Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.18.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25272	0.348
27DAP/17DAP	1.52733	0.57
39DAP/27DAP	1.07372	1
41DAP/39DAP	1.01266	0.545
42DAP/41DAP	1.00939	1
43DAP/42DAP	0.94331	0.888
47DAP/43DAP	0.94107	0.773
52DAP/47DAP	1.53284	0.667
57DAP/52DAP	0.96477	0.94

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90194	0.211
17DAP/reference	0.99099	0.819
27DAP/reference	0.96427	0.538
39DAP/reference	0.9778	0.691
41DAP/reference	1.02065	0.759
42DAP/reference	0.81382	0.002
43DAP/reference	0.89376	0.093
47DAP/reference	0.89513	0.035
52DAP/reference	0.92197	0.237
57DAP/reference	0.91483	0.138

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14124	0.1
27DAP/17DAP	1.14676	0.754
39DAP/27DAP	1.11385	0.505
41DAP/39DAP	1.11081	0.849
42DAP/41DAP	1.10815	0.999
43DAP/42DAP	1.31245	0.086
47DAP/43DAP	0.89946	0.29
52DAP/47DAP	1.14033	0.57
57DAP/52DAP	1.19227	0.444
57DAP/7DAP	0.96594

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93132	0.296
17DAP/reference	1.36812	0.007
27DAP/reference	1.11136	0.453
39DAP/reference	1.13722	0.157
41DAP/reference	1.1894	0.165
42DAP/reference	1.43688	0.014
43DAP/reference	1.38053	0.039
47DAP/reference	1.13921	0.514
52DAP/reference	1.11418	0.13
57DAP/reference	1.37131	0.029

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79479	0.028
17DAP/reference	0.84297	0.056
27DAP/reference	0.76283	0.056
39DAP/reference	0.88782	0.11
41DAP/reference	0.91697	0.199
42DAP/reference	0.84847	0.039
43DAP/reference	1.01538	0.831
47DAP/reference	0.905	0.051
52DAP/reference	0.87938	0.078
57DAP/reference	0.85237	0.021

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08796	0.644
17DAP/reference	1.11313	0.627
27DAP/reference	1.29825	0.017
39DAP/reference	1.13772	0.163
41DAP/reference	1.02958	0.939
42DAP/reference	0.96453	0.552
43DAP/reference	0.82397	0.143
47DAP/reference	0.92551	0.199
52DAP/reference	1.23043	0.526
57DAP/reference	0.83815	0.097

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1824	0.85
26DAP/20DAP	1.23222	0.555
34DAP/26DAP	0.75165	0.322
51DAP/34DAP	1.31261	0.281
52DAP/51DAP	1.14659	0.51
53DAP/52DAP	0.95982	0.854
55DAP/53DAP	1.11614	0.798
57DAP/55DAP	0.92233	0.828
62DAP/57DAP	1.02054	1
68DAP/62DAP	0.89154	0.429
68DAP/14DAP	0.97524	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.65518	0.029

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.62042	0.207
Mature Green Tomato/Ripe Tomato	0.59443	0.132
Immature Eggplant/Mature Eggplant	1.26658	0.321
Ripe Pepper/Ripe Tomato	0.64422	0.224
Mature Eggplant/Ripe Tomato	0.46056	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.44424
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.13129	1
1-3/M82	0.94296
2-1-1/M82	0.79611	0.465
2-1/M82	1.26273
2-6/M82	N/A	N/A
3-2/M82	1.13191
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	1.09566	1
5-3/M82	0.96062	1
6-2/M82	1.17308
6-3/M82	0.99699	1
7-1/M82	1.05618
7-2/M82	1.11332
9-3-2/M82	0.64667

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.44667	0.277
IL2-6/WTpooled	0.95311	1
IL7-5/WTpooled	0.72281	1
IL7-3/WTpooled	1.3072	1
IL12-4/WTpooled	0.94574	1
IL1-4/WTpooled	1.09383	1
WT/WTpooled	1.01072	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	0.90551	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04538	0.875
DC3000/delta hrp 6h	0.82152	0.95
DC3000/delta hrp 12h	1.23224	1
DC3000/delta hrp 24h	1.20488	0.221

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	0.87454	1
Exp 36h	1.47796	1
Exp 60h	0.96791	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0136	1
Var 0h	0.76043	0.457
Var 12h I row2-row1	1.2271	0.254
Var 12h NI row2-row1	1.48637	1
Var 36h I row2-row1	0.63154	1
Var 36h NI row2-row1	0.95023	0.791
Var 60h I row2-row1	0.8247	0.832
Var 60h NI row2-row1	0.83048	0.904
Time course 0hI-0hNI	0.92234	0.516
Time course 12hI-12hNI	0.9034	0.551
Time course 36hI-36hNI	0.95114	0.269
Time course 60hI-60hNI	1.29959	0.096

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)	1.17122	0.541
transgenic ySAMdc/azygous control (breaker)	0.99401	1
transgenic ySAMdc/azygous control (red)	1.18412	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98207	0.459

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07404	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.75841	1
Manapal/WT (break)	0.96666	1
Manapal/WT (red)	0.87096	0.424