Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-6.2.8.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16224	0.77
27DAP/17DAP	1.11574	0.881
39DAP/27DAP	1.04669	0.857
41DAP/39DAP	1.40136	0.328
42DAP/41DAP	1.19505	0.691
43DAP/42DAP	1.03745	1
47DAP/43DAP	0.93194	0.746
52DAP/47DAP	1.22996	0.989
57DAP/52DAP	1.70812	0.748

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00985	1
17DAP/reference	1.04927	0.318
27DAP/reference	0.93418	0.286
39DAP/reference	1.04481	0.615
41DAP/reference	1.04991	0.552
42DAP/reference	0.8105	0.038
43DAP/reference	0.98968	0.82
47DAP/reference	0.83474	0.032
52DAP/reference	0.92313	0.292
57DAP/reference	0.89365	0.078

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01464	0.826
27DAP/17DAP	0.86771	0.446
39DAP/27DAP	1.02746	0.845
41DAP/39DAP	0.9702	0.997
42DAP/41DAP	1.11367	0.601
43DAP/42DAP	0.96743	0.641
47DAP/43DAP	0.93467	0.805
52DAP/47DAP	1.17168	0.552
57DAP/52DAP	0.86972	0.244
57DAP/7DAP	1.91673	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93001	0.361
17DAP/reference	0.96573	0.389
27DAP/reference	1.09482	0.551
39DAP/reference	0.99536	0.64
41DAP/reference	0.81091	0.223
42DAP/reference	0.8496	0.189
43DAP/reference	1.0741	0.694
47DAP/reference	0.97641	1
52DAP/reference	0.9981	0.74
57DAP/reference	0.8992	0.114

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03008	0.823
17DAP/reference	0.95312	0.499
27DAP/reference	0.96973	0.467
39DAP/reference	0.91897	0.25
41DAP/reference	1.02696	0.944
42DAP/reference	0.87222	0.098
43DAP/reference	1.01594	0.875
47DAP/reference	0.9253	0.116
52DAP/reference	0.9641	0.433
57DAP/reference	0.88428	0.338

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98644	0.653
17DAP/reference	0.90821	0.342
27DAP/reference	1.04355	0.721
39DAP/reference	0.92358	0.083
41DAP/reference	1.05645	0.916
42DAP/reference	0.86401	0.071
43DAP/reference	0.95137	0.468
47DAP/reference	0.95029	0.357
52DAP/reference	0.9205	0.505
57DAP/reference	1.00772	0.779

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91116	1
26DAP/20DAP	1.08125	0.924
34DAP/26DAP	0.93233	0.861
51DAP/34DAP	1.12086	0.785
52DAP/51DAP	0.9602	1
53DAP/52DAP	1.1285	0.895
55DAP/53DAP	1.27453	0.703
57DAP/55DAP	1.11021	1
62DAP/57DAP	0.99136	1
68DAP/62DAP	1.11951	0.977
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.81502	0.269

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.05039	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.76923	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04961	0.432
1-1-2/M82	0.89898	0.804
12-2/M82	1.02071	1
12-4/M82	1.21886	1
1-3/M82	0.90018	0.378
2-1-1/M82	0.78625	0.683
2-1/M82	N/A	N/A
2-6/M82	0.97114	1
3-2/M82	1.08918	N/A
4-1-1/M82	0.9318	N/A
4-1/M82	1.01032	N/A
4-3-2/M82	1.07407	0.262
4-3/M82	1.10066	1
5-3/M82	1.02164	1
6-2/M82	0.95923	1
6-3/M82	0.96862	1
7-1/M82	0.74519	N/A
7-2/M82	1.00839	1
9-3-2/M82	1.34841	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.87246	0.321
IL2-6/WTpooled	0.95994	N/A
IL7-5/WTpooled	0.77175	1
IL7-3/WTpooled	0.71275	0.293
IL12-4/WTpooled	1.29975	0.737
IL1-4/WTpooled	0.96056	0.476
WT/WTpooled	0.9521	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	0.93001	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	0.94426	0.95
DC3000/delta hrp 12h	0.99527	1
DC3000/delta hrp 24h	1.1142	0.71

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	0.68102	0.04

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	1.05901	1
Var 0h	1.16416	0.98
Var 12h I row2-row1	0.92442	0.338
Var 12h NI row2-row1	0.84988	0.713
Var 36h I row2-row1	0.95611	1
Var 36h NI row2-row1	0.88729	0.584
Var 60h I row2-row1	0.95222	0.582
Var 60h NI row2-row1	0.9796	1
Time course 0hI-0hNI	1.05373	0.799
Time course 12hI-12hNI	1.00656	1
Time course 36hI-36hNI	0.91204	0.134
Time course 60hI-60hNI	0.47772	0.006

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)	1.04975	0.297
transgenic ySAMdc/azygous control (breaker)	0.68137	0.137
transgenic ySAMdc/azygous control (red)	1.02719	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01588	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93627	0.431

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)	N/A	N/A
Manapal/WT (red)	0.88374	0.199