Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.11.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10055	0.588
27DAP/17DAP	1.16308	0.849
39DAP/27DAP	0.82992	0.495
41DAP/39DAP	1.06693	0.735
42DAP/41DAP	1.04719	0.971
43DAP/42DAP	0.94105	0.761
47DAP/43DAP	0.9034	0.667
52DAP/47DAP	1.22122	0.61
57DAP/52DAP	1.07717	0.894

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0189	0.788
17DAP/reference	1.00477	0.843
27DAP/reference	0.99469	0.822
39DAP/reference	1.00566	0.816
41DAP/reference	0.94215	0.341
42DAP/reference	0.92813	0.011
43DAP/reference	1.02975	0.569
47DAP/reference	0.91947	0.019
52DAP/reference	0.93088	0.195
57DAP/reference	0.87509	0.03

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02632	0.774
27DAP/17DAP	0.98623	0.887
39DAP/27DAP	0.99696	1
41DAP/39DAP	1.03673	0.827
42DAP/41DAP	1.01285	0.976
43DAP/42DAP	1.0453	0.324
47DAP/43DAP	1.04024	0.674
52DAP/47DAP	0.98269	0.925
57DAP/52DAP	0.96948	0.665
57DAP/7DAP	1.03725	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13818
17DAP/reference	0.91028	0.018
27DAP/reference	0.87626	0.012
39DAP/reference	0.99603	0.745
41DAP/reference	0.98622	0.469
42DAP/reference	1.02038	0.534
43DAP/reference	0.98663	0.385
47DAP/reference	0.9894	1
52DAP/reference	0.92949	0.012
57DAP/reference	1.07378	0.571

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08171	0.289
17DAP/reference	1.08289	0.264
27DAP/reference	0.93649	0.438
39DAP/reference	1.01622	1
41DAP/reference	0.71749	0.026
42DAP/reference	0.87943
43DAP/reference	1.32733	0.057
47DAP/reference	1.08574	0.639
52DAP/reference	0.93461	0.38
57DAP/reference	1.03277	0.724

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8664	0.026
17DAP/reference	0.96299	0.444
27DAP/reference	0.90473	0.029
39DAP/reference	0.93085	0.019
41DAP/reference	0.92257	0.026
42DAP/reference	0.89346	0.028
43DAP/reference	1.11857	0.84
47DAP/reference	0.98958	0.61
52DAP/reference	0.8891	0.169
57DAP/reference	0.77129	0.027

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04815	0.56
26DAP/20DAP	0.96113	1
34DAP/26DAP	0.86742	0.479
51DAP/34DAP	0.99997	0.967
52DAP/51DAP	0.97208	1
53DAP/52DAP	0.93435
55DAP/53DAP	1.05847	0.826
57DAP/55DAP	1.06086	0.854
62DAP/57DAP	0.94722	0.994
68DAP/62DAP	1.07744	0.869
68DAP/14DAP	0.95646	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05811	0.369

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.76451	0.086
Immature Eggplant/Mature Eggplant	1.24652	0.267
Ripe Pepper/Ripe Tomato	0.46163	0.224
Mature Eggplant/Ripe Tomato	0.65999	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96072	0.841
1-1-2/M82	0.89467	0.958
12-2/M82	1.35484
12-4/M82	0.95526	1
1-3/M82	0.97756	1
2-1-1/M82	1.60007
2-1/M82	0.98088
2-6/M82	1.09032	0.505
3-2/M82	1.04568
4-1-1/M82	0.94729
4-1/M82	1.06919
4-3-2/M82	0.88919	1
4-3/M82	1.15106	1
5-3/M82	1.05997	1
6-2/M82	1.0173	1
6-3/M82	1.01056	1
7-1/M82	N/A	N/A
7-2/M82	1.0119	1
9-3-2/M82	0.79044	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.29735	0.277
IL2-6/WTpooled	0.92349	1
IL7-5/WTpooled	1.1332	0.792
IL7-3/WTpooled	1.02062	1
IL12-4/WTpooled	0.90661	0.71
IL1-4/WTpooled	1.05363	0.426
WT/WTpooled	1.05193	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	1.28022	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05699	0.875
DC3000/delta hrp 6h	0.87	0.95
DC3000/delta hrp 12h	0.741
DC3000/delta hrp 24h	1.00117	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.19221	0.046
DC3000 delta B/DC3000 delta AB	1.17818	0.272

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94976	1
Exp 36h	N/A	N/A
Exp 60h	1.30072	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00009	1
Var 0h	1.27569	0.289
Var 12h I row2-row1	1.13258	0.224
Var 12h NI row2-row1	0.97955	0.906
Var 36h I row2-row1	0.80853	1
Var 36h NI row2-row1	0.93179	0.743
Var 60h I row2-row1	1.30284	0.562
Var 60h NI row2-row1	1.12757	0.904
Time course 0hI-0hNI	1.0103	1
Time course 12hI-12hNI	1.0471	0.754
Time course 36hI-36hNI	1.09845	0.089
Time course 60hI-60hNI	1.61481	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)	0.8728	0.409
transgenic ySAMdc/azygous control (breaker)	1.37643	0.166
transgenic ySAMdc/azygous control (red)	1.05805	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0026	0.811

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.26518	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89493	1
Manapal/WT (break)	0.85591	1
Manapal/WT (red)	1.02595	1