Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.11.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03193	1
27DAP/17DAP	1.11415	1
39DAP/27DAP	1.06802	0.981
41DAP/39DAP	1.04483	0.88
42DAP/41DAP	1.03584	0.994
43DAP/42DAP	0.87444	0.705
47DAP/43DAP	0.83309	0.48
52DAP/47DAP	1.5179	0.334
57DAP/52DAP	1.04745	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08156	0.154
17DAP/reference	1.01556	0.384
27DAP/reference	0.96637	0.457
39DAP/reference	0.97875	0.611
41DAP/reference	1.00892	0.808
42DAP/reference	1.07266	0.011
43DAP/reference	1.00271	1
47DAP/reference	1.06313	0.11
52DAP/reference	1.02198	0.951
57DAP/reference	0.94311	0.101

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0618	0.348
27DAP/17DAP	0.99412	0.943
39DAP/27DAP	0.97922	0.898
41DAP/39DAP	1.02686	0.781
42DAP/41DAP	0.99641	0.913
43DAP/42DAP	0.98815	0.751
47DAP/43DAP	1.01391	0.892
52DAP/47DAP	0.98789	0.925
57DAP/52DAP	1.01604	0.933
57DAP/7DAP	0.90314	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96891	0.495
17DAP/reference	0.99185	0.599
27DAP/reference	0.78225	0.042
39DAP/reference	0.72747	0.011
41DAP/reference	0.81341	0.082
42DAP/reference	0.72713	0.011
43DAP/reference	0.82722	0.028
47DAP/reference	0.78569	0.168
52DAP/reference	0.84863	0.106
57DAP/reference	0.85933	0.056

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97123	0.592
17DAP/reference	1.1125	0.186
27DAP/reference	1.20395	0.123
39DAP/reference	1.06134	0.449
41DAP/reference	1.09227	0.657
42DAP/reference	1.03607	0.73
43DAP/reference	1.19791	0.152
47DAP/reference	1.03846	0.426
52DAP/reference	1.01708	0.747
57DAP/reference	1.06567	0.269

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97343	0.489
17DAP/reference	0.9212	0.374
27DAP/reference	0.95337	0.465
39DAP/reference	0.77784	0.035
41DAP/reference	0.89138	0.167
42DAP/reference	0.92605	0.445
43DAP/reference	1.06984	0.655
47DAP/reference	1.04791	0.324
52DAP/reference	1.01247	1
57DAP/reference	1.06735	0.539

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99738	1
26DAP/20DAP	0.93692	0.512
34DAP/26DAP	0.96094	0.834
51DAP/34DAP	0.98055	0.835
52DAP/51DAP	1.02778	0.77
53DAP/52DAP	0.93755	0.75
55DAP/53DAP	1.01034	1
57DAP/55DAP	1.08498	0.407
62DAP/57DAP	0.99167	1
68DAP/62DAP	0.82992	0.429
68DAP/14DAP	0.93911	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07817	0.064

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.97715	0.774
Immature Eggplant/Mature Eggplant	0.36724	0.067
Ripe Pepper/Ripe Tomato	0.62623	1
Mature Eggplant/Ripe Tomato	2.15655

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.84425	0.605
1-1-2/M82	0.98342	1
12-2/M82	0.93493	0.955
12-4/M82	1.01993	1
1-3/M82	0.93797	0.378
2-1-1/M82	0.91275	0.683
2-1/M82	1.04855
2-6/M82	0.92381	1
3-2/M82	1.0285	0.967
4-1-1/M82	1.03531	1
4-1/M82	0.95646	1
4-3-2/M82	0.9295	1
4-3/M82	0.93681	0.72
5-3/M82	0.96638	1
6-2/M82	1.01177	1
6-3/M82	1.05965	1
7-1/M82	1.07328	0.598
7-2/M82	1.04663	1
9-3-2/M82	0.93291	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.97644	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.96791	1
IL12-4/WTpooled	0.94579	1
IL1-4/WTpooled	0.96861	0.457
WT/WTpooled	0.92275	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	1.1074

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00877	0.921
DC3000/delta hrp 6h	1.11547	1
DC3000/delta hrp 12h	0.97213	1
DC3000/delta hrp 24h	0.96663	0.794

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.10984	0.229
DC3000 delta B/DC3000 delta AB	1.06457	0.472

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93161	1
Exp 36h	1.32174	1
Exp 60h	3.29532	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.992	1
Var 0h	0.88634	1
Var 12h I row2-row1	1.14812	0.272
Var 12h NI row2-row1	0.98342	1
Var 36h I row2-row1	0.98145	1
Var 36h NI row2-row1	0.94702	0.706
Var 60h I row2-row1	1.15272	1
Var 60h NI row2-row1	1.06291	0.904
Time course 0hI-0hNI	0.99921	1
Time course 12hI-12hNI	1.07085	0.682
Time course 36hI-36hNI	0.9998	0.811
Time course 60hI-60hNI	1.11171	0.033

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)	0.66892	0.309
transgenic ySAMdc/azygous control (breaker)	0.72878	0.142
transgenic ySAMdc/azygous control (red)	1.14822	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94565	0.058

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99043	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8534	1
Manapal/WT (break)	1.05706	1
Manapal/WT (red)	0.85206	0.607