Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.1.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93564	0.627
27DAP/17DAP	1.11603	0.91
39DAP/27DAP	1.16986	0.87
41DAP/39DAP	0.87445	0.518
42DAP/41DAP	1.27694	0.556
43DAP/42DAP	0.98491	0.93
47DAP/43DAP	1.1293	0.842
52DAP/47DAP	0.85089	0.609
57DAP/52DAP	1.22613	0.87

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.947	0.326
17DAP/reference	0.96746	0.536
27DAP/reference	1.05089	0.696
39DAP/reference	1.02429	0.8
41DAP/reference	1.00263	1
42DAP/reference	1.26388	0.084
43DAP/reference	1.04793	0.73
47DAP/reference	1.28062	0.001
52DAP/reference	1.14995	0.43
57DAP/reference	0.79087	0.022

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13937	0.076
27DAP/17DAP	1.15254	0.37
39DAP/27DAP	1.15771	0.403
41DAP/39DAP	0.99337	0.997
42DAP/41DAP	1.07787	0.8
43DAP/42DAP	0.89184	0.157
47DAP/43DAP	1.05239	0.88
52DAP/47DAP	0.99953	0.93
57DAP/52DAP	1.12637	0.372
57DAP/7DAP	1.05463	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04248	0.564
17DAP/reference	0.95445	0.22
27DAP/reference	1.24385	0.049
39DAP/reference	1.00948	1
41DAP/reference	0.9368	0.298
42DAP/reference	0.95326	0.355
43DAP/reference	1.08598	0.07
47DAP/reference	1.109	0.549
52DAP/reference	1.05246	0.886
57DAP/reference	1.23605	0.061

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17067	0.404
17DAP/reference	1.16826	0.197
27DAP/reference	1.18446	0.029
39DAP/reference	1.18281	0.02
41DAP/reference	1.0203	1
42DAP/reference	1.13648	0.351
43DAP/reference	1.08255	1
47DAP/reference	1.1084	0.388
52DAP/reference	0.93964	0.203
57DAP/reference	0.95053	0.278

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08327	0.481
17DAP/reference	0.89815	0.281
27DAP/reference	0.88288	0.055
39DAP/reference	1.0266	0.691
41DAP/reference	1.02536	0.754
42DAP/reference	1.08388	0.356
43DAP/reference	1.03654	0.79
47DAP/reference	0.98747	0.574
52DAP/reference	1.49442	0.15
57DAP/reference	1.3246	0.059

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12892	0.966
26DAP/20DAP	0.93892	1
34DAP/26DAP	1.16289	0.819
51DAP/34DAP	1.19003	0.854
52DAP/51DAP	1.41932	0.111
53DAP/52DAP	0.82821	0.25
55DAP/53DAP	1.48719	0.21
57DAP/55DAP	0.86983	0.521
62DAP/57DAP	0.54796	0.003
68DAP/62DAP	1.22195	0.597
68DAP/14DAP	1.11808	0.279

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.42897	0.14

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.97304	0.745
Mature Green Tomato/Ripe Tomato	0.89212	0.446
Immature Eggplant/Mature Eggplant	1.02323	1
Ripe Pepper/Ripe Tomato	0.915	1
Mature Eggplant/Ripe Tomato	0.1078	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95042	0.907
1-1-2/M82	0.98737	1
12-2/M82	0.93364	0.955
12-4/M82	0.6856	0.33
1-3/M82	1.60552	0.26
2-1-1/M82	0.81949
2-1/M82	0.89086
2-6/M82	0.97778	1
3-2/M82	1.06716
4-1-1/M82	1.20513	1
4-1/M82	0.74663
4-3-2/M82	1.88376
4-3/M82	1.31461	1
5-3/M82	1.01199	1
6-2/M82	0.97141
6-3/M82	1.09466	1
7-1/M82	0.79523
7-2/M82	1.79032	0.385
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.17239	1
IL2-6/WTpooled	0.64959	0.473
IL7-5/WTpooled	0.95021
IL7-3/WTpooled	0.83763	0.418
IL12-4/WTpooled	0.89698	1
IL1-4/WTpooled	0.90084	0.834
WT/WTpooled	0.92183	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	1.20901	0.193

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00916	0.921
DC3000/delta hrp 6h	0.96886	0.95
DC3000/delta hrp 12h	1.09027	1
DC3000/delta hrp 24h	1.11698	0.347

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.28011	0.049
DC3000 delta B/DC3000 delta AB	1.15459	0.335

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01786	1
Exp 36h	1.07404	1
Exp 60h	1.08533	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99152	1
Var 0h	1.10424	0.594
Var 12h I row2-row1	1.00995	1
Var 12h NI row2-row1	1.20577	0.281
Var 36h I row2-row1	1.16311	0.908
Var 36h NI row2-row1	0.93462	0.645
Var 60h I row2-row1	0.94404	0.952
Var 60h NI row2-row1	0.89313	0.63
Time course 0hI-0hNI	0.87563	0.134
Time course 12hI-12hNI	0.9972	1
Time course 36hI-36hNI	1.32272	0.031
Time course 60hI-60hNI	1.09968	0.187

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)	1.03541	0.482
transgenic ySAMdc/azygous control (breaker)	1.33096	0.248
transgenic ySAMdc/azygous control (red)	1.15976	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08133	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.0118	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84506	1
Manapal/WT (break)	1.00384	1
Manapal/WT (red)	1.44456	0.164