Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.12.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17328	0.739
27DAP/17DAP	2.74656	0.627
39DAP/27DAP	1.07527	0.782
41DAP/39DAP	1.32783	0.753
42DAP/41DAP	0.82967	1
43DAP/42DAP	1.16575	0.875
47DAP/43DAP	0.67513	0.248
52DAP/47DAP	0.9881	0.957
57DAP/52DAP	1.0453	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00856	1
17DAP/reference	0.96156	0.536
27DAP/reference	1.09371	0.306
39DAP/reference	0.95983	0.37
41DAP/reference	0.99196	0.814
42DAP/reference	1.03869	0.963
43DAP/reference	1.01298	0.982
47DAP/reference	0.97549	0.392
52DAP/reference	1.01302	1
57DAP/reference	1.00277	0.767

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.45792	0.278
27DAP/17DAP	1.09046	0.699
39DAP/27DAP	1.01228	1
41DAP/39DAP	1.23309	0.294
42DAP/41DAP	1.03108	0.904
43DAP/42DAP	0.99868	0.991
47DAP/43DAP	1.10071	0.724
52DAP/47DAP	0.80064	0.217
57DAP/52DAP	1.05799	0.818
57DAP/7DAP	1.1106	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82478	0.078
17DAP/reference	0.80667	0.025
27DAP/reference	0.74967	0.01
39DAP/reference	0.77699	0.016
41DAP/reference	0.73426	0.017
42DAP/reference	0.78324	0.011
43DAP/reference	0.72139	0.012
47DAP/reference	0.77091	0.101
52DAP/reference	0.65237	0.012
57DAP/reference	0.74934	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11046	0.719
17DAP/reference	1.13737	0.789
27DAP/reference	0.96241	0.452
39DAP/reference	1.06908	0.824
41DAP/reference	0.97954	0.505
42DAP/reference	0.95272	0.237
43DAP/reference	1.16345	0.182
47DAP/reference	0.82421	0.035
52DAP/reference	1.18959	0.279
57DAP/reference	1.1335	0.462

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84103	0.063
17DAP/reference	0.97906	0.696
27DAP/reference	0.86794	0.218
39DAP/reference	0.71714	0.008
41DAP/reference	0.80706	0.023
42DAP/reference	0.84259	0.071
43DAP/reference	0.84288	0.056
47DAP/reference	0.99945	0.708
52DAP/reference	0.90528	0.415
57DAP/reference	1.07474	0.892

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00783	1
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.24834	0.819
51DAP/34DAP	2.03327	0.365
52DAP/51DAP	0.9509	1
53DAP/52DAP	1.17422	0.458
55DAP/53DAP	1.11746	0.798
57DAP/55DAP	1.26751	0.626
62DAP/57DAP	0.80182	0.466
68DAP/62DAP	0.7594	0.195
68DAP/14DAP	0.95961	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.06707	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.15361	0.417
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.97844	0.05
Ripe Pepper/Ripe Tomato	2.23583
Mature Eggplant/Ripe Tomato	1.70831	1

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	N/A	N/A
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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
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	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.89325	1
IL7-5/WTpooled	1.38184
IL7-3/WTpooled	1.07268	1
IL12-4/WTpooled	1.06298	0.737
IL1-4/WTpooled	1.10646	1
WT/WTpooled	0.9938	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	1.12923	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95398	1
DC3000/delta hrp 6h	1.15721	1
DC3000/delta hrp 12h	1.01505	1
DC3000/delta hrp 24h	0.83716	0.085

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	1.64056	0.081

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.88353	1
Exp 36h	1.21629	1
Exp 60h	0.94485	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02518	1
Var 0h	1.171	0.421
Var 12h I row2-row1	1.10398	0.324
Var 12h NI row2-row1	1.18846	0.649
Var 36h I row2-row1	0.82798	1
Var 36h NI row2-row1	0.98087	0.791
Var 60h I row2-row1	0.72942	0.293
Var 60h NI row2-row1	1.01911	1
Time course 0hI-0hNI	1.07237	0.852
Time course 12hI-12hNI	1.10639	0.175
Time course 36hI-36hNI	1.37907	0.008
Time course 60hI-60hNI	1.73513	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)	0.92515	0.289
transgenic ySAMdc/azygous control (breaker)	0.88088	0.49
transgenic ySAMdc/azygous control (red)	1.03307	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99373	0.712

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.83813	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.29085	0.083
Manapal/WT (break)	1.28833	0.183
Manapal/WT (red)	0.91082	0.607