Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.7.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04269	0.893
27DAP/17DAP	1.16444	0.873
39DAP/27DAP	1.05991	0.992
41DAP/39DAP	0.96771	0.868
42DAP/41DAP	0.90201	1
43DAP/42DAP	1.02088	1
47DAP/43DAP	1.27192	0.746
52DAP/47DAP	0.66249	0.174
57DAP/52DAP	0.96415	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19293	0.045
17DAP/reference	0.81984	0.012
27DAP/reference	0.81726	0.106
39DAP/reference	0.76637	0.02
41DAP/reference	0.78265	0.021
42DAP/reference	1.0648	0.706
43DAP/reference	0.86964	0.063
47DAP/reference	1.03704	0.728
52DAP/reference	1.0151	0.654
57DAP/reference	1.08557	0.332

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13652	0.305
27DAP/17DAP	0.9831	0.919
39DAP/27DAP	0.90383	0.316
41DAP/39DAP	1.10904	0.773
42DAP/41DAP	0.96031	0.695
43DAP/42DAP	0.86119	0.165
47DAP/43DAP	1.07062	0.857
52DAP/47DAP	0.88387	0.188
57DAP/52DAP	1.00612	0.875
57DAP/7DAP	0.4418	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07261	1
17DAP/reference	1.07263	0.627
27DAP/reference	1.22558	0.453
39DAP/reference	1.20915	0.09
41DAP/reference	1.02698	0.848
42DAP/reference	0.99292	0.641
43DAP/reference	1.00421	1
47DAP/reference	1.04421	0.822
52DAP/reference	1.01704	1
57DAP/reference	1.10714	0.268

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10775	0.35
17DAP/reference	1.35744	0.011
27DAP/reference	1.40024	0.06
39DAP/reference	1.08741	1
41DAP/reference	1.19369	0.548
42DAP/reference	0.93568	0.392
43DAP/reference	0.74619	0.277
47DAP/reference	0.88414	0.159
52DAP/reference	0.76193	0.01
57DAP/reference	0.84836	0.144

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15972	0.218
17DAP/reference	1.29052	0.071
27DAP/reference	0.96647	0.516
39DAP/reference	1.03738	0.733
41DAP/reference	1.00634	0.826
42DAP/reference	1.02538	1
43DAP/reference	1.06857	0.79
47DAP/reference	0.78935	0.008
52DAP/reference	0.98268	0.781
57DAP/reference	1.11403	0.648

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.6987	0.101
26DAP/20DAP	1.70336	0.099
34DAP/26DAP	1.13029	0.819
51DAP/34DAP	0.86685	0.385
52DAP/51DAP	1.09071	0.704
53DAP/52DAP	0.66567	0.05
55DAP/53DAP	0.54352	0.02
57DAP/55DAP	1.55809	0.231
62DAP/57DAP	N/A	N/A
68DAP/62DAP	0.79584
68DAP/14DAP	1.57868	0.785

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.35981	0.052

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.08162	0.417
Mature Green Tomato/Ripe Tomato	1.00769
Immature Eggplant/Mature Eggplant	0.95351	0.72
Ripe Pepper/Ripe Tomato	1.22829	1
Mature Eggplant/Ripe Tomato	2.01151	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92591	0.944
1-1-2/M82	1.05694
12-2/M82	N/A	N/A
12-4/M82	1.21402	1
1-3/M82	1.84434	0.479
2-1-1/M82	1.64651	0.764
2-1/M82	N/A	N/A
2-6/M82	1.02478
3-2/M82	1.09922
4-1-1/M82	0.80821
4-1/M82	N/A	N/A
4-3-2/M82	1.01419	1
4-3/M82	0.99998	1
5-3/M82	1.17659
6-2/M82	N/A	N/A
6-3/M82	0.86069	1
7-1/M82	1.05875	1
7-2/M82	N/A	N/A
9-3-2/M82	1.21795

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.96982	1
IL2-6/WTpooled	1.09564	0.584
IL7-5/WTpooled	1.92153	1
IL7-3/WTpooled	1.15929	1
IL12-4/WTpooled	0.87126	1
IL1-4/WTpooled	1.32473	1
WT/WTpooled	0.89027	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	1.12587	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93929	1
DC3000/delta hrp 6h	1.04008	1
DC3000/delta hrp 12h	1.46098	1
DC3000/delta hrp 24h	0.69102	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.2925	0.515
DC3000 delta B/DC3000 delta AB	1.17673	0.249

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91473	1
Exp 36h	0.77017	0.589
Exp 60h	0.62092	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	0.8716	1
Var 0h	1.2905	0.274
Var 12h I row2-row1	0.9198	0.856
Var 12h NI row2-row1	1.25891	0.649
Var 36h I row2-row1	1.1434	0.601
Var 36h NI row2-row1	0.89066	0.645
Var 60h I row2-row1	0.99734	1
Var 60h NI row2-row1	0.80143	0.306
Time course 0hI-0hNI	0.82361	0.121
Time course 12hI-12hNI	1.02123	0.827
Time course 36hI-36hNI	1.17282	0.28
Time course 60hI-60hNI	1.17796	0.16

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)	1.13082	0.305
transgenic ySAMdc/azygous control (breaker)	1.71018	0.178
transgenic ySAMdc/azygous control (red)	1.115	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90452	0.371

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.72675	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10316	0.14
Manapal/WT (break)	1.49936	0.183
Manapal/WT (red)	2.8465	0.142