Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.14.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.36483	0.291
27DAP/17DAP	1.49516	0.68
39DAP/27DAP	0.60748	0.346
41DAP/39DAP	1.43986	0.535
42DAP/41DAP	0.9244	1
43DAP/42DAP	0.85441	0.801
47DAP/43DAP	1.2569	0.647
52DAP/47DAP	1.20333	0.724
57DAP/52DAP	1.07848	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05482	0.928
17DAP/reference	1.0249	0.675
27DAP/reference	0.97878	0.668
39DAP/reference	1.15007	0.012
41DAP/reference	1.11944	0.102
42DAP/reference	0.94456	0.062
43DAP/reference	1.02458	0.705
47DAP/reference	1.0435	0.91
52DAP/reference	1.10499	0.032
57DAP/reference	0.99403	0.639

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25813	0.151
27DAP/17DAP	0.84654	0.684
39DAP/27DAP	1.09966	0.811
41DAP/39DAP	1.03485	0.921
42DAP/41DAP	1.05369	0.999
43DAP/42DAP	1.26821	0.699
47DAP/43DAP	0.94262	0.846
52DAP/47DAP	0.89953	0.671
57DAP/52DAP	0.83457	0.505
57DAP/7DAP	0.62945

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90656	0.115
17DAP/reference	0.88638	0.024
27DAP/reference	1.10697	0.131
39DAP/reference	0.99389	0.745
41DAP/reference	0.86329	0.062
42DAP/reference	0.93967	0.09
43DAP/reference	0.90777	0.22
47DAP/reference	0.80437	0.066
52DAP/reference	0.84535	0.053
57DAP/reference	0.95028	0.367

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05934	0.605
17DAP/reference	1.09186	0.789
27DAP/reference	1.23316	0.225
39DAP/reference	0.97845	0.509
41DAP/reference	1.02227	1
42DAP/reference	1.2564	0.05
43DAP/reference	1.69674	0.023
47DAP/reference	1.26715	0.04
52DAP/reference	1.15451	0.053
57DAP/reference	1.32516	0.032

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88604	0.03
17DAP/reference	1.11783	0.39
27DAP/reference	1.04243	0.721
39DAP/reference	1.0203	0.773
41DAP/reference	1.0274	1
42DAP/reference	1.06715	0.45
43DAP/reference	0.86032	0.076
47DAP/reference	1.01803	1
52DAP/reference	0.87338	0.368
57DAP/reference	0.97431	0.553

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9176	1
26DAP/20DAP	1.17032	0.826
34DAP/26DAP	2.13605
51DAP/34DAP	0.9771	0.856
52DAP/51DAP	0.71923	1
53DAP/52DAP	1.13286	0.895
55DAP/53DAP	1.34519	0.21
57DAP/55DAP	1.08306	0.841
62DAP/57DAP	0.88966	0.466
68DAP/62DAP	0.95935	0.81
68DAP/14DAP	0.75033	0.08

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.02091	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.97165	0.774
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	1.03005
1-1-2/M82	1.1512
12-2/M82	N/A	N/A
12-4/M82	1.12573	1
1-3/M82	0.82991
2-1-1/M82	0.76947
2-1/M82	N/A	N/A
2-6/M82	0.82207
3-2/M82	1.2496
4-1-1/M82	1.07497
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.0526	1
5-3/M82	0.94028	1
6-2/M82	0.58743
6-3/M82	1.00331	1
7-1/M82	N/A	N/A
7-2/M82	0.89324
9-3-2/M82	0.86533

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.74886
IL2-6/WTpooled	0.94546	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.14583	1
IL12-4/WTpooled	1.00879	1
IL1-4/WTpooled	1.10005	0.426
WT/WTpooled	0.96508	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	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	1.01135	0.921
DC3000/delta hrp 6h	0.9076
DC3000/delta hrp 12h	1.04094	1
DC3000/delta hrp 24h	0.92899	0.585

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	1.03555	1
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	0.97122	1
Var 12h I row2-row1	1.13534	0.163
Var 12h NI row2-row1	0.89238	0.438
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	0.72008	0.706
Var 60h I row2-row1	1.09121	0.523
Var 60h NI row2-row1	0.83091	0.292
Time course 0hI-0hNI	0.91338	0.577
Time course 12hI-12hNI	1.01685	0.888
Time course 36hI-36hNI	1.11921	0.722
Time course 60hI-60hNI	0.806	0.161

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)	0.89173	0.315
transgenic ySAMdc/azygous control (breaker)	1.04721	1
transgenic ySAMdc/azygous control (red)	1.05903	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9859	0.444

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88997	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.74642	1
Manapal/WT (break)	0.9926	1
Manapal/WT (red)	0.87534	0.424