Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.15.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87394	0.496
27DAP/17DAP	1.17245	0.872
39DAP/27DAP	1.14312	0.882
41DAP/39DAP	0.99687	0.958
42DAP/41DAP	1.10858	0.873
43DAP/42DAP	1.38055	0.854
47DAP/43DAP	0.93288	0.744
52DAP/47DAP	0.90846	0.752
57DAP/52DAP	1.1221	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79399	0.041
17DAP/reference	1.0851	0.229
27DAP/reference	1.0281	0.82
39DAP/reference	1.01051	0.816
41DAP/reference	1.00226	1
42DAP/reference	0.85259	0.003
43DAP/reference	0.98412	0.763
47DAP/reference	0.91541	0.035
52DAP/reference	1.01773	0.749
57DAP/reference	0.89146	0.176

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86504	0.245
27DAP/17DAP	0.99562	0.943
39DAP/27DAP	1.08021	0.685
41DAP/39DAP	1.0262	1
42DAP/41DAP	1.02532	1
43DAP/42DAP	1.04988	0.478
47DAP/43DAP	0.92253	0.75
52DAP/47DAP	0.95718	0.837
57DAP/52DAP	1.06129	0.806
57DAP/7DAP	1.17258	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97202	0.361
17DAP/reference	0.99321	0.599
27DAP/reference	1.30554	0.197
39DAP/reference	1.18298	0.036
41DAP/reference	1.04058	1
42DAP/reference	1.2409	0.046
43DAP/reference	1.1342	0.511
47DAP/reference	1.04381	0.514
52DAP/reference	1.07039	0.328
57DAP/reference	1.20058	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94779	0.503
17DAP/reference	0.79405	0.014
27DAP/reference	0.79396	0.048
39DAP/reference	0.84574	0.087
41DAP/reference	0.90089	0.127
42DAP/reference	0.78499	0.073
43DAP/reference	0.86908	0.152
47DAP/reference	0.91882	0.123
52DAP/reference	0.94803	0.22
57DAP/reference	0.91729	0.125

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94315	0.362
17DAP/reference	0.96412	0.592
27DAP/reference	0.84548	0.085
39DAP/reference	0.98195	0.591
41DAP/reference	1.07114	0.502
42DAP/reference	0.92591	0.445
43DAP/reference	0.91316	0.365
47DAP/reference	1.03887	0.704
52DAP/reference	0.99162	0.8
57DAP/reference	0.80429	0.118

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95363	1
26DAP/20DAP	0.78922	0.512
34DAP/26DAP	1.0273	1
51DAP/34DAP	0.84415	0.402
52DAP/51DAP	1.18527	0.758
53DAP/52DAP	1.18638	0.868
55DAP/53DAP	1.01137	0.925
57DAP/55DAP	1.02598	0.845
62DAP/57DAP	0.98096	0.994
68DAP/62DAP	0.82855	0.109
68DAP/14DAP	0.62033	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.47876	0.172

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.64735	0.036
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.08149	1
Mature Eggplant/Ripe Tomato	0.37564	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.85425	0.651
1-1-2/M82	0.96041	1
12-2/M82	0.81985	0.862
12-4/M82	0.8115	0.319
1-3/M82	1.8032	0.479
2-1-1/M82	1.015	1
2-1/M82	0.83186	0.519
2-6/M82	0.99764	1
3-2/M82	1.33098	0.717
4-1-1/M82	1.60968	0.977
4-1/M82	N/A	N/A
4-3-2/M82	1.78714
4-3/M82	1.27717	0.268
5-3/M82	1.16433	0.572
6-2/M82	1.66252
6-3/M82	0.87138	1
7-1/M82	1.16923	0.992
7-2/M82	1.29216	0.385
9-3-2/M82	1.39104

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.53913	0.321
IL2-6/WTpooled	0.81775	0.473
IL7-5/WTpooled	0.65927	1
IL7-3/WTpooled	1.04537	1
IL12-4/WTpooled	1.13393	0.538
IL1-4/WTpooled	0.80804	0.435
WT/WTpooled	0.96789	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	0.86164	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04991	0.921
DC3000/delta hrp 6h	1.0057	0.95
DC3000/delta hrp 12h	0.92538
DC3000/delta hrp 24h	1.62795	0.056

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	1.36441

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.30401	1
Exp 36h	0.85758	0.749
Exp 60h	1.34349	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.07102	1
Var 0h	0.63516	1
Var 12h I row2-row1	0.86765	0.418
Var 12h NI row2-row1	1.16783	0.649
Var 36h I row2-row1	1.28788	0.305
Var 36h NI row2-row1	0.70647	0.329
Var 60h I row2-row1	1.00678	1
Var 60h NI row2-row1	0.9877	1
Time course 0hI-0hNI	1.11749	0.574
Time course 12hI-12hNI	0.94156	0.519
Time course 36hI-36hNI	1.55251	0.01
Time course 60hI-60hNI	3.27458	0.008

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)	0.86134	0.299
transgenic ySAMdc/azygous control (breaker)	0.8162	0.142
transgenic ySAMdc/azygous control (red)	1.0121	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.17096	0.041

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.95074	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.78521	0.172
Manapal/WT (break)	0.80101	0.333
Manapal/WT (red)	0.89896	0.242