Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.12.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02328	1
27DAP/17DAP	1.25677	0.86
39DAP/27DAP	0.9626	0.682
41DAP/39DAP	1.09801	0.326
42DAP/41DAP	1.06671	0.903
43DAP/42DAP	0.91941	0.709
47DAP/43DAP	0.82652	0.429
52DAP/47DAP	1.10574	0.819
57DAP/52DAP	0.97169	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00121	1
17DAP/reference	0.93936	0.18
27DAP/reference	0.97279	0.417
39DAP/reference	0.94975	0.261
41DAP/reference	0.94531	0.201
42DAP/reference	0.96989	0.188
43DAP/reference	0.95954	0.429
47DAP/reference	0.99955	0.764
52DAP/reference	1.01493	1
57DAP/reference	1.12127	0.04

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97862	0.629
27DAP/17DAP	0.99381	0.887
39DAP/27DAP	1.01267	0.779
41DAP/39DAP	1.03485	0.69
42DAP/41DAP	0.957	0.674
43DAP/42DAP	0.98347	0.831
47DAP/43DAP	0.99484	0.985
52DAP/47DAP	0.99516	0.962
57DAP/52DAP	1.03526	0.8
57DAP/7DAP	1.03047	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9611	0.224
17DAP/reference	0.96266	0.124
27DAP/reference	0.9541	0.055
39DAP/reference	0.97987	0.264
41DAP/reference	0.94817	0.043
42DAP/reference	1.02153	0.405
43DAP/reference	0.97641	0.403
47DAP/reference	1.00425	1
52DAP/reference	1.01035	0.684
57DAP/reference	1.01682	0.746

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97873	0.592
17DAP/reference	0.96213	0.41
27DAP/reference	0.97666	0.438
39DAP/reference	0.94872	0.071
41DAP/reference	0.94422	0.237
42DAP/reference	1.03466	0.843
43DAP/reference	1.00015	0.831
47DAP/reference	0.98883	0.559
52DAP/reference	0.96716	0.131
57DAP/reference	0.95072	0.144

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97817	0.422
17DAP/reference	0.93812	0.167
27DAP/reference	0.90365	0.035
39DAP/reference	0.96455	0.043
41DAP/reference	0.97217	0.167
42DAP/reference	0.94229	0.108
43DAP/reference	0.99168	0.712
47DAP/reference	0.93087	0.183
52DAP/reference	0.95674	0.472
57DAP/reference	0.99245	0.704

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98203	1
26DAP/20DAP	1.02048	1
34DAP/26DAP	0.99512	1
51DAP/34DAP	1.06144	0.613
52DAP/51DAP	0.96407	1
53DAP/52DAP	1.01908	0.901
55DAP/53DAP	0.96732	0.604
57DAP/55DAP	0.90706	0.583
62DAP/57DAP	1.03493	0.569
68DAP/62DAP	1.49589	0.729
68DAP/14DAP	1.04004	0.802

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98062	0.422

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.63744	0.159
Mature Green Tomato/Ripe Tomato	0.78976	0.06
Immature Eggplant/Mature Eggplant	1.56255	0.05
Ripe Pepper/Ripe Tomato	1.19898	1
Mature Eggplant/Ripe Tomato	0.62139	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04765	1
1-1-2/M82	0.96151	1
12-2/M82	0.9743	0.955
12-4/M82	0.98465	1
1-3/M82	0.96947	1
2-1-1/M82	1.06542	0.764
2-1/M82	1.12131	1
2-6/M82	1.00056	1
3-2/M82	0.95628	1
4-1-1/M82	1.01209	1
4-1/M82	0.84751	1
4-3-2/M82	0.90511	0.487
4-3/M82	0.99891	1
5-3/M82	0.97322	0.642
6-2/M82	0.9827	1
6-3/M82	0.99937	1
7-1/M82	0.99451	1
7-2/M82	1.03603	1
9-3-2/M82	0.95364	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.0066	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.25022	1
IL12-4/WTpooled	0.94547	1
IL1-4/WTpooled	1.01414	1
WT/WTpooled	0.94835	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	1.24171	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97366	1
DC3000/delta hrp 6h	1.01585	0.95
DC3000/delta hrp 12h	0.9007	1
DC3000/delta hrp 24h	0.97347	0.945

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07984	0.333
DC3000 delta B/DC3000 delta AB	1.00198	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.30757	1
Exp 60h	1.65881	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98884	1
Var 0h	1.17743	0.98
Var 12h I row2-row1	1.28908	0.379
Var 12h NI row2-row1	0.98403	0.906
Var 36h I row2-row1	0.97395	1
Var 36h NI row2-row1	0.96839	0.706
Var 60h I row2-row1	1.0933	1
Var 60h NI row2-row1	1.08623	0.904
Time course 0hI-0hNI	1.06891	0.833
Time course 12hI-12hNI	1.09611	0.526
Time course 36hI-36hNI	1.09773	0.101
Time course 60hI-60hNI	1.47123	0.009

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)	0.99806	1
transgenic ySAMdc/azygous control (breaker)	1.08287	1
transgenic ySAMdc/azygous control (red)	1.01589	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99614	0.694

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.19779	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96156	1
Manapal/WT (break)	0.92101	1
Manapal/WT (red)	0.7982	0.274