Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.13.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90864	0.413
27DAP/17DAP	1.15983	0.859
39DAP/27DAP	0.79129	0.435
41DAP/39DAP	1.28923	0.56
42DAP/41DAP	1.05373	0.999
43DAP/42DAP	1.04632	1
47DAP/43DAP	0.93344	0.76
52DAP/47DAP	1.1919	0.683
57DAP/52DAP	1.02738	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97033	0.476
17DAP/reference	1.03739	0.282
27DAP/reference	0.93785	0.265
39DAP/reference	1.12746	0.524
41DAP/reference	1.01922	0.312
42DAP/reference	1.06167	0.119
43DAP/reference	0.99761	0.904
47DAP/reference	0.94413	0.116
52DAP/reference	0.86945	0.029
57DAP/reference	0.89866	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99631	0.871
27DAP/17DAP	1.01454	0.957
39DAP/27DAP	0.98394	0.898
41DAP/39DAP	0.97814	0.945
42DAP/41DAP	0.97727	0.762
43DAP/42DAP	0.99978	1
47DAP/43DAP	1.01428	0.906
52DAP/47DAP	0.97869	0.898
57DAP/52DAP	0.96366	0.532
57DAP/7DAP	1.10726	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.81878	0.036
17DAP/reference	1.50915	0.01
27DAP/reference	1.5036	0.007
39DAP/reference	1.58692	0.005
41DAP/reference	1.67738	0.024
42DAP/reference	1.74004	0.007
43DAP/reference	1.53818	0.006
47DAP/reference	1.47756	0.081
52DAP/reference	1.81413	0.008
57DAP/reference	1.52448	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04231	0.802
17DAP/reference	1.01245	0.904
27DAP/reference	1.24877	0.31
39DAP/reference	0.9727	0.381
41DAP/reference	0.90502	0.015
42DAP/reference	0.93466	0.061
43DAP/reference	1.0237	1
47DAP/reference	1.00526	1
52DAP/reference	0.94978	0.078
57DAP/reference	1.09263	0.123

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.62533	0.019
17DAP/reference	1.11776	0.518
27DAP/reference	1.3052	0.033
39DAP/reference	1.56209	0.016
41DAP/reference	1.21124	0.112
42DAP/reference	1.3269	0.272
43DAP/reference	1.23167	0.32
47DAP/reference	0.95953	0.224
52DAP/reference	1.51247	0.098
57DAP/reference	1.17352	1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.88155	0.841
26DAP/20DAP	1.03958	0.834
34DAP/26DAP	1.046	1
51DAP/34DAP	1.01522	0.883
52DAP/51DAP	0.95952	1
53DAP/52DAP	1.18547	0.489
55DAP/53DAP	0.93265	0.478
57DAP/55DAP	1.09302	0.666
62DAP/57DAP	0.92209	0.28
68DAP/62DAP	0.82746	0.195
68DAP/14DAP	0.84846	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9599	0.115

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.98128	0.774
Immature Eggplant/Mature Eggplant	3.36826	0.05
Ripe Pepper/Ripe Tomato	0.58047	1
Mature Eggplant/Ripe Tomato	0.69801	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03829	0.877
1-1-2/M82	0.89944	0.958
12-2/M82	1.10231	1
12-4/M82	0.96721	1
1-3/M82	0.89115	0.501
2-1-1/M82	1.22708	0.342
2-1/M82	0.94959
2-6/M82	0.94377	0.501
3-2/M82	0.984
4-1-1/M82	0.93246	0.833
4-1/M82	1.28067
4-3-2/M82	1.07039	1
4-3/M82	0.81882	0.72
5-3/M82	0.9535	0.49
6-2/M82	0.99562	1
6-3/M82	0.92808	1
7-1/M82	1.33785
7-2/M82	1.14504	0.385
9-3-2/M82	0.79052	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.24384	0.277
IL2-6/WTpooled	1.04324	1
IL7-5/WTpooled	0.38307	1
IL7-3/WTpooled	0.91246	1
IL12-4/WTpooled	0.96801	1
IL1-4/WTpooled	1.54947	1
WT/WTpooled	0.9546	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	1.01454	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02506	0.921
DC3000/delta hrp 6h	1.15607	1
DC3000/delta hrp 12h	0.99942	1
DC3000/delta hrp 24h	1.03035	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.04129	0.208
DC3000 delta B/DC3000 delta AB	1.0147	0.665

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.14677	0.254
Exp 36h	2.06478	0.409
Exp 60h	1.69048	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01105	1
Var 0h	1.03141	1
Var 12h I row2-row1	1.00295	1
Var 12h NI row2-row1	0.94764	0.627
Var 36h I row2-row1	1.16232	0.742
Var 36h NI row2-row1	0.85788	0.258
Var 60h I row2-row1	1.0438	1
Var 60h NI row2-row1	1.01251	1
Time course 0hI-0hNI	1.03742	0.764
Time course 12hI-12hNI	1.08776	0.12
Time course 36hI-36hNI	1.24087	0.005
Time course 60hI-60hNI	1.36416	0.008

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)	1.09036	1
transgenic ySAMdc/azygous control (breaker)	0.5942	0.131
transgenic ySAMdc/azygous control (red)	1.08025	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.1981	0.036

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.90234	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.74317	0.172
Manapal/WT (break)	0.67031	1
Manapal/WT (red)	1.04226	1