Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.13.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98492	0.847
27DAP/17DAP	1.08777	0.881
39DAP/27DAP	0.74234	0.376
41DAP/39DAP	1.01445	0.949
42DAP/41DAP	1.41417	0.361
43DAP/42DAP	0.86019	0.827
47DAP/43DAP	1.11357	0.842
52DAP/47DAP	1.06676	0.933
57DAP/52DAP	1.16691	0.839

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82055	0.029
17DAP/reference	1.06311	0.148
27DAP/reference	0.98507	0.711
39DAP/reference	0.94222	0.381
41DAP/reference	0.93049	0.341
42DAP/reference	0.83877	0.02
43DAP/reference	0.99299	0.84
47DAP/reference	0.93807	0.207
52DAP/reference	1.09765	0.607
57DAP/reference	1.05944	0.379

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89773	0.299
27DAP/17DAP	0.90559	0.418
39DAP/27DAP	1.16288	0.129
41DAP/39DAP	0.83683	0.347
42DAP/41DAP	1.22719	0.067
43DAP/42DAP	1.36228	0.017
47DAP/43DAP	0.99349	0.977
52DAP/47DAP	0.7991	0.119
57DAP/52DAP	0.92608	0.434
57DAP/7DAP	1.09047	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03712	0.83
17DAP/reference	1.00852	1
27DAP/reference	0.96487	0.348
39DAP/reference	1.07535	0.237
41DAP/reference	1.01864	1
42DAP/reference	0.87548	0.13
43DAP/reference	1.05108	0.83
47DAP/reference	0.86159	0.222
52DAP/reference	1.00365	0.802
57DAP/reference	0.99322	0.629

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96191	0.688
17DAP/reference	0.79009	0.245
27DAP/reference	0.79303	0.048
39DAP/reference	0.86354	0.087
41DAP/reference	0.99136	0.57
42DAP/reference	0.86394	0.121
43DAP/reference	0.87116	0.135
47DAP/reference	0.88808	0.083
52DAP/reference	0.84	0.012
57DAP/reference	0.80587	0.116

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98396	0.607
17DAP/reference	0.95835	0.488
27DAP/reference	0.98148	0.566
39DAP/reference	0.97577	0.393
41DAP/reference	0.92963	0.293
42DAP/reference	1.02689	0.893
43DAP/reference	1.0033	0.858
47DAP/reference	0.91353	0.348
52DAP/reference	0.81306	0.16
57DAP/reference	1.01017	0.779

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06913	0.966
26DAP/20DAP	0.8441	0.512
34DAP/26DAP	1.07998	0.542
51DAP/34DAP	1.16346	0.281
52DAP/51DAP	0.84912	1
53DAP/52DAP	1.15756	0.47
55DAP/53DAP	1.05576	0.813
57DAP/55DAP	0.86566	0.56
62DAP/57DAP	1.00186	1
68DAP/62DAP	1.40878	0.155
68DAP/14DAP	1.17394	0.714

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.8116	0.017

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.62096	0.212
Mature Green Tomato/Ripe Tomato	1.79455	0.478
Immature Eggplant/Mature Eggplant	1.35186	0.063
Ripe Pepper/Ripe Tomato	0.61538	0.224
Mature Eggplant/Ripe Tomato	0.55393	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.2497	0.877
1-1-2/M82	1.03592	1
12-2/M82	1.02774	1
12-4/M82	1.02274	1
1-3/M82	1.04735	1
2-1-1/M82	0.80166	0.92
2-1/M82	1.01408	1
2-6/M82	0.83975	1
3-2/M82	1.14618
4-1-1/M82	1.03604	1
4-1/M82	0.54154	1
4-3-2/M82	0.82078	0.698
4-3/M82	1.2912	1
5-3/M82	1.06611	0.572
6-2/M82	1.42633	1
6-3/M82	1.13369	1
7-1/M82	1.2519	0.925
7-2/M82	1.04784	1
9-3-2/M82	0.76037	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.19261	0.277
IL2-6/WTpooled	1.05699	0.46
IL7-5/WTpooled	1.13355	0.792
IL7-3/WTpooled	0.81073	0.418
IL12-4/WTpooled	1.01145	1
IL1-4/WTpooled	1.03968	1
WT/WTpooled	1.01468	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	0.97685	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.096	0.921
DC3000/delta hrp 6h	1.13357	1
DC3000/delta hrp 12h	1.13496	1
DC3000/delta hrp 24h	0.8805	0.194

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.77749
DC3000 delta B/DC3000 delta AB	1.03388	0.714

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.82887	0.245
Exp 36h	1.54769	0.326
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98776	1
Var 0h	0.33062	0.206
Var 12h I row2-row1	1.21483	0.198
Var 12h NI row2-row1	1.12072	1
Var 36h I row2-row1	0.96023	1
Var 36h NI row2-row1	1.34374	0.482
Var 60h I row2-row1	1.16955	1
Var 60h NI row2-row1	1.59635	0.701
Time course 0hI-0hNI	1.01468	0.867
Time course 12hI-12hNI	0.99631	1
Time course 36hI-36hNI	0.91576	0.206
Time course 60hI-60hNI	0.7499	0.026

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)	0.92198	0.309
transgenic ySAMdc/azygous control (breaker)	1.02199	1
transgenic ySAMdc/azygous control (red)	1.12706	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99083	0.609

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.25642	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.31323	0.084
Manapal/WT (break)	0.87546	0.333
Manapal/WT (red)	1.15217	1