Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.12.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.62628	0.182
27DAP/17DAP	1.80993	0.504
39DAP/27DAP	1.12608	0.995
41DAP/39DAP	1.25872	1
42DAP/41DAP	0.97626	1
43DAP/42DAP	1.05441	0.91
47DAP/43DAP	0.73936	0.26
52DAP/47DAP	1.55389	0.809
57DAP/52DAP	2.15914	0.927

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.35699
17DAP/reference	N/A	N/A
27DAP/reference	1.12368	0.953
39DAP/reference	0.97322
41DAP/reference	N/A	N/A
42DAP/reference	0.53194
43DAP/reference	0.62908
47DAP/reference	4.22511
52DAP/reference	1.00088
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94955
27DAP/17DAP	0.48913
39DAP/27DAP	0.11892
41DAP/39DAP	N/A	N/A
42DAP/41DAP	0.94659
43DAP/42DAP	3.58876
47DAP/43DAP	N/A	N/A
52DAP/47DAP	1.53956	0.424
57DAP/52DAP	1.17015	0.902
57DAP/7DAP	1.37777

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95654	0.445
17DAP/reference	0.96578	0.447
27DAP/reference	1.04215	0.301
39DAP/reference	1.07177	1
41DAP/reference	0.68942	0.027
42DAP/reference	0.7636	0.011
43DAP/reference	1.047	1
47DAP/reference	1.14103	0.279
52DAP/reference	0.86057	0.077
57DAP/reference	1.13844	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7434	0.318
17DAP/reference	0.98073	0.626
27DAP/reference	0.95161	0.554
39DAP/reference	1.14852
41DAP/reference	1.39974	0.009
42DAP/reference	1.13444	1
43DAP/reference	0.91645	0.459
47DAP/reference	N/A	N/A
52DAP/reference	0.95763	0.469
57DAP/reference	0.99881	0.916

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19489	0.456
17DAP/reference	1.21334	0.17
27DAP/reference	1.01011	0.934
39DAP/reference	1.0442	0.563
41DAP/reference	0.8584	0.209
42DAP/reference	1.06732	0.566
43DAP/reference	0.93668	0.384
47DAP/reference	2.11572
52DAP/reference	0.99193	0.838
57DAP/reference	1.44904	0.462

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	N/A	N/A
26DAP/20DAP	0.9721	1
34DAP/26DAP	0.54018
51DAP/34DAP	1.6468	0.627
52DAP/51DAP	0.79285
53DAP/52DAP	0.78592	0.212
55DAP/53DAP	1.39013	0.976
57DAP/55DAP	0.47208	0.011
62DAP/57DAP	1.75962	0.257
68DAP/62DAP	2.08032	0.024
68DAP/14DAP	1.95137	0.022

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.77094

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	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	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	N/A	N/A
IL2-6/WTpooled	1.46524	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.97097	1
IL12-4/WTpooled	1.43533	0.624
IL1-4/WTpooled	0.88208
WT/WTpooled	0.96771	0.764

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	N/A	N/A

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	0.48135
DC3000/delta hrp 12h	1.12849	1
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	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	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	N/A	N/A
Var 0h	1.08637	0.98
Var 12h I row2-row1	0.88306	0.77
Var 12h NI row2-row1	1.10883
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	1.07138	1
Var 60h I row2-row1	1.22609	0.562
Var 60h NI row2-row1	1.00828
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	0.50128

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	N/A	N/A

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)	0.84813	1
Manapal/WT (red)	1.20048	0.164