/M82	0.98751	1
3-2/M82	1.05222
4-1-1/M82	0.96116	1
4-1/M82	0.90374
4-3-2/M82	0.91144	1
4-3/M82	0.93156	0.72
5-3/M82	1.06625	0.467
6-2/M82	0.98358	1
6-3/M82	0.99877	1
7-1/M82	1.03991
7-2/M82	0.99198	1
9-3-2/M82	0.73907	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.69108	0.243
IL2-6/WTpooled	0.94163	1
IL7-5/WTpooled	1.16397	0.792
IL7-3/WTpooled	0.6144	0.418
IL12-4/WTpooled	1.19889	0.538
IL1-4/WTpooled	0.97116	1
WT/WTpooled	1.12502	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	1.66586	0.148

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05898	0.758
DC3000/delta hrp 6h	1.26154	1
DC3000/delta hrp 12h	1.02111	1
DC3000/delta hrp 24h	1.23405	0.182

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.88416	0.023
DC3000 delta B/DC3000 delta AB	1.64585	0.081

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05894	1
Exp 36h	0.9758	0.943
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97437	1
Var 0h	1.05768	1
Var 12h I row2-row1	1.13352	0.613
Var 12h NI row2-row1	0.86932	0.627
Var 36h I row2-row1	1.28817	1
Var 36h NI row2-row1	1.07737	1
Var 60h I row2-row1	1.50905	1
Var 60h NI row2-row1	1.26626	0.904
Time course 0hI-0hNI	1.0215	1
Time course 12hI-12hNI	0.97193	0.795
Time course 36hI-36hNI	1.15103	0.012
Time course 60hI-60hNI	1.49289	0.009

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)	0.83916	0.324
transgenic ySAMdc/azygous control (breaker)	1.14089	0.248
transgenic ySAMdc/azygous control (red)	1.29098	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97154	0.143

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.15746	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03568	1
Manapal/WT (break)	0.9255	1
Manapal/WT (red)	0.86781	0.274