Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-1.2.19.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06578	0.911
27DAP/17DAP	1.10738	0.91
39DAP/27DAP	1.74606	0.064
41DAP/39DAP	0.86123	0.478
42DAP/41DAP	1.53332	0.455
43DAP/42DAP	3.18155	0.028
47DAP/43DAP	0.46008	0.05
52DAP/47DAP	1.68232	0.709
57DAP/52DAP	0.88835	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34611	0.012
17DAP/reference	1.23474	0.342
27DAP/reference	1.30463	0.007
39DAP/reference	1.28357	0.012
41DAP/reference	1.48888	0.312
42DAP/reference	1.17473	0.431
43DAP/reference	1.62554	N/A
47DAP/reference	1.38647	0.04
52DAP/reference	1.09007	0.498
57DAP/reference	0.86887	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.29642	0.438
27DAP/17DAP	2.15032	0.02
39DAP/27DAP	0.66481	0.047
41DAP/39DAP	0.98138	0.968
42DAP/41DAP	0.98493	0.835
43DAP/42DAP	0.89851	0.383
47DAP/43DAP	1.01181	0.997
52DAP/47DAP	1.2239	0.432
57DAP/52DAP	1.3407	0.138
57DAP/7DAP	1.0121	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02784	0.843
17DAP/reference	0.76105	0.192
27DAP/reference	1.05445	0.804
39DAP/reference	0.97086	0.474
41DAP/reference	0.95968	0.412
42DAP/reference	1.28231	0.1
43DAP/reference	0.83039	0.069
47DAP/reference	1.08625	0.504
52DAP/reference	0.94794	0.254
57DAP/reference	0.94839	0.25

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14661	0.265
17DAP/reference	1.34375	0.029
27DAP/reference	1.35589	0.05
39DAP/reference	1.35712	0.035
41DAP/reference	1.16533	0.327
42DAP/reference	1.43106	0.009
43DAP/reference	1.50804	0.037
47DAP/reference	1.37917	0.008
52DAP/reference	1.39136	0.006
57DAP/reference	1.44264	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97723	0.489
17DAP/reference	1.01277	0.87
27DAP/reference	0.99376	0.727
39DAP/reference	0.95728	0.464
41DAP/reference	0.82283	0.055
42DAP/reference	1.1643	0.131
43DAP/reference	1.07704	1
47DAP/reference	1.12316	0.68
52DAP/reference	1.17428	0.268
57DAP/reference	0.8195	0.095

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.8935	1
26DAP/20DAP	1.7772	0.125
34DAP/26DAP	1.05822	0.991
51DAP/34DAP	0.81101	0.112
52DAP/51DAP	0.82349	1
53DAP/52DAP	1.14422	0.307
55DAP/53DAP	0.95857	0.784
57DAP/55DAP	1.13043	0.694
62DAP/57DAP	1.17851	0.35
68DAP/62DAP	0.98923	0.769
68DAP/14DAP	0.64665	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.51454	0.032

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.53628	0.027
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.00236	N/A
Mature Eggplant/Ripe Tomato	1.50642	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.19632	0.877
1-1-2/M82	1.01568	1
12-2/M82	0.93937	N/A
12-4/M82	0.92507	N/A
1-3/M82	N/A	N/A
2-1-1/M82	0.97149	N/A
2-1/M82	N/A	N/A
2-6/M82	1.14535	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.84568	N/A
4-3-2/M82	0.91997	N/A
4-3/M82	N/A	N/A
5-3/M82	1.18356	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.24408	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	0.92297	1
IL2-6/WTpooled	0.912	0.358
IL7-5/WTpooled	0.88167	1
IL7-3/WTpooled	0.8358	0.418
IL12-4/WTpooled	1.00096	1
IL1-4/WTpooled	1.01888	1
WT/WTpooled	1.01375	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	0.97078	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94006	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.13366	1
DC3000/delta hrp 24h	0.92622	0.422

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.26638	0.476
DC3000 delta B/DC3000 delta AB	2.11187	0.079

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	1.08513	1
Var 0h	0.57294	0.325
Var 12h I row2-row1	0.9849	0.948
Var 12h NI row2-row1	1.3875	0.649
Var 36h I row2-row1	1.38041	0.309
Var 36h NI row2-row1	0.74238	0.549
Var 60h I row2-row1	0.73959	0.439
Var 60h NI row2-row1	0.74393	0.408
Time course 0hI-0hNI	1.07291	0.662
Time course 12hI-12hNI	1.13067	0.43
Time course 36hI-36hNI	1.93573	0.006
Time course 60hI-60hNI	13.3773	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)	0.84855	0.409
transgenic ySAMdc/azygous control (breaker)	1.22636	1
transgenic ySAMdc/azygous control (red)	1.59131	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.87309	0.07

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.13469	1

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)	2.54483	0.164