Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.17.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14827	0.938
27DAP/17DAP	1.18473	0.849
39DAP/27DAP	0.77066	0.447
41DAP/39DAP	1.21516	0.488
42DAP/41DAP	1.07699	1
43DAP/42DAP	1.20716	0.954
47DAP/43DAP	0.96131	0.804
52DAP/47DAP	1.13067	0.801
57DAP/52DAP	0.83597	0.852

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35683	0.034
17DAP/reference	1.58229	0.013
27DAP/reference	1.14547	0.306
39DAP/reference	1.18683	0.077
41DAP/reference	1.81989	0.014
42DAP/reference	1.23573	0.022
43DAP/reference	0.90105	0.448
47DAP/reference	1.10567	0.233
52DAP/reference	1.17442	0.453
57DAP/reference	1.00563	0.845

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14793	0.525
27DAP/17DAP	0.99584	0.969
39DAP/27DAP	1.11802	0.383
41DAP/39DAP	1.23384	0.656
42DAP/41DAP	0.9651	0.7
43DAP/42DAP	1.24047	0.134
47DAP/43DAP	1.07139	0.798
52DAP/47DAP	1.12548	0.573
57DAP/52DAP	1.24939	0.219
57DAP/7DAP	1.30078	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2462	0.193
17DAP/reference	1.1938	0.092
27DAP/reference	0.90888	0.171
39DAP/reference	0.76768	0.011
41DAP/reference	0.85396	0.07
42DAP/reference	0.92198	0.2
43DAP/reference	1.03196	0.923
47DAP/reference	0.98218	0.671
52DAP/reference	1.05384	1
57DAP/reference	0.84791	0.036

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28045	0.634
17DAP/reference	1.15257	0.197
27DAP/reference	1.32447	0.178
39DAP/reference	1.18748	0.463
41DAP/reference	1.16147	0.502
42DAP/reference	1.26669	0.118
43DAP/reference	1.2785	0.182
47DAP/reference	1.14781	0.176
52DAP/reference	1.54229	0.006
57DAP/reference	1.16329	0.688

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98605	0.653
17DAP/reference	1.15387	0.384
27DAP/reference	1.1735	0.044
39DAP/reference	0.90017	0.076
41DAP/reference	0.88991	0.167
42DAP/reference	1.07375	0.743
43DAP/reference	0.86162	0.197
47DAP/reference	1.14861	0.543
52DAP/reference	1.22577	0.747
57DAP/reference	0.93075	0.315

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	N/A	N/A
26DAP/20DAP	0.8042	0.512
34DAP/26DAP	1.10069	1
51DAP/34DAP	0.75566	0.351
52DAP/51DAP	1.00832	1
53DAP/52DAP	1.14475	0.489
55DAP/53DAP	1.15491	0.295
57DAP/55DAP	1.06895	0.906
62DAP/57DAP	0.88587	0.681
68DAP/62DAP	1.39675	0.792
68DAP/14DAP	0.94976	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86939	0.155

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	1.19939
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	1.03562	1
IL2-6/WTpooled	2.00809	0.395
IL7-5/WTpooled	1.59468	0.792
IL7-3/WTpooled	0.83127	0.418
IL12-4/WTpooled	1.21339	0.695
IL1-4/WTpooled	0.85558	0.415
WT/WTpooled	1.04773	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	1.26311	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	N/A	N/A

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	1.05979	1

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	0.96831	1
Var 0h	0.79566	0.782
Var 12h I row2-row1	0.98452	1
Var 12h NI row2-row1	0.8182	0.488
Var 36h I row2-row1	0.98423	1
Var 36h NI row2-row1	0.89838	0.432
Var 60h I row2-row1	1.15599	0.543
Var 60h NI row2-row1	1.16723	0.904
Time course 0hI-0hNI	1.14394	0.323
Time course 12hI-12hNI	1.03161	0.774
Time course 36hI-36hNI	1.16753	0.044
Time course 60hI-60hNI	1.20179	0.019

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)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

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	1.41284	0.229

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)	N/A	N/A
Manapal/WT (red)	N/A	N/A