Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.18.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99741	0.847
27DAP/17DAP	0.71109	0.359
39DAP/27DAP	1.63715	0.384
41DAP/39DAP	1.2392	0.522
42DAP/41DAP	0.97937	1
43DAP/42DAP	0.89547	0.801
47DAP/43DAP	1.07213	0.859
52DAP/47DAP	0.74908	0.466
57DAP/52DAP	1.50742	0.817

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01444	0.928
17DAP/reference	1.02771	0.843
27DAP/reference	0.99282	0.779
39DAP/reference	1.12113	0.474
41DAP/reference	1.22302	0.145
42DAP/reference	0.98983	0.455
43DAP/reference	1.02123	1
47DAP/reference	0.92689	0.161
52DAP/reference	0.98282	0.564
57DAP/reference	0.93213	0.059

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9289	0.613
27DAP/17DAP	1.46293	0.533
39DAP/27DAP	0.8751	0.444
41DAP/39DAP	0.99264	0.986
42DAP/41DAP	0.8077	0.206
43DAP/42DAP	1.01258	0.699
47DAP/43DAP	1.14341	0.756
52DAP/47DAP	0.88969	0.603
57DAP/52DAP	1.24535	0.594
57DAP/7DAP	1.12358	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79521	0.157
17DAP/reference	0.96367	0.389
27DAP/reference	1.0562	0.804
39DAP/reference	0.92498	0.264
41DAP/reference	1.31913	0.021
42DAP/reference	1.26939	0.174
43DAP/reference	0.98551	0.58
47DAP/reference	1.11053	0.537
52DAP/reference	1.16856	0.286
57DAP/reference	1.09252	0.571

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10512	0.612
17DAP/reference	1.05064	0.739
27DAP/reference	1.01671	1
39DAP/reference	0.88085	0.214
41DAP/reference	0.94764	0.348
42DAP/reference	1.12418	0.294
43DAP/reference	1.42018	0.239
47DAP/reference	1.13126	0.037
52DAP/reference	1.06777	0.223
57DAP/reference	1.0005	0.68

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80409	0.036
17DAP/reference	1.13291	0.343
27DAP/reference	1.02424	1
39DAP/reference	1.10448	0.146
41DAP/reference	1.1104	0.439
42DAP/reference	1.15264	0.347
43DAP/reference	0.89895	0.188
47DAP/reference	1.1026	0.339
52DAP/reference	0.92963	0.303
57DAP/reference	0.9651	0.475

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.17786	0.966
26DAP/20DAP	1.02118	1
34DAP/26DAP	1.55909	0.819
51DAP/34DAP	1.09419	0.949
52DAP/51DAP	1.62297	0.387
53DAP/52DAP	1.43438	0.24
55DAP/53DAP	1.14203	0.355
57DAP/55DAP	1.19003	0.348
62DAP/57DAP	1.2727	0.8
68DAP/62DAP	1.00636	0.885
68DAP/14DAP	1.31414

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.63458	0.527

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.09938
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.03325	1
1-3/M82	0.59878
2-1-1/M82	0.90747	1
2-1/M82	N/A	N/A
2-6/M82	0.87352
3-2/M82	0.87016
4-1-1/M82	0.52392
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.00363	1
6-2/M82	N/A	N/A
6-3/M82	1.15474
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.00853	1
IL2-6/WTpooled	0.83291	0.473
IL7-5/WTpooled	1.21576	0.792
IL7-3/WTpooled	0.94614	0.298
IL12-4/WTpooled	0.92018	0.71
IL1-4/WTpooled	1.12428	1
WT/WTpooled	0.97874	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	0.43375

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06687	0.921
DC3000/delta hrp 6h	0.50036	0.706
DC3000/delta hrp 12h	0.81427	1
DC3000/delta hrp 24h	1.30049	0.37

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92116	1
Exp 36h	0.85059	0.82
Exp 60h	0.80444	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9409
Var 0h	1.15922	0.259
Var 12h I row2-row1	1.31089	0.204
Var 12h NI row2-row1	1.12515	1
Var 36h I row2-row1	0.80298
Var 36h NI row2-row1	1.89057
Var 60h I row2-row1	1.02237	1
Var 60h NI row2-row1	0.94498
Time course 0hI-0hNI	1.0213	0.867
Time course 12hI-12hNI	1.10492	0.754
Time course 36hI-36hNI	1.23287	0.881
Time course 60hI-60hNI	0.77619	0.319

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)	0.95296	0.314
transgenic ySAMdc/azygous control (breaker)	0.95769	0.49
transgenic ySAMdc/azygous control (red)	0.97861	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02362	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.89924	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.71171	0.299
Manapal/WT (red)	0.88147	0.607