Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.1.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01766	0.964
27DAP/17DAP	0.84795	0.637
39DAP/27DAP	0.86628	0.435
41DAP/39DAP	1.29482	0.185
42DAP/41DAP	0.98014	1
43DAP/42DAP	0.86276	0.665
47DAP/43DAP	0.84377	0.51
52DAP/47DAP	1.36986	0.425
57DAP/52DAP	0.99719	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99816	0.771
17DAP/reference	0.97543	0.448
27DAP/reference	1.00002	0.923
39DAP/reference	0.95458	0.315
41DAP/reference	0.96778	0.434
42DAP/reference	1.03552	0.485
43DAP/reference	0.98715	0.763
47DAP/reference	1.04396	0.318
52DAP/reference	1.16331	0.141
57DAP/reference	0.92921	0.086

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04099	0.63
27DAP/17DAP	1.03981	0.836
39DAP/27DAP	1.04147	0.596
41DAP/39DAP	1.0078	1
42DAP/41DAP	0.99153	0.865
43DAP/42DAP	0.9717	0.558
47DAP/43DAP	0.99327	0.985
52DAP/47DAP	1.0461	0.831
57DAP/52DAP	1.01015	0.997
57DAP/7DAP	1.05654	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97705	0.445
17DAP/reference	0.9843	0.518
27DAP/reference	0.94705	0.035
39DAP/reference	0.9844	0.23
41DAP/reference	0.98921	0.589
42DAP/reference	1.00749	1
43DAP/reference	0.94137	0.03
47DAP/reference	0.86444	0.079
52DAP/reference	0.96365	0.061
57DAP/reference	0.95371	0.074

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02721	0.577
17DAP/reference	1.22559	0.011
27DAP/reference	1.09332	0.26
39DAP/reference	0.89702	0.392
41DAP/reference	0.94586	0.277
42DAP/reference	0.99284	0.655
43DAP/reference	1.12393	0.157
47DAP/reference	0.98054	0.487
52DAP/reference	1.03605	0.938
57DAP/reference	1.03959	0.868

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94178	0.059
17DAP/reference	0.99159	0.763
27DAP/reference	0.96951	0.416
39DAP/reference	0.95043	0.111
41DAP/reference	0.95866	0.209
42DAP/reference	0.96774	0.134
43DAP/reference	1.03244	0.721
47DAP/reference	0.89571	0.231
52DAP/reference	0.93652	0.208
57DAP/reference	0.83678	0.035

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97024	1
26DAP/20DAP	0.96217	1
34DAP/26DAP	0.9364	0.803
51DAP/34DAP	1.22281	0.429
52DAP/51DAP	1.05632	0.588
53DAP/52DAP	0.95502	0.835
55DAP/53DAP	1.00834	1
57DAP/55DAP	0.99479	0.955
62DAP/57DAP	0.91726	0.466
68DAP/62DAP	1.06292	0.866
68DAP/14DAP	1.03406	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98257	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.50181
Mature Green Tomato/Ripe Tomato	0.91807	0.522
Immature Eggplant/Mature Eggplant	0.22572	0.058
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	21.3801	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01841	1
1-1-2/M82	0.94619	1
12-2/M82	0.97473	0.955
12-4/M82	0.96867	0.619
1-3/M82	1.03757	1
2-1-1/M82	1.09602	0.689
2-1/M82	1.19661
2-6/M82	0.93012	1
3-2/M82	1.03097	0.967
4-1-1/M82	0.94948	1
4-1/M82	0.95573	1
4-3-2/M82	0.83785	0.487
4-3/M82	1.00835	1
5-3/M82	0.98221	1
6-2/M82	0.94185
6-3/M82	1.01604	1
7-1/M82	1.09581	1
7-2/M82	1.07107	1
9-3-2/M82	0.886	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.36614
IL2-6/WTpooled	0.80756
IL7-5/WTpooled	2.94787	0.635
IL7-3/WTpooled	0.74682	1
IL12-4/WTpooled	0.96827	1
IL1-4/WTpooled	0.89676	0.699
WT/WTpooled	0.90586	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	1.06783

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04663	0.921
DC3000/delta hrp 6h	0.92576	0.95
DC3000/delta hrp 12h	1.12862
DC3000/delta hrp 24h	0.97859	0.887

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.95772	0.629
DC3000 delta B/DC3000 delta AB	0.91982	0.236

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.68963	1
Exp 36h	0.66586	0.589
Exp 60h	0.73657	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98352	1
Var 0h	2.35846	0.98
Var 12h I row2-row1	1.19162	0.235
Var 12h NI row2-row1	1.18556	1
Var 36h I row2-row1	1.10526	1
Var 36h NI row2-row1	0.89091	0.584
Var 60h I row2-row1	1.28614	0.562
Var 60h NI row2-row1	0.8986	0.932
Time course 0hI-0hNI	1.03832	0.852
Time course 12hI-12hNI	1.00461	1
Time course 36hI-36hNI	0.90779	0.111
Time course 60hI-60hNI	0.86466	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)	0.99523	0.931
transgenic ySAMdc/azygous control (breaker)	1.66184	0.248
transgenic ySAMdc/azygous control (red)	1.34043	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00937	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85658	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.29158	0.086
Manapal/WT (break)	1.38768	0.381
Manapal/WT (red)	1.04684	1