Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-8.1.10.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96281	0.76
27DAP/17DAP	1.3658	0.825
39DAP/27DAP	0.89863	0.62
41DAP/39DAP	1.15568	0.649
42DAP/41DAP	1.14	0.908
43DAP/42DAP	1.08248	1
47DAP/43DAP	1.17823	0.569
52DAP/47DAP	0.84034	0.568
57DAP/52DAP	0.89535	0.836

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11316	0.846
17DAP/reference	0.89155	0.224
27DAP/reference	0.92002	0.182
39DAP/reference	1.13805	0.486
41DAP/reference	1.00705	1
42DAP/reference	0.98	0.398
43DAP/reference	1.08961	0.382
47DAP/reference	0.89611	0.065
52DAP/reference	0.8425	0.215
57DAP/reference	0.88005	0.21

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.7437	0.096
27DAP/17DAP	0.86757	0.259
39DAP/27DAP	0.85002	0.119
41DAP/39DAP	1.52134	0.087
42DAP/41DAP	0.997	0.858
43DAP/42DAP	0.74797	0.049
47DAP/43DAP	1.03307	0.93
52DAP/47DAP	0.96262	0.898
57DAP/52DAP	0.83699	0.39
57DAP/7DAP	1.09484	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00074	0.682
17DAP/reference	1.20432	0.199
27DAP/reference	1.25287	0.073
39DAP/reference	1.42307	0.009
41DAP/reference	1.61296	0.009
42DAP/reference	1.56221	0.006
43DAP/reference	1.98066	0.008
47DAP/reference	1.59305	0.121
52DAP/reference	1.53036	0.013
57DAP/reference	1.5577	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0148	0.951
17DAP/reference	0.8843	0.139
27DAP/reference	0.73009	0.188
39DAP/reference	0.69118	0.076
41DAP/reference	0.72066	0.045
42DAP/reference	0.85865	0.261
43DAP/reference	1.14927	0.655
47DAP/reference	0.94735	0.4
52DAP/reference	0.97948	0.576
57DAP/reference	1.53457	0.523

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25822	0.069
17DAP/reference	1.07036	0.865
27DAP/reference	1.1426	0.624
39DAP/reference	1.2536	0.254
41DAP/reference	1.32097	0.041
42DAP/reference	1.72639	0.287
43DAP/reference	1.25919	0.679
47DAP/reference	0.91513	0.231
52DAP/reference	1.56972	0.182
57DAP/reference	0.9843	0.527

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.27143	0.752
26DAP/20DAP	0.83063	0.512
34DAP/26DAP	0.74038	0.093
51DAP/34DAP	0.79077	0.127
52DAP/51DAP	1.03722	0.783
53DAP/52DAP	0.92237	0.712
55DAP/53DAP	1.05888	0.719
57DAP/55DAP	0.98512	0.875
62DAP/57DAP	0.95315	0.871
68DAP/62DAP	1.1202	1
68DAP/14DAP	1.02335	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.10509	0.347

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.5	0.036
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	1.36011	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.2615	0.611
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	0.23634	N/A
5-3/M82	1.03726	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	0.96779	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	0.84559	0.321
IL2-6/WTpooled	1.0053	1
IL7-5/WTpooled	1.31419	0.792
IL7-3/WTpooled	0.45642	0.31
IL12-4/WTpooled	0.96648	1
IL1-4/WTpooled	0.92302	0.699
WT/WTpooled	0.89311	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	1.14742	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01442	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.18946	1
DC3000/delta hrp 24h	1.19596	0.074

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.64496	0.042
DC3000 delta B/DC3000 delta AB	1.17905	0.282

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	1.01015	1
Var 0h	0.92158	1
Var 12h I row2-row1	1.13373	0.795
Var 12h NI row2-row1	1.01254	1
Var 36h I row2-row1	0.98523	1
Var 36h NI row2-row1	0.73642	0.61
Var 60h I row2-row1	1.30124	0.562
Var 60h NI row2-row1	0.93002	1
Time course 0hI-0hNI	0.75741	0.047
Time course 12hI-12hNI	1.06628	0.554
Time course 36hI-36hNI	0.88772	0.284
Time course 60hI-60hNI	0.86524	0.081

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)	1.1532	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90332	0.133

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9801	0.789

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)	0.99616	1