Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.6.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.51447	0.443
27DAP/17DAP	0.94884	0.959
39DAP/27DAP	1.00103	0.733
41DAP/39DAP	1.19579	0.612
42DAP/41DAP	0.95339	1
43DAP/42DAP	0.84836	0.713
47DAP/43DAP	1.11952	0.746
52DAP/47DAP	1.19829	0.572
57DAP/52DAP	1.07541	0.995

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87405	0.083
17DAP/reference	1.0292	0.813
27DAP/reference	1.19508	0.194
39DAP/reference	1.19165	0.434
41DAP/reference	1.11323	0.365
42DAP/reference	0.80608	0.013
43DAP/reference	0.94004	0.448
47DAP/reference	0.9279	0.116
52DAP/reference	1.03692	0.548
57DAP/reference	1.19743	0.052

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97151	0.644
27DAP/17DAP	1.03244	0.915
39DAP/27DAP	1.00677	0.832
41DAP/39DAP	1.03145	0.853
42DAP/41DAP	0.93419	0.511
43DAP/42DAP	0.98498	0.831
47DAP/43DAP	0.97526	0.896
52DAP/47DAP	1.01197	0.965
57DAP/52DAP	0.96285	0.641
57DAP/7DAP	1.01518	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98685	0.613
17DAP/reference	1.18315	0.042
27DAP/reference	1.22782	0.041
39DAP/reference	1.02194	1
41DAP/reference	0.84745	0.284
42DAP/reference	0.86867	0.086
43DAP/reference	1.02279	1
47DAP/reference	0.90793	0.293
52DAP/reference	1.02003	1
57DAP/reference	1.01727	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04515	0.687
17DAP/reference	0.84994	0.008
27DAP/reference	0.94355	0.393
39DAP/reference	1.01173	0.682
41DAP/reference	1.00358	0.615
42DAP/reference	0.82285	0.061
43DAP/reference	0.9931	0.692
47DAP/reference	0.98811	0.59
52DAP/reference	1.23093	0.368
57DAP/reference	1.10231	0.296

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05116	0.575
17DAP/reference	0.83771	0.146
27DAP/reference	1.00923	0.883
39DAP/reference	0.98404	0.643
41DAP/reference	0.92726	0.331
42DAP/reference	0.95195	0.671
43DAP/reference	1.0305	0.923
47DAP/reference	0.89012	0.054
52DAP/reference	1.03526	0.979
57DAP/reference	1.06145	0.878

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20584	0.878
26DAP/20DAP	0.89917	0.512
34DAP/26DAP	1.0097	1
51DAP/34DAP	1.03982	0.854
52DAP/51DAP	1.00475	0.939
53DAP/52DAP	0.90884	0.455
55DAP/53DAP	1.06804	0.855
57DAP/55DAP	1.03195	0.969
62DAP/57DAP	0.33812
68DAP/62DAP	0.75872	0.505
68DAP/14DAP	1.02108	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01066	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.39065	0.047
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.26008

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	N/A	N/A
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	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.66326	0.445
4-3/M82	N/A	N/A
5-3/M82	0.7392
6-2/M82	N/A	N/A
6-3/M82	1.06202	1
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.59868

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.49529
IL2-6/WTpooled	0.92239	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.90834	1
IL12-4/WTpooled	1.01351	1
IL1-4/WTpooled	1.05931
WT/WTpooled	1.01917	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	0.97589	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.87971
DC3000/delta hrp 6h	1.02597	0.95
DC3000/delta hrp 12h	0.66024	1
DC3000/delta hrp 24h	0.89946	0.346

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.17438	0.145
DC3000 delta B/DC3000 delta AB	1.05089	0.503

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	0.97717	1
Var 0h	2.14034	0.594
Var 12h I row2-row1	1.06649	0.242
Var 12h NI row2-row1	0.90371	0.438
Var 36h I row2-row1	0.75279	0.805
Var 36h NI row2-row1	1.02161	1
Var 60h I row2-row1	1.15068	0.562
Var 60h NI row2-row1	1.14099	0.904
Time course 0hI-0hNI	1.07567	0.833
Time course 12hI-12hNI	1.0683	0.599
Time course 36hI-36hNI	0.97218	0.476
Time course 60hI-60hNI	1.10153	0.115

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)	1.19488	0.397
transgenic ySAMdc/azygous control (breaker)	2.19182	0.178
transgenic ySAMdc/azygous control (red)	1.55494	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00026	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06505	0.277

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)	1.09959	1
Manapal/WT (red)	1.62745	0.108