Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.10.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10566	0.681
27DAP/17DAP	1.19545	0.799
39DAP/27DAP	0.9095	0.564
41DAP/39DAP	0.96233	0.825
42DAP/41DAP	1.49548	0.556
43DAP/42DAP	1.06274	1
47DAP/43DAP	1.27532	0.4
52DAP/47DAP	0.88671	0.662
57DAP/52DAP	1.08337	0.918

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95209	0.277
17DAP/reference	1.03656	0.399
27DAP/reference	0.95525	0.369
39DAP/reference	0.89827	0.035
41DAP/reference	0.97694	0.542
42DAP/reference	0.90122	0.012
43DAP/reference	1.035	0.617
47DAP/reference	0.91679	0.023
52DAP/reference	0.84293	0.049
57DAP/reference	0.8792	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88762	0.336
27DAP/17DAP	1.01352	0.969
39DAP/27DAP	1.01581	0.824
41DAP/39DAP	0.95917	0.893
42DAP/41DAP	1.01746	0.929
43DAP/42DAP	1.09429	0.25
47DAP/43DAP	0.98432	0.923
52DAP/47DAP	1.00151	0.987
57DAP/52DAP	1.00289	0.905
57DAP/7DAP	1.28724	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77069	0.168
17DAP/reference	1.05167	0.971
27DAP/reference	1.09438	0.371
39DAP/reference	1.24575	0.046
41DAP/reference	0.92293	0.271
42DAP/reference	0.90868	0.117
43DAP/reference	1.00334	0.764
47DAP/reference	0.97558	0.671
52DAP/reference	0.99847	0.477
57DAP/reference	1.08219	0.698

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10853	0.903
17DAP/reference	0.91644	0.143
27DAP/reference	0.91131	0.111
39DAP/reference	0.89127	0.042
41DAP/reference	0.85078	0.04
42DAP/reference	0.84236	0.018
43DAP/reference	1.03033	0.977
47DAP/reference	0.88416	0.039
52DAP/reference	0.97639	0.38
57DAP/reference	1.0034	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23775	0.064
17DAP/reference	1.06411	0.558
27DAP/reference	0.99963	0.843
39DAP/reference	1.02305	1
41DAP/reference	0.89925	0.167
42DAP/reference	1.02338	1
43DAP/reference	0.80696	0.102
47DAP/reference	0.83976	0.031
52DAP/reference	0.94956	0.551
57DAP/reference	0.69722	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.24189	0.966
26DAP/20DAP	0.86958	0.223
34DAP/26DAP	1.18475	0.819
51DAP/34DAP	1.01122	0.988
52DAP/51DAP	0.95024	1
53DAP/52DAP	1.09119	0.623
55DAP/53DAP	0.99106	0.886
57DAP/55DAP	0.93468	0.688
62DAP/57DAP	1.08494	0.393
68DAP/62DAP	0.86631	0.227
68DAP/14DAP	0.95092	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03612	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.20099	0.058
Mature Green Tomato/Ripe Tomato	0.50468	0.019
Immature Eggplant/Mature Eggplant	0.68103	0.125
Ripe Pepper/Ripe Tomato	4.86257	1
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94058
1-1-2/M82	0.90512	1
12-2/M82	1.02027	1
12-4/M82	0.97299	1
1-3/M82	N/A	N/A
2-1-1/M82	1.04618	1
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.03344	1
4-1-1/M82	N/A	N/A
4-1/M82	0.99044	1
4-3-2/M82	1.3856	0.246
4-3/M82	N/A	N/A
5-3/M82	0.85521	0.642
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	1.6995	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.0176	1
IL2-6/WTpooled	1.09335	0.659
IL7-5/WTpooled	1.19407	0.792
IL7-3/WTpooled	1.24938	1
IL12-4/WTpooled	0.80015	0.566
IL1-4/WTpooled	1.20572	1
WT/WTpooled	1.02018	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	1.36526	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93915	1
DC3000/delta hrp 6h	1.41987	1
DC3000/delta hrp 12h	0.98784	1
DC3000/delta hrp 24h	0.68908	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.28797
DC3000 delta B/DC3000 delta AB	1.22489	0.176

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04379	1
Exp 36h	0.81441	0.661
Exp 60h	0.66937	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01429	1
Var 0h	1.30103	0.782
Var 12h I row2-row1	1.11187	0.272
Var 12h NI row2-row1	0.96944	0.906
Var 36h I row2-row1	1.01387	1
Var 36h NI row2-row1	1.0285	1
Var 60h I row2-row1	1.63975	0.562
Var 60h NI row2-row1	1.05811	1
Time course 0hI-0hNI	1.12493	0.323
Time course 12hI-12hNI	1.16645	0.137
Time course 36hI-36hNI	1.74806	0.005
Time course 60hI-60hNI	2.36941	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)	0.95045	0.3
transgenic ySAMdc/azygous control (breaker)	1.19928	0.172
transgenic ySAMdc/azygous control (red)	1.1492	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9382	0.08

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.33961	0.229

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.23353	0.093
Manapal/WT (break)	1.35479	0.381
Manapal/WT (red)	0.95576	0.607