Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.7.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17379	0.561
27DAP/17DAP	1.32421	0.746
39DAP/27DAP	0.8475	0.487
41DAP/39DAP	1.13576	0.63
42DAP/41DAP	1.13398	0.871
43DAP/42DAP	1.09791	0.962
47DAP/43DAP	1.27492	0.497
52DAP/47DAP	0.83006	0.551
57DAP/52DAP	1.00215	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89941	0.103
17DAP/reference	0.94156	0.26
27DAP/reference	0.96457	0.552
39DAP/reference	0.96695	0.651
41DAP/reference	1.02282	1
42DAP/reference	0.96182	0.176
43DAP/reference	1.02323	0.787
47DAP/reference	0.89614	0.027
52DAP/reference	0.91074	0.23
57DAP/reference	1.11476	0.392

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02938	0.719
27DAP/17DAP	1.08645	0.69
39DAP/27DAP	1.01486	0.751
41DAP/39DAP	1.01005	1
42DAP/41DAP	1.01838	0.886
43DAP/42DAP	0.99832	1
47DAP/43DAP	1.00828	0.951
52DAP/47DAP	1.04259	0.816
57DAP/52DAP	0.99353	0.828
57DAP/7DAP	1.00734	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97794	0.613
17DAP/reference	0.94826	0.094
27DAP/reference	0.98923	0.303
39DAP/reference	0.89959	0.02
41DAP/reference	0.95701	0.357
42DAP/reference	0.8999	0.014
43DAP/reference	0.9544	0.351
47DAP/reference	0.86787	0.128
52DAP/reference	0.96162	0.232
57DAP/reference	1.08574	0.571

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12964	0.071
17DAP/reference	1.07677	0.385
27DAP/reference	1.14317	0.388
39DAP/reference	0.99196	0.586
41DAP/reference	1.05779	0.799
42DAP/reference	0.97646	0.482
43DAP/reference	1.31137	0.157
47DAP/reference	1.08154	0.169
52DAP/reference	1.14325	0.098
57DAP/reference	1.26973	0.048

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92537	0.077
17DAP/reference	1.06157	0.427
27DAP/reference	1.03118	0.695
39DAP/reference	1.02219	0.773
41DAP/reference	1.12407	0.411
42DAP/reference	1.11033	0.5
43DAP/reference	0.86304	0.035
47DAP/reference	1.0032	0.754
52DAP/reference	1.05369	0.664
57DAP/reference	1.11421	0.522

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97593	1
26DAP/20DAP	1.00372	1
34DAP/26DAP	0.97796	0.961
51DAP/34DAP	1.12151	0.126
52DAP/51DAP	1.02634	0.77
53DAP/52DAP	0.97184	0.848
55DAP/53DAP	0.96488	0.663
57DAP/55DAP	1.02508	0.898
62DAP/57DAP	0.9954	1
68DAP/62DAP	0.71011	0.135
68DAP/14DAP	0.71351	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0564	0.439

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.66546	0.045
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	2.13801
Mature Eggplant/Ripe Tomato	0.88094	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07338	0.591
1-1-2/M82	1.03462	1
12-2/M82	1.00039	1
12-4/M82	1.12178	0.694
1-3/M82	1.14178	0.479
2-1-1/M82	0.98606	1
2-1/M82	N/A	N/A
2-6/M82	0.88452	1
3-2/M82	0.99625	1
4-1-1/M82	1.01258	0.977
4-1/M82	0.53668	1
4-3-2/M82	0.97001	1
4-3/M82	0.98042	1
5-3/M82	1.10085	0.572
6-2/M82	1.01389	1
6-3/M82	0.89409	1
7-1/M82	0.97905	1
7-2/M82	0.94161	1
9-3-2/M82	1.04248	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.16334	0.493
IL2-6/WTpooled	1.01871	1
IL7-5/WTpooled	0.90576	1
IL7-3/WTpooled	0.86117	0.31
IL12-4/WTpooled	0.917	0.581
IL1-4/WTpooled	1.36838	1
WT/WTpooled	0.89199	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	0.82152	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13516	0.921
DC3000/delta hrp 6h	0.62072
DC3000/delta hrp 12h	0.84838	1
DC3000/delta hrp 24h	1.02658

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.15092	0.045
DC3000 delta B/DC3000 delta AB	1.12119	0.259

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	0.9934	1
Var 0h	0.96883	1
Var 12h I row2-row1	1.18196	0.197
Var 12h NI row2-row1	1.10008	0.649
Var 36h I row2-row1	0.8293	0.805
Var 36h NI row2-row1	0.94665	0.469
Var 60h I row2-row1	1.0583	1
Var 60h NI row2-row1	1.06261	0.904
Time course 0hI-0hNI	1.02458	1
Time course 12hI-12hNI	1.09874	0.493
Time course 36hI-36hNI	1.00041	0.798
Time course 60hI-60hNI	1.29973	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)	1.09881	0.863
transgenic ySAMdc/azygous control (breaker)	0.98594	1
transgenic ySAMdc/azygous control (red)	2.68357	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03163	0.148

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03702	1

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)	N/A	N/A
Manapal/WT (red)	1.11624	0.413