Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.6.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.72035	0.169
27DAP/17DAP	0.91787	0.836
39DAP/27DAP	1.1585	0.631
41DAP/39DAP	1.19102	0.464
42DAP/41DAP	0.91503	1
43DAP/42DAP	0.84905	0.554
47DAP/43DAP	0.96368	0.696
52DAP/47DAP	0.7907	0.539
57DAP/52DAP	0.87962	0.849

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0179	0.814
17DAP/reference	0.9955	0.904
27DAP/reference	0.95047	0.194
39DAP/reference	0.97098	0.527
41DAP/reference	0.99828	1
42DAP/reference	0.9961	0.547
43DAP/reference	1.02962	0.678
47DAP/reference	1.0303	0.646
52DAP/reference	1.04216	0.633
57DAP/reference	0.99621	0.736

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99933	0.826
27DAP/17DAP	1.01904	1
39DAP/27DAP	0.81983	0.218
41DAP/39DAP	0.96736	0.973
42DAP/41DAP	1.17778	1
43DAP/42DAP	1.09666	0.664
47DAP/43DAP	1.01942	0.963
52DAP/47DAP	1.18427	0.63
57DAP/52DAP	0.99402	0.833
57DAP/7DAP	0.90287	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32285	0.079
17DAP/reference	1.33986	0.077
27DAP/reference	0.98097	0.53
39DAP/reference	1.29553	0.018
41DAP/reference	1.12558	0.314
42DAP/reference	1.1996	0.059
43DAP/reference	1.21864	0.093
47DAP/reference	1.2477	0.254
52DAP/reference	1.4207	0.159
57DAP/reference	1.1834	0.108

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05433	0.308
17DAP/reference	1.08561	0.074
27DAP/reference	1.03967	0.583
39DAP/reference	1.03893	0.725
41DAP/reference	0.99553	0.615
42DAP/reference	0.99858	0.723
43DAP/reference	1.02492	0.986
47DAP/reference	0.93643	0.11
52DAP/reference	1.04195	0.098
57DAP/reference	1.08988	0.012

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10652	0.644
17DAP/reference	1.0892	0.538
27DAP/reference	0.91465	0.27
39DAP/reference	1.06962	0.578
41DAP/reference	0.96349	0.56
42DAP/reference	1.02482	0.775
43DAP/reference	1.28989	0.071
47DAP/reference	0.99451	0.646
52DAP/reference	1.08978	0.614
57DAP/reference	0.91518	0.293

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02383	0.966
26DAP/20DAP	1.08441	0.865
34DAP/26DAP	0.80874	0.606
51DAP/34DAP	1.30972	0.314
52DAP/51DAP	0.79429	1
53DAP/52DAP	0.74021	0.148
55DAP/53DAP	0.67448	0.044
57DAP/55DAP	1.27949	0.492
62DAP/57DAP	0.91319	0.681
68DAP/62DAP	0.82673	0.668
68DAP/14DAP	1.06309	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82635	0.175

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.73474	0.203
Mature Green Tomato/Ripe Tomato	1.98733	0.015
Immature Eggplant/Mature Eggplant	0.99357	1
Ripe Pepper/Ripe Tomato	2.34294	1
Mature Eggplant/Ripe Tomato	1.57245

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	0.73314
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	1.10556	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	1.52868	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94908	1
DC3000/delta hrp 6h	1.00404	1
DC3000/delta hrp 12h	1.03139	1
DC3000/delta hrp 24h	1.23902	0.483

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	0.90422	0.265
Exp 36h	0.97177	0.943
Exp 60h	0.79224	0.29

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04231
Var 0h	5.46496	0.98
Var 12h I row2-row1	1.05746	1
Var 12h NI row2-row1	0.90777	0.82
Var 36h I row2-row1	1.00218	1
Var 36h NI row2-row1	0.82806	0.229
Var 60h I row2-row1	0.90644	0.285
Var 60h NI row2-row1	0.8949	0.904
Time course 0hI-0hNI	0.95716	0.698
Time course 12hI-12hNI	1.00255	1
Time course 36hI-36hNI	0.83221	0.106
Time course 60hI-60hNI	0.63643	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)	0.93733	0.485
transgenic ySAMdc/azygous control (breaker)	2.05335	0.172
transgenic ySAMdc/azygous control (red)	1.06184	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99778	0.886

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.90654	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00871	1
Manapal/WT (break)	1.66967	0.13
Manapal/WT (red)	1.26406	0.222