Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.3.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92765	0.671
27DAP/17DAP	1.1371	0.873
39DAP/27DAP	0.78653	0.41
41DAP/39DAP	1.20505	0.447
42DAP/41DAP	1.02342	1
43DAP/42DAP	1.19171	0.906
47DAP/43DAP	1.10924	0.68
52DAP/47DAP	1.04173	0.949
57DAP/52DAP	1.32459	0.918

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95761	0.362
17DAP/reference	0.77273	0.031
27DAP/reference	0.96364	0.683
39DAP/reference	0.99736	0.991
41DAP/reference	0.68058	0.026
42DAP/reference	0.73937	0.008
43DAP/reference	0.94884
47DAP/reference	0.76992	0.003
52DAP/reference	1.02595	1
57DAP/reference	0.28274

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11928	0.736
27DAP/17DAP	0.87114	0.724
39DAP/27DAP	0.94645	0.682
41DAP/39DAP	1.18228	0.748
42DAP/41DAP	0.95034	0.637
43DAP/42DAP	1.07907	1
47DAP/43DAP	0.9765	0.896
52DAP/47DAP	1.12613	0.681
57DAP/52DAP	1.4761	0.048
57DAP/7DAP	1.1719	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.60669	0.063
17DAP/reference	0.7172	0.049
27DAP/reference	0.72974	0.01
39DAP/reference	0.7023	0.018
41DAP/reference	0.64352	0.018
42DAP/reference	0.72009	0.066
43DAP/reference	0.68467	0.011
47DAP/reference	0.8788	0.293
52DAP/reference	0.58931	0.012
57DAP/reference	0.71579	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91403	0.399
17DAP/reference	0.88058	0.214
27DAP/reference	0.89116	0.071
39DAP/reference	0.9006	0.173
41DAP/reference	0.96867	0.393
42DAP/reference	0.91408	0.108
43DAP/reference	0.77661	0.018
47DAP/reference	0.82899	0.014
52DAP/reference	0.94021	0.302
57DAP/reference	0.77065	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74694	0.049
17DAP/reference	0.88037	0.162
27DAP/reference	0.78284	0.078
39DAP/reference	0.81215	0.017
41DAP/reference	0.81758	0.07
42DAP/reference	0.82686	0.087
43DAP/reference	0.82481	0.092
47DAP/reference	1.88689	0.501
52DAP/reference	0.76616	0.18
57DAP/reference	1.19165	0.291

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.3297	0.966
26DAP/20DAP	1.03405	1
34DAP/26DAP	0.79044	0.35
51DAP/34DAP	1.19491	0.654
52DAP/51DAP	0.80721	1
53DAP/52DAP	1.31074	0.723
55DAP/53DAP	1.21798	0.434
57DAP/55DAP	0.78958	0.479
62DAP/57DAP	4.70896
68DAP/62DAP	1.45441	0.864
68DAP/14DAP	1.57288	0.179

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.49353	0.212

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.6986	0.265
Mature Green Tomato/Ripe Tomato	2.51947	0.018
Immature Eggplant/Mature Eggplant	0.81603	0.254
Ripe Pepper/Ripe Tomato	0.32945
Mature Eggplant/Ripe Tomato	0.87414	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.00097	1
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	1.26119	0.512
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.94039	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.05144
7-2/M82	1.08124
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.19798	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.95724	1
IL7-3/WTpooled	1.10559	1
IL12-4/WTpooled	0.66832	0.71
IL1-4/WTpooled	0.99202	1
WT/WTpooled	1.16366	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	0.85161	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.2933	0.921
DC3000/delta hrp 6h	0.95231	0.95
DC3000/delta hrp 12h	1.0885	1
DC3000/delta hrp 24h	1.1498	0.467

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03503	1
Exp 36h	0.56784	0.406
Exp 60h	0.58806	0.251

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01566	1
Var 0h	0.57115	1
Var 12h I row2-row1	0.84212	0.39
Var 12h NI row2-row1	1.10697	1
Var 36h I row2-row1	0.82793	0.438
Var 36h NI row2-row1	0.69514	0.645
Var 60h I row2-row1	0.84958	0.285
Var 60h NI row2-row1	1.28668	0.31
Time course 0hI-0hNI	0.87176	0.259
Time course 12hI-12hNI	1.01942	0.888
Time course 36hI-36hNI	1.02061	0.975
Time course 60hI-60hNI	1.18782	0.137

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)	1.03324	0.482
transgenic ySAMdc/azygous control (breaker)	1.22018	0.248
transgenic ySAMdc/azygous control (red)	0.84512	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02961	0.317

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.59069	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.14298	0.307
Manapal/WT (break)	1.28022	0.381
Manapal/WT (red)	1.11979	0.413