Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.15.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88343	0.419
27DAP/17DAP	1.28024	0.801
39DAP/27DAP	0.99306	0.82
41DAP/39DAP	1.0421	0.859
42DAP/41DAP	0.94054	1
43DAP/42DAP	1.26597	0.453
47DAP/43DAP	1.1317	0.702
52DAP/47DAP	1.04843	0.964
57DAP/52DAP	1.24448	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94878	0.167
17DAP/reference	1.00918	0.787
27DAP/reference	0.89858	0.018
39DAP/reference	0.9374	0.284
41DAP/reference	0.93114	0.267
42DAP/reference	0.98723	0.44
43DAP/reference	0.99711	0.904
47DAP/reference	1.00499	1
52DAP/reference	0.97722	0.504
57DAP/reference	1.10682	0.159

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02214	0.99
27DAP/17DAP	1.03242	0.969
39DAP/27DAP	0.89617	0.556
41DAP/39DAP	1.01059	1
42DAP/41DAP	1.01415	0.884
43DAP/42DAP	0.80045	0.034
47DAP/43DAP	0.92158	0.606
52DAP/47DAP	1.05212	0.945
57DAP/52DAP	0.84656	0.317
57DAP/7DAP	0.85978	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12639	0.286
17DAP/reference	1.26701	0.297
27DAP/reference	1.15659	0.107
39DAP/reference	1.14412	0.086
41DAP/reference	0.9766	0.565
42DAP/reference	1.12072	0.686
43DAP/reference	1.08898	0.167
47DAP/reference	1.01956	0.996
52DAP/reference	0.90027	0.115
57DAP/reference	0.99089	0.589

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00017	0.93
17DAP/reference	0.98099	0.576
27DAP/reference	1.07593	0.618
39DAP/reference	1.16521	0.106
41DAP/reference	0.88641	0.071
42DAP/reference	0.99752	0.723
43DAP/reference	0.93997	0.344
47DAP/reference	1.05701	0.232
52DAP/reference	1.04933	0.471
57DAP/reference	1.15677	0.08

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05891	0.631
17DAP/reference	0.94367	0.389
27DAP/reference	1.03827	0.777
39DAP/reference	1.11902	0.296
41DAP/reference	0.94641	0.512
42DAP/reference	0.94211	0.445
43DAP/reference	0.98494	0.639
47DAP/reference	0.99844	0.708
52DAP/reference	0.95877	0.573
57DAP/reference	0.93966	0.315

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91243	0.611
26DAP/20DAP	1.18205	0.654
34DAP/26DAP	0.84419	0.627
51DAP/34DAP	1.09138	0.677
52DAP/51DAP	0.77231	0.151
53DAP/52DAP	1.10934	0.319
55DAP/53DAP	1.09289	0.798
57DAP/55DAP	1.32634	0.178
62DAP/57DAP	1.01193	1
68DAP/62DAP	1.18948	0.431
68DAP/14DAP	0.85954	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.20412	0.627

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.78117	0.282
Mature Green Tomato/Ripe Tomato	1.08396	1
Immature Eggplant/Mature Eggplant	0.72348	0.125
Ripe Pepper/Ripe Tomato	0.61311	1
Mature Eggplant/Ripe Tomato	0.6907	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94642	0.944
1-1-2/M82	1.0362	1
12-2/M82	1.22806	0.61
12-4/M82	0.88334	0.619
1-3/M82	0.8288	0.501
2-1-1/M82	1.07922	1
2-1/M82	1.18249	1
2-6/M82	0.98114	1
3-2/M82	0.77847
4-1-1/M82	0.92533	1
4-1/M82	1.17721
4-3-2/M82	0.96096
4-3/M82	0.90272	1
5-3/M82	1.03583	1
6-2/M82	0.84639
6-3/M82	N/A	N/A
7-1/M82	0.91587	0.803
7-2/M82	0.93978	0.881
9-3-2/M82	1.06153

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.25092	0.419
IL7-5/WTpooled	0.87279
IL7-3/WTpooled	0.89966	1
IL12-4/WTpooled	1.18194	0.737
IL1-4/WTpooled	1.14972	1
WT/WTpooled	1.03886	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	1.16086	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01439	1
DC3000/delta hrp 6h	0.93727	0.95
DC3000/delta hrp 12h	1.12855	1
DC3000/delta hrp 24h	1.28107	0.158

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	0.99164	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90902	1
Exp 36h	1.21632	1
Exp 60h	1.04448	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01752	1
Var 0h	1.16808	0.936
Var 12h I row2-row1	1.0041	1
Var 12h NI row2-row1	0.89387	0.82
Var 36h I row2-row1	1.95563	0.742
Var 36h NI row2-row1	0.67041	0.478
Var 60h I row2-row1	1.04143	0.562
Var 60h NI row2-row1	0.64191	0.351
Time course 0hI-0hNI	1.03736	1
Time course 12hI-12hNI	1.07573	0.668
Time course 36hI-36hNI	1.2998	0.056
Time course 60hI-60hNI	1.57661	0.06

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)	0.88384	0.286
transgenic ySAMdc/azygous control (breaker)	1.56421	0.248
transgenic ySAMdc/azygous control (red)	1.09253	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94417	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.84542	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8761	1
Manapal/WT (break)	1.0993	1
Manapal/WT (red)	1.20896	0.413