Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.3.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97894	0.811
27DAP/17DAP	0.94578	0.923
39DAP/27DAP	0.85371	0.564
41DAP/39DAP	0.9554	0.73
42DAP/41DAP	0.89791	0.774
43DAP/42DAP	0.92078	0.858
47DAP/43DAP	1.17018	0.776
52DAP/47DAP	0.83915	0.574
57DAP/52DAP	1.06841	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11269	0.29
17DAP/reference	1.1468	0.032
27DAP/reference	1.01165	0.863
39DAP/reference	1.17784	0.197
41DAP/reference	1.1178	0.312
42DAP/reference	0.89378	0.176
43DAP/reference	1.17706
47DAP/reference	0.88226	0.071
52DAP/reference	0.81867	0.115
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.73572	0.048
27DAP/17DAP	0.63138	0.1
39DAP/27DAP	0.77112	0.044
41DAP/39DAP	1.26448	0.176
42DAP/41DAP	1.01033	0.91
43DAP/42DAP	0.78137	0.038
47DAP/43DAP	0.98963	0.93
52DAP/47DAP	1.00344	0.959
57DAP/52DAP	0.95386	0.605
57DAP/7DAP	1.45413	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.44284	0.051
17DAP/reference	1.31409	0.035
27DAP/reference	1.37978	0.013
39DAP/reference	1.49141	0.056
41DAP/reference	1.33838	0.057
42DAP/reference	0.97366	0.506
43DAP/reference	1.01302	0.764
47DAP/reference	1.10204	0.395
52DAP/reference	1.04649	1
57DAP/reference	1.01174	0.831

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23384	0.087
17DAP/reference	1.14092	0.223
27DAP/reference	1.15502	0.075
39DAP/reference	1.18917	0.011
41DAP/reference	1.1146	0.262
42DAP/reference	0.99273	0.655
43DAP/reference	1.17729	0.176
47DAP/reference	1.04168	0.943
52DAP/reference	1.01671	1
57DAP/reference	1.23383	0.019

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34264	0.07
17DAP/reference	1.02914	0.833
27DAP/reference	1.07568	0.596
39DAP/reference	1.13729	0.466
41DAP/reference	1.05095	1
42DAP/reference	1.26523	0.226
43DAP/reference	0.97197	0.568
47DAP/reference	1.07212	0.792
52DAP/reference	1.47229	0.05
57DAP/reference	1.27503	0.095

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12508	0.966
26DAP/20DAP	1.26575	0.347
34DAP/26DAP	0.82327	0.161
51DAP/34DAP	1.44636	0.054
52DAP/51DAP	0.80801	0.151
53DAP/52DAP	1.17134	0.125
55DAP/53DAP	0.87594	0.445
57DAP/55DAP	1.1524	0.915
62DAP/57DAP	1.86157	0.445
68DAP/62DAP	1.02727	1
68DAP/14DAP	1.00734	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.36171	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.51678	0.097
Mature Green Tomato/Ripe Tomato	3.19084	0.015
Immature Eggplant/Mature Eggplant	1.9483	0.051
Ripe Pepper/Ripe Tomato	3.46883	0.256
Mature Eggplant/Ripe Tomato	0.8111	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.25668	0.877
1-1-2/M82	0.80161
12-2/M82	1.11423
12-4/M82	0.84176	0.358
1-3/M82	1.16139	0.277
2-1-1/M82	0.8496	0.465
2-1/M82	N/A	N/A
2-6/M82	0.93843	1
3-2/M82	0.80148
4-1-1/M82	0.93877	1
4-1/M82	1.11483
4-3-2/M82	0.9529
4-3/M82	0.73585	0.551
5-3/M82	0.93349	1
6-2/M82	1.046	1
6-3/M82	1.09864	1
7-1/M82	0.99747	1
7-2/M82	1.04784	1
9-3-2/M82	0.68511

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.08048	0.493
IL2-6/WTpooled	0.98324	1
IL7-5/WTpooled	1.17541	0.65
IL7-3/WTpooled	1.00792	1
IL12-4/WTpooled	0.8933	0.71
IL1-4/WTpooled	1.04734	1
WT/WTpooled	0.85304	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	0.8999	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.85837	0.941
DC3000/delta hrp 6h	0.96354	0.95
DC3000/delta hrp 12h	1.00732	1
DC3000/delta hrp 24h	1.03693	0.797

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.82309	0.03
DC3000 delta B/DC3000 delta AB	0.56955	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.7022	0.328
Exp 36h	0.72984	0.406
Exp 60h	0.61783	0.253

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99841	1
Var 0h	0.52583	0.339
Var 12h I row2-row1	0.71857	0.357
Var 12h NI row2-row1	1.26627	0.649
Var 36h I row2-row1	0.87022	0.575
Var 36h NI row2-row1	1.37798	1
Var 60h I row2-row1	0.79627	0.832
Var 60h NI row2-row1	1.0294	1
Time course 0hI-0hNI	0.88658	0.323
Time course 12hI-12hNI	0.98131	0.874
Time course 36hI-36hNI	0.83645	0.023
Time course 60hI-60hNI	0.24816	0.005

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)	1.10666	0.654
transgenic ySAMdc/azygous control (breaker)	0.87468	0.251
transgenic ySAMdc/azygous control (red)	1.03457	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.11294	0.036

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.02082	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.47559	0.086
Manapal/WT (break)	1.16137	1
Manapal/WT (red)	1.67941	0.164