Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.20.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.69785	0.452
27DAP/17DAP	1.33923	0.742
39DAP/27DAP	0.83045	0.458
41DAP/39DAP	1.16356	0.591
42DAP/41DAP	0.87778	1
43DAP/42DAP	1.24455	0.682
47DAP/43DAP	1.36649	0.361
52DAP/47DAP	0.69727	0.256
57DAP/52DAP	1.02393	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04391	0.928
17DAP/reference	1.08303	0.33
27DAP/reference	1.09268	0.696
39DAP/reference	0.99928	0.901
41DAP/reference	1.13109	0.421
42DAP/reference	0.95933	0.225
43DAP/reference	1.03346	0.838
47DAP/reference	0.9088	0.137
52DAP/reference	1.04793	0.912
57DAP/reference	0.98643	0.61

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03244	0.785
27DAP/17DAP	0.96826	0.854
39DAP/27DAP	1.00636	1
41DAP/39DAP	1.08943	0.781
42DAP/41DAP	1.04097	0.904
43DAP/42DAP	0.99257	0.96
47DAP/43DAP	0.97775	0.877
52DAP/47DAP	1.00497	1
57DAP/52DAP	0.99459	0.862
57DAP/7DAP	0.96174	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74238	0.078
17DAP/reference	0.80503	0.021
27DAP/reference	0.8276	0.01
39DAP/reference	0.75068	0.015
41DAP/reference	0.72476	0.016
42DAP/reference	0.75719	0.013
43DAP/reference	0.86446	0.086
47DAP/reference	0.856	0.222
52DAP/reference	0.77017	0.019
57DAP/reference	0.84515	0.086

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96264	0.688
17DAP/reference	0.98156	0.611
27DAP/reference	0.88483	0.257
39DAP/reference	1.04495	1
41DAP/reference	1.15711	0.562
42DAP/reference	1.0643	1
43DAP/reference	1.12275	0.605
47DAP/reference	0.99355	0.625
52DAP/reference	0.92642	0.351
57DAP/reference	1.0491	0.98

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95652	0.391
17DAP/reference	0.87307	0.136
27DAP/reference	0.96679	0.465
39DAP/reference	0.89005	0.083
41DAP/reference	0.84279	0.046
42DAP/reference	0.83732	0.108
43DAP/reference	0.87597	0.188
47DAP/reference	0.97243	0.452
52DAP/reference	0.793	0.2
57DAP/reference	0.86042	0.105

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16059	0.966
26DAP/20DAP	0.90311	0.512
34DAP/26DAP	1.0313	1
51DAP/34DAP	0.95992	0.667
52DAP/51DAP	1.06074	0.588
53DAP/52DAP	1.14342	0.428
55DAP/53DAP	0.99652	0.925
57DAP/55DAP	1.04664	0.927
62DAP/57DAP	1.02401	1
68DAP/62DAP	1.1778	1
68DAP/14DAP	0.6452	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97419	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.05854	0.881
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.90109	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.83571
1-1-2/M82	0.9827	1
12-2/M82	1.06274
12-4/M82	1.01392	1
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	1.20218	0.505
3-2/M82	0.85302	0.752
4-1-1/M82	0.88631
4-1/M82	0.87023	0.737
4-3-2/M82	1.08209	1
4-3/M82	1.13686
5-3/M82	1.05808	0.572
6-2/M82	N/A	N/A
6-3/M82	1.20979	1
7-1/M82	N/A	N/A
7-2/M82	1.00087
9-3-2/M82	0.84304	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.29563	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.52155	0.722
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.28181	1
WT/WTpooled	N/A	N/A

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	0.72069	0.201

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98997	1
DC3000/delta hrp 6h	1.30335	1
DC3000/delta hrp 12h	0.97394	1
DC3000/delta hrp 24h	0.95078	0.887

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.20761	0.145
DC3000 delta B/DC3000 delta AB	1.06091	0.472

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8486	1
Exp 36h	1.25207	1
Exp 60h	0.97392	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	0.94467	0.565
Var 12h NI row2-row1	0.97168	0.906
Var 36h I row2-row1	0.96733	1
Var 36h NI row2-row1	0.98585	0.852
Var 60h I row2-row1	1.02497	0.562
Var 60h NI row2-row1	1.0268	0.904
Time course 0hI-0hNI	1.12722	0.262
Time course 12hI-12hNI	0.93009	0.431
Time course 36hI-36hNI	0.94052	0.269
Time course 60hI-60hNI	0.98785	1

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)	1.41687	0.256
transgenic ySAMdc/azygous control (breaker)	1.09757	1
transgenic ySAMdc/azygous control (red)	1.12308	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01572	0.525

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.55689	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.65549	0.172
Manapal/WT (break)	0.86644	0.333
Manapal/WT (red)	0.8008	0.181