Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-8.1.20.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03286	0.961
27DAP/17DAP	1.33161	0.766
39DAP/27DAP	0.81256	0.474
41DAP/39DAP	1.30353	0.323
42DAP/41DAP	0.95408	1
43DAP/42DAP	1.05376	1
47DAP/43DAP	1.04998	1
52DAP/47DAP	0.90343	0.677
57DAP/52DAP	1.14854	0.839

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16583	0.007
17DAP/reference	1.09353	0.22
27DAP/reference	1.08403	0.264
39DAP/reference	0.92831	0.638
41DAP/reference	1.10021	0.203
42DAP/reference	0.92696	0.111
43DAP/reference	0.98243	0.82
47DAP/reference	0.98241	0.445
52DAP/reference	0.72131	0.128
57DAP/reference	0.69919	0.049

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8076	0.289
27DAP/17DAP	1.12763	0.593
39DAP/27DAP	1.12178	0.245
41DAP/39DAP	0.97902	0.973
42DAP/41DAP	1.08417	0.763
43DAP/42DAP	0.96339	0.709
47DAP/43DAP	1.13386	0.63
52DAP/47DAP	0.85371	0.6
57DAP/52DAP	1.04773	1
57DAP/7DAP	1.69337	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34393	0.057
17DAP/reference	1.48443	0.012
27DAP/reference	1.38768	0.008
39DAP/reference	1.05885	0.538
41DAP/reference	1.10155	0.28
42DAP/reference	1.09843	0.132
43DAP/reference	1.10978	0.457
47DAP/reference	0.99186	0.671
52DAP/reference	1.21119	0.011
57DAP/reference	1.21432	0.04

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03315	0.66
17DAP/reference	0.95127	0.317
27DAP/reference	0.79593	0.032
39DAP/reference	0.91817	0.339
41DAP/reference	0.80756	0.085
42DAP/reference	0.93123	0.392
43DAP/reference	0.95706	0.507
47DAP/reference	0.81303	0.071
52DAP/reference	0.9999	0.761
57DAP/reference	0.95624	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02642	1
17DAP/reference	0.95756	0.537
27DAP/reference	1.08008	0.057
39DAP/reference	1.08633	0.33
41DAP/reference	0.97427	0.56
42DAP/reference	0.97814	0.671
43DAP/reference	0.89385	0.319
47DAP/reference	0.92393	0.286
52DAP/reference	1.01113	1
57DAP/reference	0.75672	0.074

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98788	1
26DAP/20DAP	1.34615	0.281
34DAP/26DAP	1.17355	1
51DAP/34DAP	0.74146	0.067
52DAP/51DAP	0.95721	1
53DAP/52DAP	0.73073	0.226
55DAP/53DAP	0.94479	0.725
57DAP/55DAP	0.87276	0.638
62DAP/57DAP	0.82424	0.681
68DAP/62DAP	1.16965	0.754
68DAP/14DAP	0.74436	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.2964	0.184

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.11263	0.69
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.38339	N/A
Mature Eggplant/Ripe Tomato	0.89546	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06388	N/A
1-1-2/M82	1.06493	1
12-2/M82	N/A	N/A
12-4/M82	0.94972	1
1-3/M82	N/A	N/A
2-1-1/M82	0.57131	N/A
2-1/M82	N/A	N/A
2-6/M82	0.86925	1
3-2/M82	1.00559	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.05937	0.853
4-3-2/M82	0.93157	1
4-3/M82	0.94426	1
5-3/M82	0.97369	N/A
6-2/M82	0.95368	N/A
6-3/M82	1.01206	1
7-1/M82	N/A	N/A
7-2/M82	0.94426	1
9-3-2/M82	1.06637	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.96413	1
IL2-6/WTpooled	1.40859	0.395
IL7-5/WTpooled	0.83567	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.14624	1
IL1-4/WTpooled	1.24147	0.364
WT/WTpooled	1.01755	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	1.46541	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.82784	1
DC3000/delta hrp 6h	1.13207	1
DC3000/delta hrp 12h	1.25635	1
DC3000/delta hrp 24h	0.90115	0.412

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	8.93191	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8196	1
Exp 36h	0.88657	0.82
Exp 60h	0.73169	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99044	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.3161	0.406
Var 12h NI row2-row1	1.10834	1
Var 36h I row2-row1	1.23964	0.908
Var 36h NI row2-row1	0.831	0.706
Var 60h I row2-row1	0.94306	0.374
Var 60h NI row2-row1	1.15242	0.5
Time course 0hI-0hNI	0.923	0.339
Time course 12hI-12hNI	1.25559	0.197
Time course 36hI-36hNI	1.00834	0.908
Time course 60hI-60hNI	1.52981	0.008

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)	1.11275	0.261
transgenic ySAMdc/azygous control (breaker)	1.07445	1
transgenic ySAMdc/azygous control (red)	1.05738	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00136	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06615	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.78863	1
Manapal/WT (break)	0.75421	0.333
Manapal/WT (red)	0.80252	0.315