Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.18.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13847	0.561
27DAP/17DAP	1.79333	0.45
39DAP/27DAP	1.062	0.769
41DAP/39DAP	0.9583	0.769
42DAP/41DAP	1.05521	0.999
43DAP/42DAP	1.65122	0.671
47DAP/43DAP	0.96791	0.671
52DAP/47DAP	1.09028	0.976
57DAP/52DAP	1.32667	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97296	0.442
17DAP/reference	0.96171	0.448
27DAP/reference	0.94556	0.232
39DAP/reference	1.03701	0.445
41DAP/reference	0.97203	0.667
42DAP/reference	0.89597	0.002
43DAP/reference	0.98613	0.745
47DAP/reference	0.96573	0.224
52DAP/reference	0.95859	0.35
57DAP/reference	0.91964	0.118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93891	0.454
27DAP/17DAP	1.0441	0.863
39DAP/27DAP	1.03498	0.677
41DAP/39DAP	1.02518	1
42DAP/41DAP	1.03862	0.872
43DAP/42DAP	1.02767	0.746
47DAP/43DAP	1.0443	0.837
52DAP/47DAP	1.06444	0.776
57DAP/52DAP	0.99713	0.887
57DAP/7DAP	1.0531	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89243	0.138
17DAP/reference	0.82486	0.012
27DAP/reference	0.74855	0.01
39DAP/reference	0.90932	0.039
41DAP/reference	0.87021	0.029
42DAP/reference	0.79448	0.015
43DAP/reference	0.92275	0.132
47DAP/reference	0.97753	0.671
52DAP/reference	0.88009	0.053
57DAP/reference	0.90334	0.03

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00435	0.933
17DAP/reference	0.94066	0.223
27DAP/reference	0.89572	0.144
39DAP/reference	0.88095	0.064
41DAP/reference	1.04985	1
42DAP/reference	0.78693	0.012
43DAP/reference	1.02696	0.662
47DAP/reference	0.85955	0.015
52DAP/reference	0.95368	0.101
57DAP/reference	0.96958	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77029	0.034
17DAP/reference	0.95088	0.433
27DAP/reference	0.87714	0.038
39DAP/reference	0.8691	0.023
41DAP/reference	0.94475	0.371
42DAP/reference	0.81072	0.016
43DAP/reference	0.87555	0.028
47DAP/reference	0.97076	0.452
52DAP/reference	0.85638	0.177
57DAP/reference	0.98704	0.623

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99742	1
26DAP/20DAP	0.95457	1
34DAP/26DAP	0.99839	1
51DAP/34DAP	0.95154	0.606
52DAP/51DAP	1.03164	0.708
53DAP/52DAP	1.01328	0.921
55DAP/53DAP	0.98578	0.852
57DAP/55DAP	1.08034	0.935
62DAP/57DAP	1.05006	1
68DAP/62DAP	1.27019	0.298
68DAP/14DAP	1.26957	0.403

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9798	0.576

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.74633	0.207
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.11691	0.13
Ripe Pepper/Ripe Tomato	1.74039	1
Mature Eggplant/Ripe Tomato	1.19879	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.87675	0.907
1-1-2/M82	0.89908	0.958
12-2/M82	0.98191	0.955
12-4/M82	1.08439	0.694
1-3/M82	1.01756	1
2-1-1/M82	0.96255
2-1/M82	1.22445	1
2-6/M82	0.99975	1
3-2/M82	0.83681
4-1-1/M82	1.12703	1
4-1/M82	0.96305
4-3-2/M82	0.80843
4-3/M82	1.18234	1
5-3/M82	0.89652	0.447
6-2/M82	0.67737
6-3/M82	0.97756	1
7-1/M82	0.84558
7-2/M82	1.09274	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.86349
IL2-6/WTpooled	1.30094	0.456
IL7-5/WTpooled	0.8164	1
IL7-3/WTpooled	0.96114	1
IL12-4/WTpooled	1.28339	0.557
IL1-4/WTpooled	0.97983	1
WT/WTpooled	1.03935	0.957

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	1.12646	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96322	1
DC3000/delta hrp 6h	1.16718	1
DC3000/delta hrp 12h	1.1346	1
DC3000/delta hrp 24h	1.12004	0.483

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0419	0.29
DC3000 delta B/DC3000 delta AB	1.02484	0.655

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.28275	1
Exp 36h	1.07106	1
Exp 60h	1.14113	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99276	1
Var 0h	0.95311	1
Var 12h I row2-row1	1.06715	0.443
Var 12h NI row2-row1	1.02466	1
Var 36h I row2-row1	0.85849	1
Var 36h NI row2-row1	0.98988	0.852
Var 60h I row2-row1	1.37393	0.562
Var 60h NI row2-row1	1.00135	1
Time course 0hI-0hNI	1.07505	0.799
Time course 12hI-12hNI	1.04773	0.709
Time course 36hI-36hNI	1.17894	0.089
Time course 60hI-60hNI	1.05093	0.495

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)	0.99078	0.862
transgenic ySAMdc/azygous control (breaker)	0.87083	0.173
transgenic ySAMdc/azygous control (red)	0.9772	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99689	0.784

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.95066	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87721	1
Manapal/WT (break)	0.98236	1
Manapal/WT (red)	0.87387	0.424