Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-3.1.3.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04216	0.961
27DAP/17DAP	1.38641	0.842
39DAP/27DAP	1.10028	0.906
41DAP/39DAP	0.83106	0.433
42DAP/41DAP	1.3823	0.777
43DAP/42DAP	0.87969	0.813
47DAP/43DAP	1.14869	0.68
52DAP/47DAP	0.82168	0.54
57DAP/52DAP	1.03912	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11855	0.29
17DAP/reference	1.0048	1
27DAP/reference	0.98784	0.725
39DAP/reference	0.99082	0.75
41DAP/reference	1.27689	0.312
42DAP/reference	0.80995	0.021
43DAP/reference	1.0793	0.403
47DAP/reference	0.74092	0.001
52DAP/reference	0.94349	0.416
57DAP/reference	1.20536	0.682

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91528	0.578
27DAP/17DAP	0.82264	0.363
39DAP/27DAP	1.23201	0.337
41DAP/39DAP	0.7654	0.083
42DAP/41DAP	0.98444	0.801
43DAP/42DAP	1.17368	0.351
47DAP/43DAP	0.78468	0.119
52DAP/47DAP	1.43969	0.192
57DAP/52DAP	1.60789	0.048
57DAP/7DAP	1.03682	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07691	0.813
17DAP/reference	1.07813	0.574
27DAP/reference	1.09497	0.551
39DAP/reference	0.95926	0.411
41DAP/reference	0.92221	0.284
42DAP/reference	1.12715	0.686
43DAP/reference	1.21612	0.087
47DAP/reference	0.79704	0.101
52DAP/reference	1.04604	0.732
57DAP/reference	0.92332	0.27

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80083	0.19
17DAP/reference	0.88466	0.214
27DAP/reference	0.87557	0.104
39DAP/reference	0.84206	0.091
41DAP/reference	0.81055	0.052
42DAP/reference	0.92585	0.081
43DAP/reference	0.96775	0.527
47DAP/reference	0.90804	0.129
52DAP/reference	0.83432	0.007
57DAP/reference	0.87979	0.169

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10883	0.287
17DAP/reference	0.96196	0.56
27DAP/reference	1.08392	0.721
39DAP/reference	0.96302	0.504
41DAP/reference	1.11151	0.637
42DAP/reference	1.22241	0.204
43DAP/reference	1.03017	0.973
47DAP/reference	0.96673	0.452
52DAP/reference	1.3749	0.583
57DAP/reference	0.79011	0.032

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98246	1
26DAP/20DAP	1.32946	0.562
34DAP/26DAP	1.63128	1
51DAP/34DAP	1.81824	0.251
52DAP/51DAP	1.73555	0.218
53DAP/52DAP	0.93612	0.75
55DAP/53DAP	1.08778	0.834
57DAP/55DAP	0.85214	0.403
62DAP/57DAP	1.39767	0.833
68DAP/62DAP	1.48616	0.8
68DAP/14DAP	2.14606	0.328

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.49023	0.024

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.34477	1
Mature Green Tomato/Ripe Tomato	1.98614	0.023
Immature Eggplant/Mature Eggplant	2.24072	0.398
Ripe Pepper/Ripe Tomato	8.08476	1
Mature Eggplant/Ripe Tomato	4.43259	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.8821	0.613
1-1-2/M82	N/A	N/A
12-2/M82	1.09034	N/A
12-4/M82	1.16864	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	1.03682	N/A
3-2/M82	N/A	N/A
4-1-1/M82	0.86534	0.985
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.79075	0.611
5-3/M82	0.92049	1
6-2/M82	N/A	N/A
6-3/M82	0.88604	N/A
7-1/M82	1.23348	N/A
7-2/M82	0.95344	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.06158	0.493
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.09129	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.72674	N/A
IL1-4/WTpooled	1.10957	1
WT/WTpooled	N/A	N/A

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	0.89214	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94926	1
DC3000/delta hrp 6h	0.99679	0.95
DC3000/delta hrp 12h	1.2331	1
DC3000/delta hrp 24h	1.06356	0.728

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.92305	N/A
DC3000 delta B/DC3000 delta AB	0.82796	0.167

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01064	1
Exp 36h	0.79421	0.406
Exp 60h	0.8997	0.664

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	1.00668	1
Var 12h I row2-row1	1.45276	0.692
Var 12h NI row2-row1	0.7375	0.713
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	0.96844	0.852
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.88016	0.904
Time course 0hI-0hNI	1.10612	N/A
Time course 12hI-12hNI	0.83949	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.9918	0.931
transgenic ySAMdc/azygous control (breaker)	0.88618	0.49
transgenic ySAMdc/azygous control (red)	0.88947	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.20847	0.033

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.7216	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.672	1
Manapal/WT (break)	0.86322	1
Manapal/WT (red)	2.49653	0.413