Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.9.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18282	1
27DAP/17DAP	1.30596	0.86
39DAP/27DAP	1.36122	0.667
41DAP/39DAP	0.60352	0.145
42DAP/41DAP	0.88269	1
43DAP/42DAP	1.29654	0.948
47DAP/43DAP	1.61231	0.584
52DAP/47DAP	1.03276	0.971
57DAP/52DAP	0.83076	0.839

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.41348	0.059
17DAP/reference	1.07738	0.399
27DAP/reference	1.26367	0.013
39DAP/reference	0.93071	0.342
41DAP/reference	1.12531	0.421
42DAP/reference	1.49817	0.033
43DAP/reference	1.13675	0.102
47DAP/reference	1.43993	0.003
52DAP/reference	1.42139	0.045
57DAP/reference	0.99084	0.61

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82775
27DAP/17DAP	1.33519	0.817
39DAP/27DAP	1.04606	1
41DAP/39DAP	0.95579
42DAP/41DAP	0.9333	0.803
43DAP/42DAP	1.95532
47DAP/43DAP	0.76363	0.319
52DAP/47DAP	1.36173	0.367
57DAP/52DAP	N/A	N/A
57DAP/7DAP	0.87268	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9445	0.157
17DAP/reference	N/A	N/A
27DAP/reference	N/A	N/A
39DAP/reference	1.58385
41DAP/reference	2.08202
42DAP/reference	1.32087
43DAP/reference	N/A	N/A
47DAP/reference	0.66312	0.079
52DAP/reference	N/A	N/A
57DAP/reference	N/A	N/A

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36501
17DAP/reference	1.56088	0.216
27DAP/reference	1.21826	0.67
39DAP/reference	1.0496	0.401
41DAP/reference	1.29469	0.194
42DAP/reference	0.99319	0.534
43DAP/reference	1.45182	0.149
47DAP/reference	1.61273	0.048
52DAP/reference	1.01581	1
57DAP/reference	1.03889	0.908

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	N/A	N/A
17DAP/reference	N/A	N/A
27DAP/reference	N/A	N/A
39DAP/reference	N/A	N/A
41DAP/reference	N/A	N/A
42DAP/reference	2.68812
43DAP/reference	1.25625	0.198
47DAP/reference	N/A	N/A
52DAP/reference	1.39283
57DAP/reference	1.16128	0.132

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92282	1
26DAP/20DAP	0.57731
34DAP/26DAP	N/A	N/A
51DAP/34DAP	1.25509	0.535
52DAP/51DAP	0.63242
53DAP/52DAP	1.13143	0.944
55DAP/53DAP	1.36898	0.964
57DAP/55DAP	0.96103	0.867
62DAP/57DAP	1.39648
68DAP/62DAP	1.74246
68DAP/14DAP	1.8772

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05859	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.70138	0.234

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	0.9937	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.91247
3-2/M82	N/A	N/A
4-1-1/M82	0.72446
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	N/A	N/A
6-2/M82	1.1652
6-3/M82	N/A	N/A
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	1.11836	0.365
IL2-6/WTpooled	1.03776	0.441
IL7-5/WTpooled	0.97069	1
IL7-3/WTpooled	1.09299	1
IL12-4/WTpooled	0.93741	1
IL1-4/WTpooled	1.03314	0.426
WT/WTpooled	1.08141	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.19433	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.97375	0.933
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.17591	0.185

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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)	N/A	N/A
Manapal/WT (red)	0.95374	0.607