Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.16.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2589	0.403
27DAP/17DAP	1.10568	0.872
39DAP/27DAP	0.97629	0.733
41DAP/39DAP	1.20454	0.591
42DAP/41DAP	1.04161	0.992
43DAP/42DAP	1.08905	1
47DAP/43DAP	1.02519	1
52DAP/47DAP	1.048	0.898
57DAP/52DAP	0.90656	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89895	0.205
17DAP/reference	1.28699	0.038
27DAP/reference	1.04533	0.831
39DAP/reference	1.15847	0.108
41DAP/reference	1.1033	0.393
42DAP/reference	0.86705	0.04
43DAP/reference	1.08096	0.287
47DAP/reference	0.95603	0.137
52DAP/reference	0.90651	0.195
57DAP/reference	0.87943	0.176

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.73845	0.271
27DAP/17DAP	1.1102	0.754
39DAP/27DAP	1.15881	0.611
41DAP/39DAP	0.95842	0.945
42DAP/41DAP	1.07354	0.913
43DAP/42DAP	0.9289	0.709
47DAP/43DAP	1.06003	0.897
52DAP/47DAP	0.97242	0.884
57DAP/52DAP	1.07997	1
57DAP/7DAP	0.6862

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0573	0.793
17DAP/reference	1.14772	0.134
27DAP/reference	1.20379	0.018
39DAP/reference	1.21348	0.069
41DAP/reference	1.45787	0.097
42DAP/reference	1.3114	0.014
43DAP/reference	1.23052	0.083
47DAP/reference	1.02635	1
52DAP/reference	1.12551	0.062
57DAP/reference	1.23106	0.117

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05291	0.687
17DAP/reference	1.14816	0.904
27DAP/reference	0.8521	0.181
39DAP/reference	0.7722	0.06
41DAP/reference	0.75874	0.045
42DAP/reference	0.80053	0.073
43DAP/reference	0.91867	0.285
47DAP/reference	0.8882	0.069
52DAP/reference	0.88487	0.06
57DAP/reference	1.0691	0.786

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09029	0.23
17DAP/reference	1.03957	0.784
27DAP/reference	1.17412	0.041
39DAP/reference	1.10516	0.048
41DAP/reference	1.10018	0.57
42DAP/reference	1.02086	0.943
43DAP/reference	1.03467	0.767
47DAP/reference	0.99107	0.61
52DAP/reference	1.22281	0.301
57DAP/reference	0.76211	0.107

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12274	0.966
26DAP/20DAP	0.98667	1
34DAP/26DAP	1.55164	0.819
51DAP/34DAP	N/A	N/A
52DAP/51DAP	0.90424	1
53DAP/52DAP	1.86893	0.413
55DAP/53DAP	1.09738	0.994
57DAP/55DAP	1.0228	0.955
62DAP/57DAP	1.01488	1
68DAP/62DAP	0.78606	0.505
68DAP/14DAP	0.79194	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.8169	0.034

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.84992	0.132
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.05846
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.79513
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	N/A	N/A
3-2/M82	1.03734
4-1-1/M82	N/A	N/A
4-1/M82	0.63108
4-3-2/M82	1.02352	1
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.04751
7-2/M82	N/A	N/A
9-3-2/M82	0.99858	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.17797	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.86027	0.418
IL12-4/WTpooled	1.1529	0.785
IL1-4/WTpooled	1.11902
WT/WTpooled	1.07929	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	1.50463	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	0.32602
DC3000/delta hrp 12h	1.01485	1
DC3000/delta hrp 24h	0.93831	0.794

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91626	1
Exp 36h	N/A	N/A
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	0.99393	1
Var 0h	0.97672	1
Var 12h I row2-row1	0.86495	0.627
Var 12h NI row2-row1	0.96828
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	0.84344
Var 60h I row2-row1	1.07168	1
Var 60h NI row2-row1	1.81721	0.904
Time course 0hI-0hNI	1.10435	0.852
Time course 12hI-12hNI	1.24199	0.82
Time course 36hI-36hNI	1.08065	0.975
Time course 60hI-60hNI	0.62769	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)	0.82294	0.286
transgenic ySAMdc/azygous control (breaker)	1.33222	0.248
transgenic ySAMdc/azygous control (red)	1.06134	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99158	0.673

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9505	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.85432	1
Manapal/WT (break)	0.8496	0.333
Manapal/WT (red)	0.71416	0.229