Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.13.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92689	0.617
27DAP/17DAP	1.00708	1
39DAP/27DAP	1.07342	1
41DAP/39DAP	1.47038	0.28
42DAP/41DAP	0.93213	1
43DAP/42DAP	0.88276	0.787
47DAP/43DAP	0.90694	0.671
52DAP/47DAP	1.69271	0.183
57DAP/52DAP	1.11248	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04209	0.48
17DAP/reference	1.03485	0.427
27DAP/reference	0.9916	0.779
39DAP/reference	1.03057	0.664
41DAP/reference	0.98898	0.814
42DAP/reference	0.94028	0.056
43DAP/reference	1.01381	0.812
47DAP/reference	0.94361	0.242
52DAP/reference	1.00448	1
57DAP/reference	1.1216	0.463

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89561	0.194
27DAP/17DAP	0.99258	0.919
39DAP/27DAP	0.94917	0.496
41DAP/39DAP	0.9931	1
42DAP/41DAP	1.0626	0.559
43DAP/42DAP	1.03534	0.324
47DAP/43DAP	0.99313	0.977
52DAP/47DAP	0.94262	0.498
57DAP/52DAP	0.89433	0.331
57DAP/7DAP	0.74997	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83719	0.183
17DAP/reference	0.83174	0.01
27DAP/reference	0.76489	0.01
39DAP/reference	0.78534	0.011
41DAP/reference	0.82665	0.012
42DAP/reference	0.83988	0.011
43DAP/reference	0.82793	0.013
47DAP/reference	0.85808	0.168
52DAP/reference	0.75431	0.009
57DAP/reference	0.75207	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81739	0.1
17DAP/reference	0.76707	0.03
27DAP/reference	0.77928	0.056
39DAP/reference	0.89772	0.093
41DAP/reference	0.91165	0.148
42DAP/reference	0.93833	0.261
43DAP/reference	0.85311	0.066
47DAP/reference	1.04998	0.441
52DAP/reference	0.78234	0.005
57DAP/reference	0.80977	0.005

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87993	0.029
17DAP/reference	0.92394	0.308
27DAP/reference	0.83342	0.048
39DAP/reference	0.80718	0.008
41DAP/reference	0.81035	0.031
42DAP/reference	0.78495	0.015
43DAP/reference	0.87084	0.076
47DAP/reference	0.90645	0.224
52DAP/reference	0.83398	0.211
57DAP/reference	1.14385	0.401

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0774	0.85
26DAP/20DAP	1.07494	0.962
34DAP/26DAP	0.94172	0.991
51DAP/34DAP	1.2522	0.126
52DAP/51DAP	1.12289	0.089
53DAP/52DAP	1.13304	0.662
55DAP/53DAP	0.93351	0.478
57DAP/55DAP	1.00685	0.863
62DAP/57DAP	1.05172	1
68DAP/62DAP	0.72609	0.177
68DAP/14DAP	1.07396	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.72936	0.062

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.44741	0.094
Mature Green Tomato/Ripe Tomato	0.60174	0.347
Immature Eggplant/Mature Eggplant	1.11328	0.181
Ripe Pepper/Ripe Tomato	0.72812	0.224
Mature Eggplant/Ripe Tomato	0.35182	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98881	1
1-1-2/M82	0.92039
12-2/M82	1.00082	1
12-4/M82	0.95075	1
1-3/M82	1.00094	1
2-1-1/M82	0.96578	0.92
2-1/M82	1.1652	1
2-6/M82	0.96297	1
3-2/M82	0.96632	1
4-1-1/M82	1.01151	1
4-1/M82	0.89249	1
4-3-2/M82	1.00267	1
4-3/M82	0.97566	0.72
5-3/M82	1.00843	1
6-2/M82	0.9976	1
6-3/M82	1.00965	1
7-1/M82	0.93822	0.803
7-2/M82	1.14919	1
9-3-2/M82	0.87562	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.303	0.531
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.31937	0.362
IL12-4/WTpooled	1.28709	0.522
IL1-4/WTpooled	1.00292
WT/WTpooled	0.97704	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	1.21123	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08454	0.894
DC3000/delta hrp 6h	0.93712	0.95
DC3000/delta hrp 12h	1.1883	1
DC3000/delta hrp 24h	1.03372	0.797

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.06575	0.355
DC3000 delta B/DC3000 delta AB	1.04967	0.579

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03764	1
Exp 36h	1.07316	1
Exp 60h	1.27362	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9516	1
Var 0h	1.25179	0.374
Var 12h I row2-row1	1.09036	0.58
Var 12h NI row2-row1	0.87977	0.403
Var 36h I row2-row1	0.88919	1
Var 36h NI row2-row1	1.0406	1
Var 60h I row2-row1	1.01224	1
Var 60h NI row2-row1	1.0864	0.904
Time course 0hI-0hNI	1.0478	0.852
Time course 12hI-12hNI	0.97154	0.802
Time course 36hI-36hNI	1.19373	0.007
Time course 60hI-60hNI	1.91641	0.009

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)	1.20132	0.272
transgenic ySAMdc/azygous control (breaker)	0.94372	1
transgenic ySAMdc/azygous control (red)	0.80225	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05069	0.054

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.44593	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93611	1
Manapal/WT (break)	0.81466	1
Manapal/WT (red)	0.64501	0.181