Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.13.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05406	0.893
27DAP/17DAP	1.3446	0.809
39DAP/27DAP	1.05046	0.82
41DAP/39DAP	1.36961	0.359
42DAP/41DAP	1.06156	1
43DAP/42DAP	0.94833	0.877
47DAP/43DAP	0.98556	0.934
52DAP/47DAP	1.39211	0.371
57DAP/52DAP	0.98634	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98372	0.589
17DAP/reference	1.04533	0.127
27DAP/reference	1.01877	0.735
39DAP/reference	1.00183	1
41DAP/reference	0.96459	0.542
42DAP/reference	0.91365	0.005
43DAP/reference	0.97037	0.538
47DAP/reference	0.88236	0.001
52DAP/reference	0.90611	0.177
57DAP/reference	0.84217	0.042

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93488	0.442
27DAP/17DAP	1.02765	0.98
39DAP/27DAP	1.02934	0.77
41DAP/39DAP	1.03913	0.887
42DAP/41DAP	1.03072	0.935
43DAP/42DAP	1.04151	0.664
47DAP/43DAP	1.03213	0.93
52DAP/47DAP	0.95567	0.79
57DAP/52DAP	1.04285	0.818
57DAP/7DAP	1.00895	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99384	0.682
17DAP/reference	1.13503	0.035
27DAP/reference	1.03748	0.453
39DAP/reference	1.2348	0.006
41DAP/reference	1.28982	0.015
42DAP/reference	1.38133	0.009
43DAP/reference	1.3374	0.012
47DAP/reference	1.10125	0.561
52DAP/reference	1.1858	0.012
57DAP/reference	1.21456	0.043

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05915	0.516
17DAP/reference	1.07334	0.229
27DAP/reference	0.9853	0.576
39DAP/reference	0.84423	0.087
41DAP/reference	0.87252	0.063
42DAP/reference	0.89722	0.108
43DAP/reference	0.94609	0.394
47DAP/reference	0.97302	0.368
52DAP/reference	0.99212	0.619
57DAP/reference	1.13173	0.177

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97757	0.249
17DAP/reference	0.98952	0.751
27DAP/reference	1.15992	0.171
39DAP/reference	1.18819	0.02
41DAP/reference	1.09766	0.502
42DAP/reference	0.86997	0.361
43DAP/reference	0.94014	0.416
47DAP/reference	0.91635	0.335
52DAP/reference	1.05372	0.674
57DAP/reference	0.64262	0.042

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05641	0.966
26DAP/20DAP	0.88299	0.512
34DAP/26DAP	0.94982	0.874
51DAP/34DAP	1.01738	0.909
52DAP/51DAP	0.97216	1
53DAP/52DAP	0.96103	0.783
55DAP/53DAP	1.07094	0.927
57DAP/55DAP	1.05337	0.969
62DAP/57DAP	1.0688	0.8
68DAP/62DAP	1.11498	0.821
68DAP/14DAP	0.99577	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87471	0.304

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.92304	0.411
Immature Eggplant/Mature Eggplant	1.16145	0.239
Ripe Pepper/Ripe Tomato	0.79724	1
Mature Eggplant/Ripe Tomato	2.10889	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99332	0.961
1-1-2/M82	0.89632	1
12-2/M82	1.12354	1
12-4/M82	0.96096	1
1-3/M82	0.90843	0.501
2-1-1/M82	1.12477	0.764
2-1/M82	N/A	N/A
2-6/M82	0.98327	1
3-2/M82	0.87992	0.428
4-1-1/M82	1.028	1
4-1/M82	0.95005
4-3-2/M82	0.84382	1
4-3/M82	0.90907	1
5-3/M82	1.05706	1
6-2/M82	0.98119	1
6-3/M82	1.02035	1
7-1/M82	N/A	N/A
7-2/M82	1.0179	1
9-3-2/M82	0.83787	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.87734	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.11937	1
IL12-4/WTpooled	1.00345	1
IL1-4/WTpooled	0.98507
WT/WTpooled	0.92754	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	1.21622	0.177

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00552	1
DC3000/delta hrp 6h	0.93165	0.95
DC3000/delta hrp 12h	1.18445	1
DC3000/delta hrp 24h	0.97659	0.887

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14992	0.121
DC3000 delta B/DC3000 delta AB	1.00181	1

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	1.0041	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94689	1
Var 0h	0.93286	0.933
Var 12h I row2-row1	1.06686	0.544
Var 12h NI row2-row1	1.00629	1
Var 36h I row2-row1	0.96141	1
Var 36h NI row2-row1	1.06966	1
Var 60h I row2-row1	1.33144	0.562
Var 60h NI row2-row1	1.05995	1
Time course 0hI-0hNI	1.09752	0.799
Time course 12hI-12hNI	1.07551	0.682
Time course 36hI-36hNI	1.01315	0.89
Time course 60hI-60hNI	1.33456	0.022

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)	1.08242	0.289
transgenic ySAMdc/azygous control (breaker)	1.09364	1
transgenic ySAMdc/azygous control (red)	1.11003	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00139	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92178	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.75558	0.172
Manapal/WT (break)	1.07568	1
Manapal/WT (red)	1.12251	1