Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.9.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20348	0.615
27DAP/17DAP	1.14588	0.881
39DAP/27DAP	1.12597	0.755
41DAP/39DAP	0.97046	0.852
42DAP/41DAP	0.77715	0.397
43DAP/42DAP	0.82025	0.554
47DAP/43DAP	0.68143	0.16
52DAP/47DAP	0.77167	0.496
57DAP/52DAP	0.91949	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79084	0.078
17DAP/reference	1.04321	0.565
27DAP/reference	0.88057	0.141
39DAP/reference	1.14139	0.181
41DAP/reference	1.00488	1
42DAP/reference	0.90398	0.151
43DAP/reference	1.07786	0.518
47DAP/reference	0.98476	0.473
52DAP/reference	1.06159	0.576
57DAP/reference	1.07359	0.419

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08816	0.728
27DAP/17DAP	0.99024	0.919
39DAP/27DAP	0.93041	0.54
41DAP/39DAP	0.87932	0.495
42DAP/41DAP	0.97549	0.764
43DAP/42DAP	1.05069	0.554
47DAP/43DAP	1.15848	0.54
52DAP/47DAP	0.68578	0.645
57DAP/52DAP	0.99559	0.841
57DAP/7DAP	1.17198	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86023	0.082
17DAP/reference	1.21005	0.112
27DAP/reference	1.32231	0.014
39DAP/reference	1.13594	0.237
41DAP/reference	1.02427	0.811
42DAP/reference	1.26441	0.534
43DAP/reference	1.12188	0.325
47DAP/reference	1.06601	0.915
52DAP/reference	1.04021	1
57DAP/reference	1.13092	0.147

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32404	0.125
17DAP/reference	1.0292	1
27DAP/reference	1.00616	0.642
39DAP/reference	0.86305	0.089
41DAP/reference	0.85364	0.07
42DAP/reference	1.02702	0.899
43DAP/reference	1.18862	0.489
47DAP/reference	1.01017	1
52DAP/reference	0.9599	0.433
57DAP/reference	1.06522	0.93

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94969	0.362
17DAP/reference	1.06588	0.627
27DAP/reference	1.46075	0.023
39DAP/reference	1.19967	0.062
41DAP/reference	1.22793	0.013
42DAP/reference	1.15395	0.272
43DAP/reference	1.18292	0.608
47DAP/reference	0.97061	0.538
52DAP/reference	1.12229	0.826
57DAP/reference	0.99199	0.753

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09459	0.966
26DAP/20DAP	1.4834	0.305
34DAP/26DAP	0.86191	0.682
51DAP/34DAP	1.15984	0.215
52DAP/51DAP	0.8959	1
53DAP/52DAP	1.2675	0.565
55DAP/53DAP	1.06147	0.869
57DAP/55DAP	0.8236	0.443
62DAP/57DAP	0.91919	0.681
68DAP/62DAP	1.16062	0.533
68DAP/14DAP	0.6666	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.78528	0.097

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.69391	0.165
Immature Eggplant/Mature Eggplant	2.67931
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.89599	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.04916	1
12-2/M82	1.02937
12-4/M82	1.02966	1
1-3/M82	0.96199	1
2-1-1/M82	0.90499	1
2-1/M82	N/A	N/A
2-6/M82	0.95894	1
3-2/M82	0.82115
4-1-1/M82	N/A	N/A
4-1/M82	1.46613
4-3-2/M82	N/A	N/A
4-3/M82	1.12587	1
5-3/M82	0.83566	1
6-2/M82	0.73288	1
6-3/M82	1.03898
7-1/M82	1.0954	1
7-2/M82	0.69657	0.57
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.90921	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.11491	1
IL12-4/WTpooled	1.0848	0.695
IL1-4/WTpooled	1.32688
WT/WTpooled	1.03043	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	0.96529	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01491	1
DC3000/delta hrp 6h	0.89325	0.95
DC3000/delta hrp 12h	0.99053	1
DC3000/delta hrp 24h	1.09429	0.383

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	0.88587

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	0.98282	1
Var 0h	0.96047	1
Var 12h I row2-row1	1.12044	0.406
Var 12h NI row2-row1	1.16642	1
Var 36h I row2-row1	1.07594	0.908
Var 36h NI row2-row1	1.20002	1
Var 60h I row2-row1	0.80853	0.306
Var 60h NI row2-row1	1.02305	1
Time course 0hI-0hNI	1.02386	0.799
Time course 12hI-12hNI	1.10364	0.317
Time course 36hI-36hNI	1.20518	0.031
Time course 60hI-60hNI	1.18033	0.302

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)	0.9622	0.662
transgenic ySAMdc/azygous control (breaker)	1.73687	0.162
transgenic ySAMdc/azygous control (red)	1.1119	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9524	0.153

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)	0.99124	1
Manapal/WT (break)	0.7776	0.333
Manapal/WT (red)	0.69875	0.181