Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.17.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.41613	0.534
27DAP/17DAP	1.07525	1
39DAP/27DAP	1.23586	0.635
41DAP/39DAP	0.7365	0.358
42DAP/41DAP	0.99754	1
43DAP/42DAP	1.3999	0.809
47DAP/43DAP	1.72205	0.258
52DAP/47DAP	1.2466	0.78
57DAP/52DAP	1.13971	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94722	0.513
17DAP/reference	0.8591	0.169
27DAP/reference	1.05052	0.721
39DAP/reference	0.97351	0.704
41DAP/reference	0.89277	0.201
42DAP/reference	1.17824	0.032
43DAP/reference	0.96447	0.611
47DAP/reference	1.33151	0.06
52DAP/reference	1.60941	0.076
57DAP/reference	1.44274	0.015

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.67392	0.356
27DAP/17DAP	1.4402	0.523
39DAP/27DAP	1.31296	0.359
41DAP/39DAP	1.8882	0.077
42DAP/41DAP	1.05874	1
43DAP/42DAP	1.15841	0.513
47DAP/43DAP	0.88453	0.656
52DAP/47DAP	1.0369	0.933
57DAP/52DAP	1.02456	1
57DAP/7DAP	1.82834	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95686	0.495
17DAP/reference	1.07294	0.822
27DAP/reference	1.01319	0.656
39DAP/reference	0.84927	0.056
41DAP/reference	0.88481	0.223
42DAP/reference	0.99849	0.641
43DAP/reference	0.92514	0.145
47DAP/reference	1.10659	0.36
52DAP/reference	1.01589	1
57DAP/reference	0.91249	0.223

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77497	0.06
17DAP/reference	0.79264	0.134
27DAP/reference	1.05878	1
39DAP/reference	1.31963	0.366
41DAP/reference	1.22555	0.45
42DAP/reference	1.09465	0.596
43DAP/reference	0.78915	0.084
47DAP/reference	0.92883	0.277
52DAP/reference	1.29877	0.05
57DAP/reference	1.01909	0.916

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94374	0.29
17DAP/reference	1.1368	0.627
27DAP/reference	0.94698	0.397
39DAP/reference	1.06759	0.67
41DAP/reference	1.15107	0.692
42DAP/reference	1.42874	0.008
43DAP/reference	1.44398	0.031
47DAP/reference	0.95957	0.452
52DAP/reference	1.01902	0.871
57DAP/reference	1.68635	0.071

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.32248	1
26DAP/20DAP	1.45525	0.477
34DAP/26DAP	1.11199	1
51DAP/34DAP	1.08057	0.854
52DAP/51DAP	1.13385	0.925
53DAP/52DAP	0.83778	0.64
55DAP/53DAP	1.04951	0.894
57DAP/55DAP	1.6564	0.256
62DAP/57DAP	1.1117	0.935
68DAP/62DAP	1.21046	0.095
68DAP/14DAP	2.03548	0.279

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.68714	0.097

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
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	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	1.17642	0.277
IL2-6/WTpooled	0.8046	0.358
IL7-5/WTpooled	0.30354
IL7-3/WTpooled	0.9474	0.31
IL12-4/WTpooled	1.25244	0.695
IL1-4/WTpooled	0.81702	0.834
WT/WTpooled	1.04285	0.794

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	0.84797

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11977	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.85411	1
DC3000/delta hrp 24h	0.95035	0.782

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	N/A	N/A
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	0.95171	1
Var 0h	1.50681	0.98
Var 12h I row2-row1	0.96074	0.948
Var 12h NI row2-row1	0.8973	0.494
Var 36h I row2-row1	0.84681	1
Var 36h NI row2-row1	0.57566	0.743
Var 60h I row2-row1	0.92112
Var 60h NI row2-row1	1.10852	0.904
Time course 0hI-0hNI	1.0332	0.852
Time course 12hI-12hNI	1.10532	0.747
Time course 36hI-36hNI	1.7914	0.651
Time course 60hI-60hNI	1.79426	0.302

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.06857	1
transgenic ySAMdc/azygous control (red)	1.47165	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.38377	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.98455	1
Manapal/WT (red)	1.04542	1