Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.14.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98833	0.847
27DAP/17DAP	1.2335	0.809
39DAP/27DAP	1.04584	0.985
41DAP/39DAP	0.91881	0.655
42DAP/41DAP	1.0212	1
43DAP/42DAP	0.97012	0.909
47DAP/43DAP	1.04445	0.926
52DAP/47DAP	0.92947	0.777
57DAP/52DAP	0.8345	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93266	0.308
17DAP/reference	1.07215	0.061
27DAP/reference	1.0543	0.205
39DAP/reference	1.02715	0.57
41DAP/reference	0.96043	0.542
42DAP/reference	0.95364	0.12
43DAP/reference	0.98525	0.745
47DAP/reference	0.98922	0.503
52DAP/reference	0.84126	0.099
57DAP/reference	1.06712	0.643

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91517	0.542
27DAP/17DAP	0.94027	0.782
39DAP/27DAP	1.08406	0.565
41DAP/39DAP	N/A	N/A
42DAP/41DAP	0.98543	0.87
43DAP/42DAP	1.11363	0.112
47DAP/43DAP	1.04425	0.892
52DAP/47DAP	1.06737
57DAP/52DAP	0.88606	0.603
57DAP/7DAP	0.86436	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10303	0.351
17DAP/reference	0.97628	0.253
27DAP/reference	1.05781	0.16
39DAP/reference	0.97524	0.264
41DAP/reference	1.11312	0.083
42DAP/reference	1.17081	0.037
43DAP/reference	1.4503	0.006
47DAP/reference	1.07641	0.595
52DAP/reference	1.3224	0.011
57DAP/reference	1.21796	0.1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92289	0.145
17DAP/reference	1.02744	0.628
27DAP/reference	0.85947	0.119
39DAP/reference	0.8723	0.099
41DAP/reference	0.99972	0.649
42DAP/reference	0.91042	0.121
43DAP/reference	1.13946	0.09
47DAP/reference	1.05142	0.282
52DAP/reference	0.9224	0.034
57DAP/reference	1.0587	0.688

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93833	0.127
17DAP/reference	0.97122	0.389
27DAP/reference	1.17896	0.056
39DAP/reference	1.12924	0.104
41DAP/reference	0.98785	0.682
42DAP/reference	1.08495	0.459
43DAP/reference	0.98306	0.639
47DAP/reference	1.01952	0.73
52DAP/reference	1.02096	0.941
57DAP/reference	0.87933	0.07

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03165	0.878
26DAP/20DAP	0.93626	1
34DAP/26DAP	0.98927	0.998
51DAP/34DAP	0.97279	0.791
52DAP/51DAP	0.97288	1
53DAP/52DAP	1.19426	0.428
55DAP/53DAP	0.95119	0.478
57DAP/55DAP	1.44638	0.728
62DAP/57DAP	1.03633	1
68DAP/62DAP	0.82699	0.722
68DAP/14DAP	1.04068	0.615

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05386	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.07542	1
Mature Green Tomato/Ripe Tomato	0.84791	0.347
Immature Eggplant/Mature Eggplant	0.96931	0.912
Ripe Pepper/Ripe Tomato	0.47969	1
Mature Eggplant/Ripe Tomato	0.75367	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98049	0.961
1-1-2/M82	0.97448	1
12-2/M82	0.96594	0.955
12-4/M82	0.9955	1
1-3/M82	0.94744	0.378
2-1-1/M82	0.92838	0.683
2-1/M82	1.27058	1
2-6/M82	0.91659	1
3-2/M82	0.96282	1
4-1-1/M82	0.93683	1
4-1/M82	1.01194	1
4-3-2/M82	0.85767	0.698
4-3/M82	0.9421	0.72
5-3/M82	0.99131	1
6-2/M82	0.9994	1
6-3/M82	1.02151	1
7-1/M82	0.93138	1
7-2/M82	0.98199	1
9-3-2/M82	1.0335	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.02507	1
IL2-6/WTpooled	0.99666	1
IL7-5/WTpooled	1.09861	1
IL7-3/WTpooled	1.13061	1
IL12-4/WTpooled	1.17988	0.516
IL1-4/WTpooled	0.99319	1
WT/WTpooled	1.0162	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	2.19591	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96526	1
DC3000/delta hrp 6h	0.98754	0.95
DC3000/delta hrp 12h	0.99337	1
DC3000/delta hrp 24h	1.02231	0.76

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.10516	0.384
DC3000 delta B/DC3000 delta AB	1.10758	0.437

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.3132	0.254
Exp 36h	1.80238	0.489
Exp 60h	1.85227	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99335	1
Var 0h	1.11993	0.936
Var 12h I row2-row1	1.04449	0.692
Var 12h NI row2-row1	0.89003	0.438
Var 36h I row2-row1	1.13243	0.908
Var 36h NI row2-row1	1.09059	1
Var 60h I row2-row1	0.96913	0.952
Var 60h NI row2-row1	1.22243	0.904
Time course 0hI-0hNI	1.12767	0.852
Time course 12hI-12hNI	0.98806	0.956
Time course 36hI-36hNI	1.22551	0.166
Time course 60hI-60hNI	1.49015	0.01

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)	0.93368	0.662
transgenic ySAMdc/azygous control (breaker)	0.73034	0.137
transgenic ySAMdc/azygous control (red)	1.11413	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97592	0.095

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.67657	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88682	1
Manapal/WT (break)	0.74817	0.299
Manapal/WT (red)	1.09434	1