Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-5.4.18.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10176	0.722
27DAP/17DAP	0.92817	N/A
39DAP/27DAP	0.57796	0.564
41DAP/39DAP	1.41314	0.822
42DAP/41DAP	1.16746	0.941
43DAP/42DAP	1.16463	0.937
47DAP/43DAP	0.90194	0.645
52DAP/47DAP	1.56156	0.545
57DAP/52DAP	0.78531	0.74

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83834	0.118
17DAP/reference	0.88665	0.025
27DAP/reference	0.94431	0.359
39DAP/reference	0.89699	0.032
41DAP/reference	0.80341	0.011
42DAP/reference	0.89315	0.022
43DAP/reference	1.05322	0.495
47DAP/reference	0.88973	0.021
52DAP/reference	1.00602	0.73
57DAP/reference	0.99761	0.767

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88301	0.27
27DAP/17DAP	1.06059	0.74
39DAP/27DAP	1.13662	0.512
41DAP/39DAP	0.94696	0.822
42DAP/41DAP	0.91412	0.461
43DAP/42DAP	1.23778	0.112
47DAP/43DAP	1.0241	0.969
52DAP/47DAP	0.85098	0.179
57DAP/52DAP	0.99523	0.845
57DAP/7DAP	1.15552	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16136	0.16
17DAP/reference	1.34264	0.03
27DAP/reference	1.20912	0.197
39DAP/reference	1.50142	0.016
41DAP/reference	1.11935	0.46
42DAP/reference	1.45034	0.076
43DAP/reference	1.44993	0.017
47DAP/reference	1.11056	0.804
52DAP/reference	1.25736	0.043
57DAP/reference	1.27444	0.076

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04628	0.903
17DAP/reference	0.79983	0.006
27DAP/reference	1.00398	0.711
39DAP/reference	0.86738	0.168
41DAP/reference	0.83123	0.042
42DAP/reference	0.90532	0.135
43DAP/reference	0.83246	0.051
47DAP/reference	0.74003	0.007
52DAP/reference	0.81451	0.007
57DAP/reference	0.72172	0.023

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2439	0.062
17DAP/reference	0.97882	0.658
27DAP/reference	1.18638	0.125
39DAP/reference	1.16164	0.157
41DAP/reference	1.30181	0.018
42DAP/reference	1.09289	0.5
43DAP/reference	0.95256	0.449
47DAP/reference	0.87388	0.024
52DAP/reference	1.607	0.601
57DAP/reference	1.0352	0.717

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.17744	1
26DAP/20DAP	1.02833	1
34DAP/26DAP	1.17657	1
51DAP/34DAP	0.90529	0.385
52DAP/51DAP	1.01404	1
53DAP/52DAP	1.02274	1
55DAP/53DAP	0.83142	0.13
57DAP/55DAP	0.83286	0.19
62DAP/57DAP	1.04046	0.833
68DAP/62DAP	1.34007	0.589
68DAP/14DAP	1.00889	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0397	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.52997	0.176
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.7349	0.053
Ripe Pepper/Ripe Tomato	1.72106	0.258
Mature Eggplant/Ripe Tomato	0.90101	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	0.99265	1
IL2-6/WTpooled	0.99306	1
IL7-5/WTpooled	1.04426	0.792
IL7-3/WTpooled	1.0704	1
IL12-4/WTpooled	1.36035	0.516
IL1-4/WTpooled	0.99883	1
WT/WTpooled	0.97571	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	1.28568	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02195	1
DC3000/delta hrp 6h	0.71256	N/A
DC3000/delta hrp 12h	0.96836	1
DC3000/delta hrp 24h	1.96392	0.037

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.57115	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	1.27778	1
Exp 36h	1.8603	0.693
Exp 60h	1.39447	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98107	1
Var 0h	0.99794	1
Var 12h I row2-row1	0.78928	0.565
Var 12h NI row2-row1	1.16332	1
Var 36h I row2-row1	1.30989	0.305
Var 36h NI row2-row1	1.23535	0.852
Var 60h I row2-row1	1.10337	0.366
Var 60h NI row2-row1	0.79742	0.818
Time course 0hI-0hNI	0.97198	0.829
Time course 12hI-12hNI	1.07512	0.317
Time course 36hI-36hNI	1.48709	0.005
Time course 60hI-60hNI	4.24233	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)	0.98537	0.789
transgenic ySAMdc/azygous control (breaker)	0.98531	1
transgenic ySAMdc/azygous control (red)	1.10492	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96166	0.136

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.38686	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07547	1
Manapal/WT (break)	0.96004	1
Manapal/WT (red)	1.10795	0.413