Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.14.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.29427	0.452
27DAP/17DAP	1.04794	1
39DAP/27DAP	1.1997	0.622
41DAP/39DAP	1.07996	0.756
42DAP/41DAP	0.77054	0.774
43DAP/42DAP	1.02611	0.937
47DAP/43DAP	1.07706	0.873
52DAP/47DAP	1.12138	0.946
57DAP/52DAP	1.37799	0.892

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78321
17DAP/reference	0.68587
27DAP/reference	0.36268	0.01
39DAP/reference	N/A	N/A
41DAP/reference	N/A	N/A
42DAP/reference	1.17251	0.68
43DAP/reference	0.64801
47DAP/reference	0.94115	0.418
52DAP/reference	N/A	N/A
57DAP/reference	1.15739

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87864	0.158
27DAP/17DAP	0.93674	0.821
39DAP/27DAP	1.02811	0.758
41DAP/39DAP	0.88932	0.599
42DAP/41DAP	1.04408	0.947
43DAP/42DAP	1.11966	0.324
47DAP/43DAP	1.10775	0.54
52DAP/47DAP	1.04353	0.835
57DAP/52DAP	0.98969	0.818
57DAP/7DAP	1.00348	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96597	0.55
17DAP/reference	1.04317	0.627
27DAP/reference	1.14843	0.107
39DAP/reference	0.98925	0.64
41DAP/reference	1.32374	0.016
42DAP/reference	1.20566	0.132
43DAP/reference	1.2107	0.07
47DAP/reference	1.07343	0.791
52DAP/reference	1.09821	0.526
57DAP/reference	1.11174	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09384	0.687
17DAP/reference	1.16035	0.166
27DAP/reference	1.20641	0.323
39DAP/reference	1.06044	1
41DAP/reference	1.48533	0.024
42DAP/reference	0.93133
43DAP/reference	1.00908	0.748
47DAP/reference	N/A	N/A
52DAP/reference	1.17409	0.03
57DAP/reference	0.95758	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9297	0.268
17DAP/reference	0.97492	0.658
27DAP/reference	1.28964	0.164
39DAP/reference	1.01478	0.987
41DAP/reference	0.95822	0.618
42DAP/reference	1.13144	0.45
43DAP/reference	0.94945	0.484
47DAP/reference	1.13011	0.405
52DAP/reference	1.20078	0.526
57DAP/reference	1.08239	0.531

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.66214	0.399
26DAP/20DAP	0.97309	1
34DAP/26DAP	1.00863	1
51DAP/34DAP	1.16373	0.339
52DAP/51DAP	1.39753	0.137
53DAP/52DAP	0.8766	0.379
55DAP/53DAP	1.26054	0.287
57DAP/55DAP	0.8734	0.448
62DAP/57DAP	1.5588	0.081
68DAP/62DAP	1.2173	0.936
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90551	0.269

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.44792

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.02333	1
IL2-6/WTpooled	0.9227	1
IL7-5/WTpooled	1.26176	0.792
IL7-3/WTpooled	1.02199	1
IL12-4/WTpooled	0.92371	1
IL1-4/WTpooled	0.95703	0.699
WT/WTpooled	0.97716	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	1.00193	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93427	1
DC3000/delta hrp 6h	1.12868	1
DC3000/delta hrp 12h	1.38681	1
DC3000/delta hrp 24h	0.91689	0.554

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.72234	0.031
DC3000 delta B/DC3000 delta AB	0.71446	0.025

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
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	1.00993	1
Var 0h	0.4838	0.933
Var 12h I row2-row1	0.84021	0.565
Var 12h NI row2-row1	0.90162	0.36
Var 36h I row2-row1	1.03656	1
Var 36h NI row2-row1	0.8567	0.706
Var 60h I row2-row1	0.96971	0.952
Var 60h NI row2-row1	0.99876	1
Time course 0hI-0hNI	0.99246	1
Time course 12hI-12hNI	1.04983	0.82
Time course 36hI-36hNI	1.04418	0.799
Time course 60hI-60hNI	0.71195	0.026

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.64152	0.183
Manapal/WT (red)	N/A	N/A