Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.5.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23365	0.681
27DAP/17DAP	0.95123	0.928
39DAP/27DAP	0.76083	0.286
41DAP/39DAP	1.36786	0.084
42DAP/41DAP	1.25956	0.899
43DAP/42DAP	0.98115	0.925
47DAP/43DAP	1.0896	0.776
52DAP/47DAP	1.19257	0.811
57DAP/52DAP	1.37285	0.746

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09019	0.384
17DAP/reference	1.04762	0.74
27DAP/reference	0.97595	0.623
39DAP/reference	1.04544	0.706
41DAP/reference	0.93477	0.434
42DAP/reference	0.89689	0.075
43DAP/reference	0.97669	0.691
47DAP/reference	0.99126	0.568
52DAP/reference	1.01774	0.668
57DAP/reference	1.13798	0.31

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.45291	0.04
27DAP/17DAP	0.79954	0.508
39DAP/27DAP	0.79507	0.068
41DAP/39DAP	1.00354	1
42DAP/41DAP	0.83605	0.201
43DAP/42DAP	0.96353	0.709
47DAP/43DAP	0.91913	0.637
52DAP/47DAP	1.71999	0.186
57DAP/52DAP	1.16628	0.699
57DAP/7DAP	2.25742	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02408	0.961
17DAP/reference	1.12575	0.437
27DAP/reference	0.90494	0.159
39DAP/reference	0.83707	0.083
41DAP/reference	0.88855	0.213
42DAP/reference	0.97225	0.506
43DAP/reference	0.816	0.076
47DAP/reference	0.85692	0.168
52DAP/reference	0.78133	0.043
57DAP/reference	0.88453	0.162

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08785	0.343
17DAP/reference	1.01258	0.83
27DAP/reference	1.05664	0.692
39DAP/reference	1.03922	1
41DAP/reference	0.97045	0.422
42DAP/reference	0.88308	0.042
43DAP/reference	1.0632	1
47DAP/reference	0.94944	0.446
52DAP/reference	1.20549	0.596
57DAP/reference	1.00765

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92876	0.268
17DAP/reference	1.03494	0.988
27DAP/reference	0.90204	0.113
39DAP/reference	0.74248	0.023
41DAP/reference	1.038	0.961
42DAP/reference	0.94724	0.445
43DAP/reference	1.03682	0.796
47DAP/reference	0.94297	0.396
52DAP/reference	1.66781	0.813
57DAP/reference	0.9382	0.387

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89709	1
26DAP/20DAP	1.07781	0.865
34DAP/26DAP	1.32707	1
51DAP/34DAP	1.06498	0.869
52DAP/51DAP	1.04192	0.742
53DAP/52DAP	0.95849	0.824
55DAP/53DAP	0.76392	0.389
57DAP/55DAP	0.78233	0.452
62DAP/57DAP	0.85178
68DAP/62DAP	1.66756	0.557
68DAP/14DAP	1.71665

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.38219	0.036

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.12423
Mature Green Tomato/Ripe Tomato	3.0484
Immature Eggplant/Mature Eggplant	0.28652
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	3.45868	0.26

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	1.05495
12-4/M82	0.88468
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	1.36817
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	0.85494
4-3/M82	N/A	N/A
5-3/M82	1.09825
6-2/M82	1.09641
6-3/M82	N/A	N/A
7-1/M82	1.01667
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	0.92271	0.247
IL2-6/WTpooled	1.41164	0.46
IL7-5/WTpooled	0.90653	1
IL7-3/WTpooled	1.03559	1
IL12-4/WTpooled	1.12667	0.695
IL1-4/WTpooled	0.87629	0.699
WT/WTpooled	1.02082	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	0.74061	0.209

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00383	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.00294	1
DC3000/delta hrp 24h	0.87283	0.363

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	N/A	N/A
Exp 36h	1.34281	1
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	1.14265	1
Var 0h	0.48864	1
Var 12h I row2-row1	1.32737	0.544
Var 12h NI row2-row1	0.82941	0.82
Var 36h I row2-row1	0.8639	0.313
Var 36h NI row2-row1	0.80364	0.584
Var 60h I row2-row1	1.21419	1
Var 60h NI row2-row1	1.0039	1
Time course 0hI-0hNI	0.91409	0.535
Time course 12hI-12hNI	1.00338	1
Time course 36hI-36hNI	0.85836	0.054
Time course 60hI-60hNI	0.75234	0.047

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)	0.98699	0.862
transgenic ySAMdc/azygous control (breaker)	0.85848	0.251
transgenic ySAMdc/azygous control (red)	0.70608	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96266	0.105

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.72073	0.172
Manapal/WT (break)	0.92244	1
Manapal/WT (red)	1.25134	0.222