Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.11.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08179	0.709
27DAP/17DAP	1.37597	0.766
39DAP/27DAP	0.91625	0.62
41DAP/39DAP	1.19318	0.451
42DAP/41DAP	0.96871	1
43DAP/42DAP	0.987	0.932
47DAP/43DAP	0.79512	0.395
52DAP/47DAP	1.15653	0.869
57DAP/52DAP	1.0195	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87998	0.059
17DAP/reference	1.03502	0.565
27DAP/reference	0.97833	0.725
39DAP/reference	1.1711
41DAP/reference	1.43405	0.203
42DAP/reference	1.03615	0.366
43DAP/reference	0.69407
47DAP/reference	0.98031	0.473
52DAP/reference	1.12407	0.121
57DAP/reference	0.51257

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98736	0.847
27DAP/17DAP	0.9221	0.114
39DAP/27DAP	1.03615	0.663
41DAP/39DAP	1.02817	0.921
42DAP/41DAP	0.95564	0.712
43DAP/42DAP	0.9965	1
47DAP/43DAP	1.05136	0.508
52DAP/47DAP	1.02606	0.927
57DAP/52DAP	1.04173	0.722
57DAP/7DAP	1.06556	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95353	0.077
17DAP/reference	0.93439	0.056
27DAP/reference	0.92403	0.037
39DAP/reference	0.97101	0.027
41DAP/reference	0.87202	0.139
42DAP/reference	0.95419	0.026
43DAP/reference	0.89509	0.132
47DAP/reference	0.69477	0.168
52DAP/reference	1.02979	0.028
57DAP/reference	0.86891	0.128

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95532	0.518
17DAP/reference	0.90657	0.129
27DAP/reference	0.90038	0.229
39DAP/reference	0.81192	0.065
41DAP/reference	0.81834	0.067
42DAP/reference	0.99624	0.655
43DAP/reference	0.954	0.507
47DAP/reference	0.99662	0.714
52DAP/reference	0.8816	0.143
57DAP/reference	1.45744	0.737

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90567	0.041
17DAP/reference	0.94912	0.477
27DAP/reference	0.98367	0.357
39DAP/reference	0.9846	0.393
41DAP/reference	0.96675	0.185
42DAP/reference	0.80154	0.071
43DAP/reference	0.85705	0.137
47DAP/reference	0.97179	0.478
52DAP/reference	0.90031	0.223
57DAP/reference	0.68226	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95789	1
26DAP/20DAP	0.98559	1
34DAP/26DAP	0.99145	1
51DAP/34DAP	1.00627	0.988
52DAP/51DAP	1.02693	0.626
53DAP/52DAP	1.12781
55DAP/53DAP	0.98719	0.82
57DAP/55DAP	0.97591	0.909
62DAP/57DAP	1.06752	0.445
68DAP/62DAP	1.08832	0.864
68DAP/14DAP	0.98674	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93718	0.322

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.96028	0.673
Mature Green Tomato/Ripe Tomato	1.05961	0.835
Immature Eggplant/Mature Eggplant	1.89886	0.092
Ripe Pepper/Ripe Tomato	0.7751	0.293
Mature Eggplant/Ripe Tomato	1.14648	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0118	1
1-1-2/M82	1.0879	1
12-2/M82	1.03595	1
12-4/M82	0.96018	1
1-3/M82	0.95185	0.501
2-1-1/M82	1.02422	0.764
2-1/M82	1.25713	1
2-6/M82	0.99244	1
3-2/M82	0.96728	0.455
4-1-1/M82	0.92873	1
4-1/M82	0.87606	0.737
4-3-2/M82	0.92991	1
4-3/M82	1.1178	1
5-3/M82	1.04408	1
6-2/M82	1.06274	1
6-3/M82	0.97784	1
7-1/M82	0.97278	1
7-2/M82	0.99026	0.881
9-3-2/M82	0.89337	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.11002
IL2-6/WTpooled	0.76038	0.348
IL7-5/WTpooled	1.25137	0.792
IL7-3/WTpooled	1.125	1
IL12-4/WTpooled	1.28736	0.737
IL1-4/WTpooled	0.96491	0.444
WT/WTpooled	0.86253	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	1.29244	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9323	1
DC3000/delta hrp 6h	0.98363	0.95
DC3000/delta hrp 12h	0.98483	1
DC3000/delta hrp 24h	1.01944	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.02363	1
DC3000 delta B/DC3000 delta AB	0.95527	0.674

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01014	1
Exp 36h	1.49116	0.693
Exp 60h	1.14142	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.91356	1
Var 0h	1.04804	0.936
Var 12h I row2-row1	1.11333	0.198
Var 12h NI row2-row1	1.02827	1
Var 36h I row2-row1	0.93167	1
Var 36h NI row2-row1	0.91227	0.61
Var 60h I row2-row1	1.26647	1
Var 60h NI row2-row1	1.10062	0.904
Time course 0hI-0hNI	1.09441	0.799
Time course 12hI-12hNI	1.04106	0.746
Time course 36hI-36hNI	0.99035	0.665
Time course 60hI-60hNI	1.09378	0.115

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)	0.94989	0.567
transgenic ySAMdc/azygous control (breaker)	0.66054	0.173
transgenic ySAMdc/azygous control (red)	0.92869	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99334	0.534

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.2421	0.223

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.55068	0.172
Manapal/WT (break)	0.95378	1
Manapal/WT (red)	0.7117	0.181