Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.5.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22502	0.838
27DAP/17DAP	1.34976	0.749
39DAP/27DAP	0.91987	0.608
41DAP/39DAP	1.33264	0.222
42DAP/41DAP	0.97179	1
43DAP/42DAP	1.15935	0.91
47DAP/43DAP	1.02043	0.943
52DAP/47DAP	0.87452	0.612
57DAP/52DAP	0.67896	0.754

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80962	0.101
17DAP/reference	0.87379	0.24
27DAP/reference	0.95508	0.514
39DAP/reference	0.97296	0.663
41DAP/reference	1.11467	0.421
42DAP/reference	0.8346	0.052
43DAP/reference	0.9512	0.448
47DAP/reference	0.91371	0.322
52DAP/reference	0.97356	0.504
57DAP/reference	1.10897	0.433

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13696	0.774
27DAP/17DAP	1.20877	0.537
39DAP/27DAP	1.05568	0.659
41DAP/39DAP	0.97878	0.973
42DAP/41DAP	1.19493	0.8
43DAP/42DAP	1.13728	0.585
47DAP/43DAP	1.00296	0.983
52DAP/47DAP	1.25728	0.422
57DAP/52DAP	1.26944	0.33
57DAP/7DAP	1.25329	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84103	0.076
17DAP/reference	0.84013	0.013
27DAP/reference	0.89453	0.058
39DAP/reference	0.89733	0.064
41DAP/reference	1.09528	0.402
42DAP/reference	1.00099	1
43DAP/reference	0.77427	0.018
47DAP/reference	0.79942	0.079
52DAP/reference	0.83444	0.027
57DAP/reference	0.79584	0.045

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95965	0.592
17DAP/reference	0.93169	0.41
27DAP/reference	0.93823	0.407
39DAP/reference	0.97544	0.485
41DAP/reference	1.01402	1
42DAP/reference	0.96718	0.482
43DAP/reference	0.92944	0.378
47DAP/reference	1.03014	0.482
52DAP/reference	1.09047	0.368
57DAP/reference	1.06553	0.626

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92457	0.249
17DAP/reference	1.02725	1
27DAP/reference	0.85536	0.023
39DAP/reference	0.75362	0.011
41DAP/reference	0.89192	0.293
42DAP/reference	0.9536	0.445
43DAP/reference	0.83075	0.047
47DAP/reference	0.83911	0.215
52DAP/reference	0.768	0.164
57DAP/reference	1.0342	0.939

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20303	1
26DAP/20DAP	1.06812	0.941
34DAP/26DAP	0.86963	0.509
51DAP/34DAP	0.80127	0.498
52DAP/51DAP	0.72703	1
53DAP/52DAP	1.33555	0.552
55DAP/53DAP	1.40385	0.712
57DAP/55DAP	1.35652	0.71
62DAP/57DAP	N/A	N/A
68DAP/62DAP	N/A	N/A
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07805	0.369

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.41973	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	2.66051

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.98518
12-2/M82	N/A	N/A
12-4/M82	0.86664	0.619
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	0.79867
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	0.97412	1
6-2/M82	N/A	N/A
6-3/M82	0.92571
7-1/M82	0.96937
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	0.81433	0.243
IL2-6/WTpooled	0.88624	0.473
IL7-5/WTpooled	0.59117	1
IL7-3/WTpooled	0.93964	1
IL12-4/WTpooled	0.94334	1
IL1-4/WTpooled	0.85159	0.834
WT/WTpooled	1.06662	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	0.7869	0.256

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.87456	0.849
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.90777	1
DC3000/delta hrp 24h	0.57227	0.04

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	0.61329	0.097

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	0.97908	1
Var 0h	1.39725	0.782
Var 12h I row2-row1	0.86991	0.418
Var 12h NI row2-row1	1.04156	1
Var 36h I row2-row1	0.92306	1
Var 36h NI row2-row1	0.92596	0.645
Var 60h I row2-row1	0.8898	0.285
Var 60h NI row2-row1	1.07013	0.904
Time course 0hI-0hNI	0.96086	0.754
Time course 12hI-12hNI	0.85001	0.033
Time course 36hI-36hNI	0.76919	0.027
Time course 60hI-60hNI	0.4283	0.006

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)	1.2081	1
transgenic ySAMdc/azygous control (breaker)	0.98338	1
transgenic ySAMdc/azygous control (red)	1.30623	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9861	0.609

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.2614	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	8.77787	0.09
Manapal/WT (break)	0.97988	1
Manapal/WT (red)	N/A	N/A