Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.3.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01541	0.932
27DAP/17DAP	0.94815	0.928
39DAP/27DAP	0.93789	0.641
41DAP/39DAP	1.04995	0.929
42DAP/41DAP	0.86004	1
43DAP/42DAP	0.98078	0.925
47DAP/43DAP	0.97177	0.879
52DAP/47DAP	1.03842	0.953
57DAP/52DAP	1.01526	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12015	0.126
17DAP/reference	0.8963	0.448
27DAP/reference	1.00108	0.923
39DAP/reference	0.92964	0.527
41DAP/reference	0.93753	0.201
42DAP/reference	1.06133	1
43DAP/reference	0.94881	0.805
47DAP/reference	1.18623	0.028
52DAP/reference	0.85691	0.258
57DAP/reference	1.13506

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02308	0.797
27DAP/17DAP	1.01685	0.945
39DAP/27DAP	0.98006	0.759
41DAP/39DAP	1.01375	0.914
42DAP/41DAP	1.01233	0.984
43DAP/42DAP	1.06547	0.094
47DAP/43DAP	1.00399	0.957
52DAP/47DAP	1.0328	0.851
57DAP/52DAP	1.02493	0.891
57DAP/7DAP	0.99967	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97724	0.361
17DAP/reference	0.99658	0.599
27DAP/reference	1.06646	0.197
39DAP/reference	0.98424	0.354
41DAP/reference	0.95264	0.311
42DAP/reference	0.95907	0.058
43DAP/reference	0.9753	0.385
47DAP/reference	0.93199	0.293
52DAP/reference	1.02014	0.886
57DAP/reference	0.98755	0.569

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13093	0.16
17DAP/reference	1.19289	0.056
27DAP/reference	1.3387	0.034
39DAP/reference	1.26257	0.085
41DAP/reference	1.25339	0.036
42DAP/reference	1.175	0.274
43DAP/reference	1.09768	0.38
47DAP/reference	1.01375	0.867
52DAP/reference	1.16546	0.053
57DAP/reference	1.1679	0.085

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0068	0.918
17DAP/reference	0.99984	0.886
27DAP/reference	1.03014	0.34
39DAP/reference	1.06888	0.078
41DAP/reference	1.03307	0.411
42DAP/reference	1.04797	0.5
43DAP/reference	1.0638	0.439
47DAP/reference	1.07236	0.147
52DAP/reference	1.05622	0.631
57DAP/reference	1.1475	0.138

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01028	1
26DAP/20DAP	0.98487	1
34DAP/26DAP	1.06527	0.819
51DAP/34DAP	0.98346	0.883
52DAP/51DAP	0.98422	1
53DAP/52DAP	0.85979	0.177
55DAP/53DAP	0.98474	0.876
57DAP/55DAP	1.09276	0.793
62DAP/57DAP	0.83005
68DAP/62DAP	1.26169
68DAP/14DAP	1.03827	0.915

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00927	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.81728	0.274
Mature Green Tomato/Ripe Tomato	1.19925	0.632
Immature Eggplant/Mature Eggplant	0.63658	0.089
Ripe Pepper/Ripe Tomato	2.70004
Mature Eggplant/Ripe Tomato	1.10763	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.14012	0.742
1-1-2/M82	0.94021	1
12-2/M82	1.05342	1
12-4/M82	0.98656	1
1-3/M82	1.17784	0.479
2-1-1/M82	1.27602	0.689
2-1/M82	0.74008	0.74
2-6/M82	1.046	0.594
3-2/M82	1.01565	1
4-1-1/M82	1.0831	1
4-1/M82	0.93848
4-3-2/M82	0.8942	0.698
4-3/M82	0.91638	1
5-3/M82	1.00989	1
6-2/M82	1.05908	1
6-3/M82	0.9342	1
7-1/M82	1.0337	1
7-2/M82	1.1573	0.385
9-3-2/M82	0.85788	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.93811	0.321
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.22712	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.07166	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	1.12736	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06784	0.921
DC3000/delta hrp 6h	1.21185	0.631
DC3000/delta hrp 12h	1.16109	1
DC3000/delta hrp 24h	0.91118	0.387

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.03694	0.313
DC3000 delta B/DC3000 delta AB	1.0902	0.389

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.21526	1
Exp 36h	0.77345	0.623
Exp 60h	0.78364	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99133	1
Var 0h	0.98078	1
Var 12h I row2-row1	1.003	1
Var 12h NI row2-row1	1.00347	1
Var 36h I row2-row1	0.99635	1
Var 36h NI row2-row1	0.97742	0.791
Var 60h I row2-row1	1.09336	0.562
Var 60h NI row2-row1	1.0832	0.904
Time course 0hI-0hNI	1.05081	0.764
Time course 12hI-12hNI	0.95051	0.382
Time course 36hI-36hNI	0.83188	0.023
Time course 60hI-60hNI	0.91229	0.081

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)	1.28299	0.36
transgenic ySAMdc/azygous control (breaker)	1.41115	0.161
transgenic ySAMdc/azygous control (red)	1.1351	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98764	0.517

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.23518	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.78939	0.083
Manapal/WT (break)	2.08755	0.13
Manapal/WT (red)	2.62876	0.134