Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.15.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16221	0.683
27DAP/17DAP	1.85495	0.708
39DAP/27DAP	1.00352	0.749
41DAP/39DAP	1.03625	0.929
42DAP/41DAP	1.39832	0.488
43DAP/42DAP	1.1954	0.823
47DAP/43DAP	0.44	0.05
52DAP/47DAP	1.48803	0.418
57DAP/52DAP	1.03271	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96143	0.455
17DAP/reference	0.96584	0.503
27DAP/reference	1.02183	0.721
39DAP/reference	0.89048	0.064
41DAP/reference	0.92322	0.267
42DAP/reference	0.94452	0.091
43DAP/reference	0.87963	0.047
47DAP/reference	0.9149	0.106
52DAP/reference	0.90821	0.128
57DAP/reference	1.02697	0.901

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.57211	0.072
27DAP/17DAP	1.02007	0.957
39DAP/27DAP	1.32347
41DAP/39DAP	2.53681	0.006
42DAP/41DAP	0.70266	0.098
43DAP/42DAP	1.54663	0.056
47DAP/43DAP	1.4495	0.406
52DAP/47DAP	3.44219	0.048
57DAP/52DAP	5.94154	0.03
57DAP/7DAP	3.5146	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05111	0.761
17DAP/reference	0.87306	0.094
27DAP/reference	0.78779	0.031
39DAP/reference	0.96435	0.411
41DAP/reference	0.95141	0.298
42DAP/reference	0.91119	0.151
43DAP/reference	1.28794	0.148
47DAP/reference	0.8587	0.168
52DAP/reference	0.94122	0.363
57DAP/reference	1.40652	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03646	0.915
17DAP/reference	1.10255	0.437
27DAP/reference	0.90003	0.129
39DAP/reference	0.96696	0.455
41DAP/reference	1.15671	0.344
42DAP/reference	0.86958	0.037
43DAP/reference	1.06436	0.997
47DAP/reference	0.92652	0.083
52DAP/reference	0.97338	0.407
57DAP/reference	1.03816	0.868

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97687	0.526
17DAP/reference	0.95604	0.601
27DAP/reference	0.91059	0.119
39DAP/reference	0.91678	0.179
41DAP/reference	0.85237	0.148
42DAP/reference	0.86337	0.108
43DAP/reference	0.89802	0.197
47DAP/reference	0.97537	0.494
52DAP/reference	0.98438	0.704
57DAP/reference	0.8374	0.084

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.25161	0.786
26DAP/20DAP	1.06769	1
34DAP/26DAP	0.79722	0.35
51DAP/34DAP	1.38094	0.387
52DAP/51DAP	1.26074	0.176
53DAP/52DAP	0.97935	0.891
55DAP/53DAP	0.77505	0.404
57DAP/55DAP	1.16284	1
62DAP/57DAP	2.20773	0.057
68DAP/62DAP	0.88906	0.641
68DAP/14DAP	1.27957	0.676

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.94752	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.33397	0.047
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.24794
Mature Eggplant/Ripe Tomato	0.34374	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.66472
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.13153	1
1-3/M82	2.86623
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	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	5.17001
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	N/A	N/A
IL2-6/WTpooled	1.0262	0.659
IL7-5/WTpooled	0.72975
IL7-3/WTpooled	1.10052	1
IL12-4/WTpooled	1.12353	0.839
IL1-4/WTpooled	0.69565	0.834
WT/WTpooled	1.25464	0.686

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	1.16215	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.17105	0.921
DC3000/delta hrp 6h	1.03018	1
DC3000/delta hrp 12h	1.32849	1
DC3000/delta hrp 24h	1.22412	0.035

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	0.73565	1
Exp 36h	0.95611	0.943
Exp 60h	0.67157	0.253

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99061	1
Var 0h	0.92742	1
Var 12h I row2-row1	1.22815	0.692
Var 12h NI row2-row1	1.16562	1
Var 36h I row2-row1	0.80906	1
Var 36h NI row2-row1	0.71912	0.329
Var 60h I row2-row1	1.07527	0.543
Var 60h NI row2-row1	1.51916	0.904
Time course 0hI-0hNI	0.97332	0.892
Time course 12hI-12hNI	0.87758	0.416
Time course 36hI-36hNI	0.74831	0.055
Time course 60hI-60hNI	0.76002	0.007

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)	2.22568	0.397
transgenic ySAMdc/azygous control (breaker)	0.54138	0.251
transgenic ySAMdc/azygous control (red)	1.39466	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01623	0.556

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.68841	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97411	1
Manapal/WT (break)	0.70125	1
Manapal/WT (red)	0.67672	0.181