Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.18.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.24124	0.811
27DAP/17DAP	1.98358	0.389
39DAP/27DAP	0.71488	0.443
41DAP/39DAP	0.71756	0.218
42DAP/41DAP	1.00654	1
43DAP/42DAP	1.11346	0.894
47DAP/43DAP	0.52969	0.049
52DAP/47DAP	3.68608	0.02
57DAP/52DAP	0.69248	0.596

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25392	0.018
17DAP/reference	0.80727	0.097
27DAP/reference	1.21541	0.194
39DAP/reference	0.61701	0.012
41DAP/reference	0.65115	0.018
42DAP/reference	2.37938	0.001
43DAP/reference	0.84705	0.054
47DAP/reference	0.91489	0.207
52DAP/reference	1.0844	0.912
57DAP/reference	1.07999	0.31

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31967	1
27DAP/17DAP	0.9562	0.854
39DAP/27DAP	1.15981	0.496
41DAP/39DAP	1.89431	0.009
42DAP/41DAP	0.73044	0.044
43DAP/42DAP	1.15633	0.192
47DAP/43DAP	1.21585	0.087
52DAP/47DAP	2.58486	0.048
57DAP/52DAP	4.13134	0.029
57DAP/7DAP	3.37073	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98662	0.613
17DAP/reference	1.509	0.023
27DAP/reference	0.8839	0.117
39DAP/reference	1.27935	0.029
41DAP/reference	1.52554	0.011
42DAP/reference	1.51548	0.1
43DAP/reference	2.5576	0.006
47DAP/reference	0.74193	0.101
52DAP/reference	1.61682	0.031
57DAP/reference	4.52973	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89593	0.353
17DAP/reference	1.42073	0.011
27DAP/reference	1.14556	0.38
39DAP/reference	1.08424	0.764
41DAP/reference	2.08144	0.005
42DAP/reference	1.35504	0.012
43DAP/reference	1.02794	0.539
47DAP/reference	1.35547	0.01
52DAP/reference	0.90127	0.066
57DAP/reference	1.18902	0.286

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83314	0.098
17DAP/reference	1.06172	0.488
27DAP/reference	1.51883	0.022
39DAP/reference	1.52397	0.005
41DAP/reference	1.00062	0.826
42DAP/reference	1.07712	0.893
43DAP/reference	1.70851	0.007
47DAP/reference	1.19037	0.207
52DAP/reference	2.62703	0.036
57DAP/reference	2.11892	0.006

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.23157	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.52555	1
51DAP/34DAP	1.44397
52DAP/51DAP	1.15412	0.651
53DAP/52DAP	1.13867	0.697
55DAP/53DAP	1.01256	0.908
57DAP/55DAP	0.79136	0.286
62DAP/57DAP	0.90356	0.466
68DAP/62DAP	1.36573	0.507
68DAP/14DAP	1.45114	0.032

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.54708	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.4165	0.08
Mature Green Tomato/Ripe Tomato	0.47927	0.022
Immature Eggplant/Mature Eggplant	1.17964	0.205
Ripe Pepper/Ripe Tomato	0.27503	0.224
Mature Eggplant/Ripe Tomato	0.28898	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.88694	0.605
1-1-2/M82	0.66324
12-2/M82	3.50777
12-4/M82	0.72041	0.619
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	1.21461
2-6/M82	2.02983	0.695
3-2/M82	N/A	N/A
4-1-1/M82	2.26329
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.18326	1
5-3/M82	0.32757	0.419
6-2/M82	2.80559	0.198
6-3/M82	1.45629
7-1/M82	0.54687	0.509
7-2/M82	1.6121	0.385
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	1.74703	0.409
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.51588	0.298
IL12-4/WTpooled	1.21107	0.673
IL1-4/WTpooled	1.0086
WT/WTpooled	0.99492	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	1.88037	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.15989	0.692
DC3000/delta hrp 6h	1.40976	0.857
DC3000/delta hrp 12h	1.01201	1
DC3000/delta hrp 24h	1.09772	0.383

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	3.15508
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	1.26022	0.227
Exp 36h	1.13091	0.489
Exp 60h	1.45449	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97498	1
Var 0h	0.84038	0.933
Var 12h I row2-row1	1.24672	0.692
Var 12h NI row2-row1	1.00415	1
Var 36h I row2-row1	1.0041	1
Var 36h NI row2-row1	3.37634	1
Var 60h I row2-row1	0.82446	0.285
Var 60h NI row2-row1	1.29558	1
Time course 0hI-0hNI	1.20695	0.218
Time course 12hI-12hNI	1.24558	0.07
Time course 36hI-36hNI	2.97722	0.004
Time course 60hI-60hNI	12.3132	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)	1.81647	0.36
transgenic ySAMdc/azygous control (breaker)	0.55892	0.132
transgenic ySAMdc/azygous control (red)	1.19837	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06129	0.223

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.13596	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.61885	0.172
Manapal/WT (break)	0.61503	0.333
Manapal/WT (red)	0.84352	0.315