Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.17.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09999	0.893
27DAP/17DAP	1.06091	0.911
39DAP/27DAP	2.08765	0.397
41DAP/39DAP	0.90335	0.681
42DAP/41DAP	0.94796	1
43DAP/42DAP	1.40282	0.682
47DAP/43DAP	1.05433	0.884
52DAP/47DAP	1.13961	0.813
57DAP/52DAP	1.39049	0.794

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.40145	0.014
17DAP/reference	1.30117	0.011
27DAP/reference	1.21911	0.128
39DAP/reference	1.20847	0.106
41DAP/reference	1.66446	0.022
42DAP/reference	1.30631	0.001
43DAP/reference	1.11772	0.252
47DAP/reference	1.12691	0.017
52DAP/reference	1.35757	0.03
57DAP/reference	1.05865	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90772	0.277
27DAP/17DAP	1.0455	0.788
39DAP/27DAP	0.9623	0.682
41DAP/39DAP	1.0136	0.921
42DAP/41DAP	1.01542	1
43DAP/42DAP	0.87851	0.116
47DAP/43DAP	0.97012	0.843
52DAP/47DAP	0.80694	0.261
57DAP/52DAP	0.92943	0.451
57DAP/7DAP	0.87777	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94547	0.445
17DAP/reference	0.88645	0.22
27DAP/reference	0.88131	0.159
39DAP/reference	1.10928	0.511
41DAP/reference	1.2407	0.184
42DAP/reference	0.86984	0.025
43DAP/reference	1.08284	1
47DAP/reference	1.04208	0.98
52DAP/reference	1.01685	0.802
57DAP/reference	1.04421	0.907

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.74201	0.095
17DAP/reference	1.61393	0.011
27DAP/reference	1.28084	0.06
39DAP/reference	1.33572	0.08
41DAP/reference	1.36041	0.018
42DAP/reference	1.39236	0.011
43DAP/reference	1.463	0.036
47DAP/reference	1.24067	0.008
52DAP/reference	1.63592	0.006
57DAP/reference	1.99051	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17431	0.74
17DAP/reference	1.30553	0.317
27DAP/reference	0.92242
39DAP/reference	6.97768	0.285
41DAP/reference	1.31782	0.674
42DAP/reference	1.24155	0.209
43DAP/reference	1.23777	0.336
47DAP/reference	1.6465	0.026
52DAP/reference	1.07771	0.928
57DAP/reference	0.80568	0.086

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.19257	0.817
26DAP/20DAP	1.48213	0.137
34DAP/26DAP	0.72414	0.099
51DAP/34DAP	0.77408	0.155
52DAP/51DAP	0.87242	1
53DAP/52DAP	0.99446	0.929
55DAP/53DAP	1.07979	0.898
57DAP/55DAP	1.02171	0.891
62DAP/57DAP	1.27574	0.217
68DAP/62DAP	0.79284	0.668
68DAP/14DAP	0.62235

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.5999	0.025

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.11442	0.814
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	1.19134
1-3/M82	N/A	N/A
2-1-1/M82	0.95465
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	1.03045
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
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	0.78643	0.321
IL2-6/WTpooled	0.93455	1
IL7-5/WTpooled	0.4526	1
IL7-3/WTpooled	0.97212	1
IL12-4/WTpooled	0.87017	0.581
IL1-4/WTpooled	0.91198	0.562
WT/WTpooled	0.97375	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	1.15698	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.41545	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.22176	1
DC3000/delta hrp 24h	0.96885	0.887

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.30335	0.16
DC3000 delta B/DC3000 delta AB	1.2573	0.161

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99173	1
Var 0h	1.14932	0.782
Var 12h I row2-row1	0.88987	0.318
Var 12h NI row2-row1	1.03552	1
Var 36h I row2-row1	1.1239	1
Var 36h NI row2-row1	0.92577	0.522
Var 60h I row2-row1	0.83729	0.374
Var 60h NI row2-row1	0.95927	1
Time course 0hI-0hNI	1.09878	0.662
Time course 12hI-12hNI	0.97524	0.858
Time course 36hI-36hNI	1.22605	0.056
Time course 60hI-60hNI	1.28922	0.042

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	1.059	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.61244	0.277

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)	1.37504	1
Manapal/WT (red)	1.02878	1