Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.2.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97197	0.76
27DAP/17DAP	0.62415	0.073
39DAP/27DAP	0.66289	0.397
41DAP/39DAP	0.78742	0.24
42DAP/41DAP	1.00262	1
43DAP/42DAP	1.00607	0.937
47DAP/43DAP	0.71379	0.199
52DAP/47DAP	0.89281	0.666
57DAP/52DAP	0.81669	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09607	0.366
17DAP/reference	0.96915	0.63
27DAP/reference	0.91487	0.057
39DAP/reference	0.90135	0.06
41DAP/reference	0.98639	0.814
42DAP/reference	0.73794	0.008
43DAP/reference	0.92205	0.36
47DAP/reference	0.88443	0.03
52DAP/reference	0.8748	0.143
57DAP/reference	1.25581	0.05

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25492	0.201
27DAP/17DAP	0.76959	0.218
39DAP/27DAP	0.48002	0.029
41DAP/39DAP	1.79605	0.022
42DAP/41DAP	0.77635	0.174
43DAP/42DAP	0.8275	0.121
47DAP/43DAP	1.29055	0.318
52DAP/47DAP	1.08177	0.799
57DAP/52DAP	0.84991	0.454
57DAP/7DAP	0.74987	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08352	0.435
17DAP/reference	0.90505	0.167
27DAP/reference	1.13299	0.023
39DAP/reference	1.18423	0.333
41DAP/reference	1.11851	0.184
42DAP/reference	1.14351	0.405
43DAP/reference	0.95795	0.44
47DAP/reference	0.94258	0.504
52DAP/reference	1.21543	0.183
57DAP/reference	1.03099	0.746

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03351	0.634
17DAP/reference	1.27157	0.028
27DAP/reference	0.94663	0.381
39DAP/reference	0.84526	0.056
41DAP/reference	0.96516	0.393
42DAP/reference	0.81178	0.098
43DAP/reference	0.91748	0.257
47DAP/reference	1.01912	0.775
52DAP/reference	0.8561	0.051
57DAP/reference	0.74677	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04	1
17DAP/reference	1.07625	0.62
27DAP/reference	1.27112	0.105
39DAP/reference	1.15429	0.245
41DAP/reference	1.03714	0.867
42DAP/reference	1.03863	0.701
43DAP/reference	1.23236	0.482
47DAP/reference	0.77434	0.009
52DAP/reference	0.94448	0.573
57DAP/reference	0.81371	0.044

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03313	1
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.82109	0.479
51DAP/34DAP	0.8077	0.449
52DAP/51DAP	0.85777	1
53DAP/52DAP	1.26904	0.179
55DAP/53DAP	2.01408	0.067
57DAP/55DAP	1.04441	0.525
62DAP/57DAP	1.81645	0.115
68DAP/62DAP	1.31916	0.305
68DAP/14DAP	1.20528	0.504

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82371	0.224

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.25638
Mature Green Tomato/Ripe Tomato	5.07885	0.017
Immature Eggplant/Mature Eggplant	1.14291	0.19
Ripe Pepper/Ripe Tomato	1.71532
Mature Eggplant/Ripe Tomato	14.1045	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.64382
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	1.71811
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	N/A	N/A
IL2-6/WTpooled	0.54292	0.358
IL7-5/WTpooled	4.01767
IL7-3/WTpooled	1.70266	0.362
IL12-4/WTpooled	0.92771	1
IL1-4/WTpooled	0.92183	1
WT/WTpooled	1.01295	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	1.09369	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97287	1
DC3000/delta hrp 6h	1.20061	1
DC3000/delta hrp 12h	1.06805	1
DC3000/delta hrp 24h	1.0535	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.63964
DC3000 delta B/DC3000 delta AB	1.07578	0.665

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00624	1
Exp 36h	1.17713	0.409
Exp 60h	1.17089	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03219	1
Var 0h	0.46965	1
Var 12h I row2-row1	1.00119	1
Var 12h NI row2-row1	1.53403	0.281
Var 36h I row2-row1	0.82927	1
Var 36h NI row2-row1	1.01218	1
Var 60h I row2-row1	0.83706
Var 60h NI row2-row1	0.92041	0.932
Time course 0hI-0hNI	1.0058	1
Time course 12hI-12hNI	0.87247	0.171
Time course 36hI-36hNI	0.95437	0.38
Time course 60hI-60hNI	1.67782	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)	1.00159	0.921
transgenic ySAMdc/azygous control (breaker)	0.89067	0.173
transgenic ySAMdc/azygous control (red)	0.97628	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.11675	0.135

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.65448	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.60251	1
Manapal/WT (break)	1.19332	1
Manapal/WT (red)	1.09922	1