Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.1.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98371	0.847
27DAP/17DAP	1.26208	0.833
39DAP/27DAP	1.24067	0.725
41DAP/39DAP	1.10076	1
42DAP/41DAP	0.92178	1
43DAP/42DAP	0.68055	0.583
47DAP/43DAP	0.96961	0.828
52DAP/47DAP	0.7374	0.418
57DAP/52DAP	1.37357	0.948

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16306	0.049
17DAP/reference	1.09002	0.248
27DAP/reference	0.93988	0.257
39DAP/reference	1.20468	0.015
41DAP/reference	1.13837	0.133
42DAP/reference	0.98945	0.425
43DAP/reference	1.00775	0.942
47DAP/reference	1.09233	0.306
52DAP/reference	0.95553	0.3
57DAP/reference	0.95149	0.199

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95282	0.595
27DAP/17DAP	1.08121	0.805
39DAP/27DAP	1.08909	0.691
41DAP/39DAP	1.0694	1
42DAP/41DAP	1.05542	0.984
43DAP/42DAP	1.06116	0.83
47DAP/43DAP	0.89323	0.247
52DAP/47DAP	1.01973	1
57DAP/52DAP	1.08501	1
57DAP/7DAP	1.63716	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8372	0.108
17DAP/reference	1.29557	0.049
27DAP/reference	1.09386	0.073
39DAP/reference	2.92663	0.198
41DAP/reference	2.07026	0.28
42DAP/reference	4.87705	0.009
43DAP/reference	2.79757	0.083
47DAP/reference	1.81177	0.353
52DAP/reference	0.86537	0.126
57DAP/reference	0.97827	0.314

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11992	0.538
17DAP/reference	0.98847	0.659
27DAP/reference	0.95231	0.304
39DAP/reference	1.16591	0.128
41DAP/reference	0.99554	0.615
42DAP/reference	0.93289	0.289
43DAP/reference	1.07537	0.751
47DAP/reference	0.88611	0.049
52DAP/reference	1.30469	0.006
57DAP/reference	1.2547	0.052

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92553	0.23
17DAP/reference	0.89475	0.268
27DAP/reference	1.0173	0.903
39DAP/reference	1.06706	0.578
41DAP/reference	1.26827	0.369
42DAP/reference	1.2253	0.032
43DAP/reference	1.0734	0.625
47DAP/reference	1.2698	0.011
52DAP/reference	0.80897	0.169
57DAP/reference	1.05455	0.592

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11267	0.966
26DAP/20DAP	1.13759	0.931
34DAP/26DAP	1.64539	1
51DAP/34DAP	0.82435	0.292
52DAP/51DAP	0.92314
53DAP/52DAP	0.91678	0.621
55DAP/53DAP	0.99816	0.925
57DAP/55DAP	1.05959	0.839
62DAP/57DAP	1.19654	0.445
68DAP/62DAP	0.93949	0.668
68DAP/14DAP	0.89339	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93328	0.443

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.0474
Mature Green Tomato/Ripe Tomato	0.78828
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.44023
Mature Eggplant/Ripe Tomato	1.53923

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.93032
12-2/M82	N/A	N/A
12-4/M82	1.05985
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	0.9711
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.8804
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.67348	0.277
IL2-6/WTpooled	1.4656	0.419
IL7-5/WTpooled	0.97707	1
IL7-3/WTpooled	1.29942	1
IL12-4/WTpooled	1.58699	0.557
IL1-4/WTpooled	1.59346	0.426
WT/WTpooled	0.97727	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	0.97391

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09295	0.846
DC3000/delta hrp 6h	0.82722	0.95
DC3000/delta hrp 12h	0.99812	1
DC3000/delta hrp 24h	1.02349	0.821

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.19775
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98512	1
Exp 36h	0.88336	0.749
Exp 60h	1.00532	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.89595	1
Var 0h	1.17838	0.936
Var 12h I row2-row1	1.06256	0.692
Var 12h NI row2-row1	1.04226	0.649
Var 36h I row2-row1	0.87183	1
Var 36h NI row2-row1	0.94017	0.791
Var 60h I row2-row1	1.03832	1
Var 60h NI row2-row1	1.45794	0.904
Time course 0hI-0hNI	0.9317	0.609
Time course 12hI-12hNI	1.06691	0.599
Time course 36hI-36hNI	0.87302	0.045
Time course 60hI-60hNI	0.94412	0.319

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)	1.05259	0.331
transgenic ySAMdc/azygous control (breaker)	0.81518	0.142
transgenic ySAMdc/azygous control (red)	0.98251	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00509	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86719	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03848	1
Manapal/WT (break)	1.29399	0.183
Manapal/WT (red)	1.22722	0.413