Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.18.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18485	0.463
27DAP/17DAP	1.11539	0.892
39DAP/27DAP	0.90331	0.549
41DAP/39DAP	1.25357	0.624
42DAP/41DAP	1.1004	0.899
43DAP/42DAP	1.12461	0.956
47DAP/43DAP	1.44715	0.469
52DAP/47DAP	1.04206	0.993
57DAP/52DAP	1.25534	0.746

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28081	0.105
17DAP/reference	1.5272	0.013
27DAP/reference	1.19165	0.375
39DAP/reference	1.56124	0.249
41DAP/reference	1.81003	0.012
42DAP/reference	1.22182	0.632
43DAP/reference	1.05021	0.678
47DAP/reference	1.13038	0.284
52DAP/reference	1.10311	0.607
57DAP/reference	0.77865	0.036

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02604	0.87
27DAP/17DAP	0.92886	0.446
39DAP/27DAP	1.11316	0.46
41DAP/39DAP	1.14624	0.641
42DAP/41DAP	0.9873	0.83
43DAP/42DAP	1.08285	0.382
47DAP/43DAP	1.05818	0.529
52DAP/47DAP	0.98246	0.917
57DAP/52DAP	1.00317	0.905
57DAP/7DAP	1.02162	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13458	0.263
17DAP/reference	0.86195	0.056
27DAP/reference	0.87811	0.042
39DAP/reference	0.99109	0.64
41DAP/reference	1.03451	0.767
42DAP/reference	0.99	0.612
43DAP/reference	0.97572	0.421
47DAP/reference	1.08659	0.298
52DAP/reference	1.0859	0.886
57DAP/reference	0.95945	0.426

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09236	0.47
17DAP/reference	1.48021	0.086
27DAP/reference	1.22941	0.089
39DAP/reference	1.18239	0.225
41DAP/reference	1.13182	0.548
42DAP/reference	1.17769	0.102
43DAP/reference	1.32727	0.045
47DAP/reference	1.33189	0.008
52DAP/reference	1.18295	0.322
57DAP/reference	1.36396	0.01

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13001	1
17DAP/reference	1.1415	0.538
27DAP/reference	0.86955	0.108
39DAP/reference	0.86976	0.111
41DAP/reference	0.9077	0.185
42DAP/reference	0.92164	0.445
43DAP/reference	0.89441	0.197
47DAP/reference	1.33972	0.044
52DAP/reference	0.84166	0.208
57DAP/reference	0.73031	0.038

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9273	1
26DAP/20DAP	0.91982	1
34DAP/26DAP	1.02334	1
51DAP/34DAP	1.11885	0.692
52DAP/51DAP	1.06623	0.77
53DAP/52DAP	0.96776	0.835
55DAP/53DAP	1.06911	0.622
57DAP/55DAP	1.08365	0.865
62DAP/57DAP	0.97788	0.994
68DAP/62DAP	1.02248	0.885
68DAP/14DAP	0.78016	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.12847	0.326

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.95252	0.611
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.73924	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.87632
12-2/M82	N/A	N/A
12-4/M82	2.08443
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	N/A	N/A
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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	0.80393
7-1/M82	N/A	N/A
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	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.21146	1
IL12-4/WTpooled	1.11472	0.785
IL1-4/WTpooled	1.05478	1
WT/WTpooled	1.10277

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	0.97123	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95234	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.12488	1
DC3000/delta hrp 24h	0.8477	0.198

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.09897	0.384
DC3000 delta B/DC3000 delta AB	0.94008	0.483

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	2.0264	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98039	1
Var 0h	0.85798	1
Var 12h I row2-row1	0.96676	0.705
Var 12h NI row2-row1	0.99679	1
Var 36h I row2-row1	0.77306	1
Var 36h NI row2-row1	1.09345	1
Var 60h I row2-row1	1.16176	1
Var 60h NI row2-row1	1.29147	0.904
Time course 0hI-0hNI	0.99558	1
Time course 12hI-12hNI	1.0247	0.754
Time course 36hI-36hNI	1.01743	0.799
Time course 60hI-60hNI	0.69637	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	0.52585	0.118
transgenic ySAMdc/azygous control (red)	0.88987	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98857	0.712

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.25537	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00972	1
Manapal/WT (break)	1.11959	1
Manapal/WT (red)	N/A	N/A