Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-2.1.17.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06375	0.951
27DAP/17DAP	1.0179	1
39DAP/27DAP	1.3962	0.301
41DAP/39DAP	0.88226	0.524
42DAP/41DAP	0.94486	1
43DAP/42DAP	1.13836	1
47DAP/43DAP	0.80243	0.39
52DAP/47DAP	0.82577	0.593
57DAP/52DAP	1.00474	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31971	0.522
17DAP/reference	1.50758	0.248
27DAP/reference	1.22229	0.569
39DAP/reference	1.0851	0.828
41DAP/reference	1.06629	1
42DAP/reference	1.35671	0.004
43DAP/reference	1.0065	0.84
47DAP/reference	1.42119	0.001
52DAP/reference	1.27516	0.062
57DAP/reference	1.61685	0.043

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94742	0.442
27DAP/17DAP	1.0291	0.942
39DAP/27DAP	0.93743	0.54
41DAP/39DAP	1.05272	0.997
42DAP/41DAP	0.99761	0.872
43DAP/42DAP	0.87763	0.149
47DAP/43DAP	0.90869	0.31
52DAP/47DAP	0.82078	0.077
57DAP/52DAP	0.84579	0.299
57DAP/7DAP	0.41757	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74531	0.088
17DAP/reference	0.71978	0.011
27DAP/reference	0.92954	0.125
39DAP/reference	0.77318	0.011
41DAP/reference	0.84223	0.039
42DAP/reference	0.79523	0.01
43DAP/reference	0.74502	0.011
47DAP/reference	0.94379	0.383
52DAP/reference	0.76467	0.022
57DAP/reference	0.98151	0.53

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89097	0.342
17DAP/reference	1.26177	0.471
27DAP/reference	1.08273	0.948
39DAP/reference	1.16288	0.571
41DAP/reference	1.18536	0.573
42DAP/reference	1.28964	0.062
43DAP/reference	1.27493	0.417
47DAP/reference	1.3941	0.024
52DAP/reference	1.23807	0.528
57DAP/reference	1.33285	0.269

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73437	0.043
17DAP/reference	0.79519	0.073
27DAP/reference	0.83818	0.147
39DAP/reference	1.00322	0.643
41DAP/reference	1.04921	0.605
42DAP/reference	1.24864	0.131
43DAP/reference	1.30878	0.064
47DAP/reference	1.46796	0.015
52DAP/reference	0.91749	0.385
57DAP/reference	1.12878	0.522

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.48271	0.966
26DAP/20DAP	2.55904	0.098
34DAP/26DAP	0.79918	0.174
51DAP/34DAP	0.79461	0.19
52DAP/51DAP	1.06575	0.616
53DAP/52DAP	1.01575	0.961
55DAP/53DAP	1.14488	0.555
57DAP/55DAP	1.06554	1
62DAP/57DAP	1.14421	0.868
68DAP/62DAP	1.17434	0.657
68DAP/14DAP	0.89065	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.03526	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.79287	0.018
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.9903	N/A
Mature Eggplant/Ripe Tomato	1.01598	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.33598	0.742
1-1-2/M82	1.00255	1
12-2/M82	0.85796	0.955
12-4/M82	1.09401	0.611
1-3/M82	1.18053	1
2-1-1/M82	1.22566	N/A
2-1/M82	1.38733	1
2-6/M82	1.13779	0.594
3-2/M82	1.86407	N/A
4-1-1/M82	1.03217	1
4-1/M82	1.0068	N/A
4-3-2/M82	1.05528	N/A
4-3/M82	1.10176	1
5-3/M82	0.96801	1
6-2/M82	1.85208	N/A
6-3/M82	0.99097	1
7-1/M82	0.99483	N/A
7-2/M82	0.95599	0.796
9-3-2/M82	1.23382	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.58908	0.277
IL2-6/WTpooled	0.93411	1
IL7-5/WTpooled	1.19162	0.792
IL7-3/WTpooled	1.15116	1
IL12-4/WTpooled	1.14577	0.737
IL1-4/WTpooled	1.16559	0.426
WT/WTpooled	0.89963	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	1.11044	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9756	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.53638	1
DC3000/delta hrp 24h	0.72417	0.111

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.24998	0.063
DC3000 delta B/DC3000 delta AB	1.41415	0.086

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	0.9947	1
Var 0h	0.98272	1
Var 12h I row2-row1	0.94933	0.705
Var 12h NI row2-row1	1.12727	0.649
Var 36h I row2-row1	1.1093	1
Var 36h NI row2-row1	0.8962	0.61
Var 60h I row2-row1	0.82971	0.439
Var 60h NI row2-row1	0.86013	0.818
Time course 0hI-0hNI	1.11772	0.537
Time course 12hI-12hNI	1.0217	0.854
Time course 36hI-36hNI	1.27914	0.039
Time course 60hI-60hNI	1.79651	0.008

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)	0.83137	0.567
transgenic ySAMdc/azygous control (breaker)	1.08353	1
transgenic ySAMdc/azygous control (red)	0.80587	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90905	0.049

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)	0.70898	0.285
Manapal/WT (red)	0.98269	0.863