Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.15.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94309	0.596
27DAP/17DAP	0.82145	0.575
39DAP/27DAP	1.40177	0.339
41DAP/39DAP	0.87691	0.47
42DAP/41DAP	1.6929	0.573
43DAP/42DAP	1.01794	0.937
47DAP/43DAP	0.6816	0.19
52DAP/47DAP	0.98216	0.856
57DAP/52DAP	1.36559	0.93

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91719	0.101
17DAP/reference	0.95738	0.342
27DAP/reference	0.9484	0.304
39DAP/reference	0.99533	0.941
41DAP/reference	0.96728	0.542
42DAP/reference	0.95969	0.176
43DAP/reference	0.97775	0.611
47DAP/reference	0.93923	0.174
52DAP/reference	1.02826	0.663
57DAP/reference	1.08947	0.291

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90508	0.251
27DAP/17DAP	1.22933	0.227
39DAP/27DAP	0.78732	0.119
41DAP/39DAP	0.97847	0.98
42DAP/41DAP	0.94163	0.541
43DAP/42DAP	1.00685	0.83
47DAP/43DAP	1.01586	0.957
52DAP/47DAP	1.13258	0.543
57DAP/52DAP	1.27008	0.159
57DAP/7DAP	0.94099	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.61504	0.038
17DAP/reference	1.28589	0.009
27DAP/reference	1.1023	0.301
39DAP/reference	1.03907	1
41DAP/reference	1.2193	0.046
42DAP/reference	1.07123	0.889
43DAP/reference	1.12541	0.457
47DAP/reference	1.24177	0.035
52DAP/reference	1.08359	0.308
57DAP/reference	0.96349	0.232

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02537	0.979
17DAP/reference	0.96896	0.461
27DAP/reference	0.95834	0.292
39DAP/reference	1.00067	0.702
41DAP/reference	1.05279	0.688
42DAP/reference	0.9673	0.121
43DAP/reference	0.97404	0.581
47DAP/reference	1.0216	0.621
52DAP/reference	0.93931	0.025
57DAP/reference	0.99853	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34719	0.027
17DAP/reference	0.9934	0.778
27DAP/reference	0.97823	0.594
39DAP/reference	1.00873	1
41DAP/reference	1.00769	1
42DAP/reference	0.75589	0.059
43DAP/reference	0.86135	0.116
47DAP/reference	0.96703	0.421
52DAP/reference	0.88281	0.351
57DAP/reference	1.22158	0.187

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03831	0.966
26DAP/20DAP	0.9791	1
34DAP/26DAP	1.01227	1
51DAP/34DAP	0.89042	0.286
52DAP/51DAP	1.03479	0.662
53DAP/52DAP	1.13674	0.334
55DAP/53DAP	1.07589	0.737
57DAP/55DAP	1.06955	0.997
62DAP/57DAP	0.93419	0.681
68DAP/62DAP	1.0829	0.869
68DAP/14DAP	1.22034	0.541

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.15898	0.369

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.17604	0.089
Mature Green Tomato/Ripe Tomato	0.95794	0.715
Immature Eggplant/Mature Eggplant	1.34906	0.13
Ripe Pepper/Ripe Tomato	0.79556	1
Mature Eggplant/Ripe Tomato	1.1303	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.1777	0.432
1-1-2/M82	1.00999	1
12-2/M82	0.78481
12-4/M82	0.99658	1
1-3/M82	2.05161
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.07797
3-2/M82	1.34504
4-1-1/M82	N/A	N/A
4-1/M82	1.58817
4-3-2/M82	1.13384	1
4-3/M82	1.02458	1
5-3/M82	1.03491	0.496
6-2/M82	N/A	N/A
6-3/M82	0.95168	1
7-1/M82	1.06054	0.598
7-2/M82	1.10045	1
9-3-2/M82	1.18153	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.63526	0.456
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.09636
IL12-4/WTpooled	1.69066	0.737
IL1-4/WTpooled	1.01388	1
WT/WTpooled	1.25977

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	1.32961	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9926	1
DC3000/delta hrp 6h	1.03562	1
DC3000/delta hrp 12h	0.95994	1
DC3000/delta hrp 24h	1.00173	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.93348	0.485
DC3000 delta B/DC3000 delta AB	1.01177	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0228	1
Exp 36h	1.08718	1
Exp 60h	1.00519	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96612	1
Var 0h	1.11937	0.98
Var 12h I row2-row1	1.05283	0.795
Var 12h NI row2-row1	1.09633	0.649
Var 36h I row2-row1	0.98106	1
Var 36h NI row2-row1	1.06556	1
Var 60h I row2-row1	1.0947	1
Var 60h NI row2-row1	1.04749	1
Time course 0hI-0hNI	1.00597	1
Time course 12hI-12hNI	0.87238	0.083
Time course 36hI-36hNI	0.82323	0.057
Time course 60hI-60hNI	0.72127	0.015

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)	1.01916	0.699
transgenic ySAMdc/azygous control (breaker)	0.87752	0.49
transgenic ySAMdc/azygous control (red)	0.89645	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.022	0.287

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82064	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.85945	1
Manapal/WT (break)	0.82431	0.333
Manapal/WT (red)	0.69249	0.184