Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.6.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07512	0.851
27DAP/17DAP	0.79656	0.424
39DAP/27DAP	1.32732	0.277
41DAP/39DAP	0.82913	0.343
42DAP/41DAP	1.05179	1
43DAP/42DAP	1.08805	1
47DAP/43DAP	0.86963	0.55
52DAP/47DAP	1.18463	0.683
57DAP/52DAP	1.00357	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02328	0.872
17DAP/reference	1.07978	0.166
27DAP/reference	1.09005	0.091
39DAP/reference	1.06432	0.277
41DAP/reference	0.98956	0.814
42DAP/reference	0.97686	0.305
43DAP/reference	0.99618	0.861
47DAP/reference	1.00419	1
52DAP/reference	0.90716	0.267
57DAP/reference	0.8675	0.21

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96053	0.578
27DAP/17DAP	1.01093	0.968
39DAP/27DAP	1.08534	0.465
41DAP/39DAP	1.02414	0.88
42DAP/41DAP	0.99548	0.887
43DAP/42DAP	1.06052	0.413
47DAP/43DAP	0.99812	0.997
52DAP/47DAP	1.01996	0.933
57DAP/52DAP	0.91923	0.25
57DAP/7DAP	0.97046	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98127	0.613
17DAP/reference	0.9656	0.338
27DAP/reference	1.02086	0.748
39DAP/reference	0.89773	0.23
41DAP/reference	0.90455	0.194
42DAP/reference	0.94492	0.289
43DAP/reference	1.04108	0.273
47DAP/reference	0.94309	0.293
52DAP/reference	0.97308	0.477
57DAP/reference	0.97372	0.223

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95266	0.532
17DAP/reference	0.92913	0.109
27DAP/reference	1.0734	0.948
39DAP/reference	0.91934	0.281
41DAP/reference	0.87915	0.067
42DAP/reference	0.92193	0.237
43DAP/reference	0.99157	0.721
47DAP/reference	1.02364	0.589
52DAP/reference	0.90386	0.043
57DAP/reference	1.01276	0.868

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85863	0.104
17DAP/reference	0.94649	0.571
27DAP/reference	1.14768	0.325
39DAP/reference	0.95459	0.504
41DAP/reference	0.90205	0.371
42DAP/reference	0.87742	0.287
43DAP/reference	0.88265	0.237
47DAP/reference	0.93203	0.269
52DAP/reference	0.92389	0.368
57DAP/reference	0.63034	0.028

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99946	1
26DAP/20DAP	0.87114	0.512
34DAP/26DAP	1.04257	1
51DAP/34DAP	0.99904	0.96
52DAP/51DAP	0.97336	1
53DAP/52DAP	1.06354	0.502
55DAP/53DAP	1.11389	0.79
57DAP/55DAP	1.05184	0.865
62DAP/57DAP	0.99983	1
68DAP/62DAP	1.02575	1
68DAP/14DAP	1.06518	0.676

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.78572	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.82659	0.336
Mature Green Tomato/Ripe Tomato	1.44299	0.086
Immature Eggplant/Mature Eggplant	1.06587	0.58
Ripe Pepper/Ripe Tomato	2.77036	0.239
Mature Eggplant/Ripe Tomato	1.65002	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.75096
12-2/M82	N/A	N/A
12-4/M82	0.907
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	0.9882
3-2/M82	1.10244	0.84
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.89372
4-3/M82	0.8082
5-3/M82	N/A	N/A
6-2/M82	1.11174
6-3/M82	1.06018
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.00118	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.08227
IL2-6/WTpooled	1.07516	0.584
IL7-5/WTpooled	1.14735
IL7-3/WTpooled	0.93836	1
IL12-4/WTpooled	0.88633	0.71
IL1-4/WTpooled	1.04803	1
WT/WTpooled	0.96936	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	1.22814	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95958	1
DC3000/delta hrp 6h	1.09936	0.95
DC3000/delta hrp 12h	1.03367	1
DC3000/delta hrp 24h	1.14065	0.283

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.03849	0.648
DC3000 delta B/DC3000 delta AB	1.00812	0.748

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04558	1
Exp 36h	1.40381	0.693
Exp 60h	1.30072	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00263	1
Var 0h	0.34896	1
Var 12h I row2-row1	1.09695	0.443
Var 12h NI row2-row1	0.864	0.494
Var 36h I row2-row1	0.86207	0.805
Var 36h NI row2-row1	1.0587	1
Var 60h I row2-row1	1.19382	1
Var 60h NI row2-row1	1.29416	0.904
Time course 0hI-0hNI	1.08328	0.852
Time course 12hI-12hNI	1.00093	1
Time course 36hI-36hNI	0.98983	0.654
Time course 60hI-60hNI	1.13252	0.053

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)	1.05176	0.36
transgenic ySAMdc/azygous control (breaker)	0.8951	0.49
transgenic ySAMdc/azygous control (red)	0.99329	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96716	0.14

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.72252	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91725	1
Manapal/WT (break)	1.10031	1
Manapal/WT (red)	0.86931	0.229