Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.14.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.58366	0.023
27DAP/17DAP	0.85654	0.69
39DAP/27DAP	0.87438	0.594
41DAP/39DAP	1.11115	0.728
42DAP/41DAP	1.23912	1
43DAP/42DAP	1.18497	0.94
47DAP/43DAP	0.96934	0.746
52DAP/47DAP	1.96885	0.651
57DAP/52DAP	0.96903	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25677	0.11
17DAP/reference	1.08147	0.104
27DAP/reference	1.03451	0.684
39DAP/reference	1.12676	0.165
41DAP/reference	1.01483	0.759
42DAP/reference	1.03617	0.706
43DAP/reference	0.98047	0.691
47DAP/reference	1.05624	0.182
52DAP/reference	1.03338	0.607
57DAP/reference	0.8924	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88196	0.363
27DAP/17DAP	0.98414	0.943
39DAP/27DAP	0.8387	0.556
41DAP/39DAP	1.13239	0.849
42DAP/41DAP	1.06935	1
43DAP/42DAP	0.95527	0.641
47DAP/43DAP	0.9275	0.743
52DAP/47DAP	1.35141	0.471
57DAP/52DAP	1.51086	0.793
57DAP/7DAP	1.21168	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93259	0.224
17DAP/reference	0.8734	0.144
27DAP/reference	0.82111	0.051
39DAP/reference	0.94263	0.354
41DAP/reference	0.90636	0.213
42DAP/reference	0.84327	0.037
43DAP/reference	0.98425	0.502
47DAP/reference	0.97869	0.671
52DAP/reference	0.85356	0.106
57DAP/reference	1.2165	0.17

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09439	0.172
17DAP/reference	1.12274	0.543
27DAP/reference	1.28388	0.067
39DAP/reference	1.14946	0.2
41DAP/reference	0.98702	0.557
42DAP/reference	0.98176	0.534
43DAP/reference	1.08296	0.745
47DAP/reference	0.96814	0.4
52DAP/reference	1.08248	0.194
57DAP/reference	1.07469	0.172

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9422	0.249
17DAP/reference	0.90235	0.21
27DAP/reference	0.92093	0.218
39DAP/reference	0.96865	0.43
41DAP/reference	0.83189	0.032
42DAP/reference	0.87493	0.287
43DAP/reference	1.05437	0.667
47DAP/reference	0.90359	0.174
52DAP/reference	0.90968	0.334
57DAP/reference	1.01072	0.92

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98303	1
26DAP/20DAP	1.15942	0.541
34DAP/26DAP	1.28521	1
51DAP/34DAP	1.80741	0.192
52DAP/51DAP	0.83993	1
53DAP/52DAP	0.82805	0.445
55DAP/53DAP	0.92625	0.632
57DAP/55DAP	0.78603	0.246
62DAP/57DAP	0.91307	0.681
68DAP/62DAP	0.68578	0.135
68DAP/14DAP	0.88034	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.84576	0.322

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.17594	0.068
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.74509	0.101
Ripe Pepper/Ripe Tomato	1.01139	1
Mature Eggplant/Ripe Tomato	1.72812	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.49061
12-2/M82	N/A	N/A
12-4/M82	0.72512	0.619
1-3/M82	2.76526
2-1-1/M82	0.93926
2-1/M82	N/A	N/A
2-6/M82	0.95662
3-2/M82	N/A	N/A
4-1-1/M82	0.75264
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.97426	1
5-3/M82	1.42311	1
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	1.36822
IL2-6/WTpooled	0.49048	0.337
IL7-5/WTpooled	1.69388	0.792
IL7-3/WTpooled	1.19807	1
IL12-4/WTpooled	1.08619	1
IL1-4/WTpooled	0.8182	0.562
WT/WTpooled	1.0451	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	0.84456	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.14509
DC3000/delta hrp 6h	1.09308	1
DC3000/delta hrp 12h	1.12086	1
DC3000/delta hrp 24h	0.94982	0.682

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	1.11544

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99756	1
Exp 36h	0.88692	0.699
Exp 60h	1.04481	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9993	1
Var 0h	2.12462	0.936
Var 12h I row2-row1	0.78121	0.338
Var 12h NI row2-row1	1.01833	1
Var 36h I row2-row1	0.67596	1
Var 36h NI row2-row1	1.1424	0.482
Var 60h I row2-row1	1.06439	1
Var 60h NI row2-row1	1.06263	0.904
Time course 0hI-0hNI	0.94863	0.699
Time course 12hI-12hNI	0.8986	0.08
Time course 36hI-36hNI	0.78082	0.047
Time course 60hI-60hNI	0.29489	0.006

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)	0.94799	0.529
transgenic ySAMdc/azygous control (breaker)	0.70521	0.173
transgenic ySAMdc/azygous control (red)	0.90591	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.13427	0.061

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.17922	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.19976	0.14
Manapal/WT (break)	1.12867	0.183
Manapal/WT (red)	1.10096	0.413