Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.4.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15809	0.977
27DAP/17DAP	0.99388	0.966
39DAP/27DAP	0.801	0.458
41DAP/39DAP	0.89646	0.591
42DAP/41DAP	1.17742	0.937
43DAP/42DAP	1.16525	0.985
47DAP/43DAP	1.26915	0.156
52DAP/47DAP	1.33711	0.78
57DAP/52DAP	1.08342	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87293	0.132
17DAP/reference	0.94737	0.368
27DAP/reference	0.99758	0.867
39DAP/reference	1.02421	0.786
41DAP/reference	0.82855	0.114
42DAP/reference	0.87506	0.182
43DAP/reference	0.94184	0.41
47DAP/reference	0.95888	0.279
52DAP/reference	1.04708	0.633
57DAP/reference	1.11035	0.3

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86904	0.376
27DAP/17DAP	0.96225	0.854
39DAP/27DAP	0.98351	0.887
41DAP/39DAP	1.08635	0.896
42DAP/41DAP	1.0648	0.687
43DAP/42DAP	1.0986	0.478
47DAP/43DAP	1.37035	0.827
52DAP/47DAP	1.41469	0.441
57DAP/52DAP	1.21621	0.138
57DAP/7DAP	1.17235	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81001	0.091
17DAP/reference	1.08704	0.627
27DAP/reference	1.12225	0.664
39DAP/reference	1.08112	0.634
41DAP/reference	1.12858	0.655
42DAP/reference	1.12158	0.233
43DAP/reference	0.93075	0.252
47DAP/reference	0.99415	1
52DAP/reference	1.05269	0.636
57DAP/reference	0.99153	0.629

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85793	0.134
17DAP/reference	0.75235	0.007
27DAP/reference	0.81355	0.093
39DAP/reference	0.79704	0.081
41DAP/reference	1.07173	0.536
42DAP/reference	0.94692	0.392
43DAP/reference	0.89631	0.277
47DAP/reference	0.85048	0.012
52DAP/reference	0.96021	0.143
57DAP/reference	0.77809	0.03

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02867	1
17DAP/reference	0.9759	0.636
27DAP/reference	0.93152	0.218
39DAP/reference	1.15624	0.169
41DAP/reference	1.09664	0.621
42DAP/reference	1.06535	0.789
43DAP/reference	1.14777	0.667
47DAP/reference	0.9373	0.231
52DAP/reference	1.11192	0.499
57DAP/reference	1.01054	0.933

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99176	1
26DAP/20DAP	2.07158
34DAP/26DAP	0.53836
51DAP/34DAP	1.23261	0.637
52DAP/51DAP	1.12091	0.842
53DAP/52DAP	1.3972	0.343
55DAP/53DAP	0.90306	0.838
57DAP/55DAP	1.2524	0.87
62DAP/57DAP	1.07837	0.393
68DAP/62DAP	1.28105	0.926
68DAP/14DAP	1.51383	0.069

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07872	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.64837	0.256
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.67

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.78387
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	1.31633
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.71149
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	0.89545	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.00955	1
IL12-4/WTpooled	0.78631	0.543
IL1-4/WTpooled	1.18604
WT/WTpooled	0.97583	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	1.19387	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.89238
DC3000/delta hrp 6h	0.66211	0.95
DC3000/delta hrp 12h	1.00782	1
DC3000/delta hrp 24h	1.23131	0.453

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	1.00625	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0242	1
Exp 36h	0.95062	1
Exp 60h	0.87968	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.92149	1
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.1236	0.541
transgenic ySAMdc/azygous control (breaker)	1.70117	1
transgenic ySAMdc/azygous control (red)	1.37002	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03214	0.204

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.95792	0.59

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)	0.89801	0.607