Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-5.4.14.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.68399	0.125
27DAP/17DAP	0.98687	0.956
39DAP/27DAP	1.24599	0.548
41DAP/39DAP	1.00849	0.845
42DAP/41DAP	0.8306	0.774
43DAP/42DAP	0.97547	0.925
47DAP/43DAP	1.17885	0.727
52DAP/47DAP	1.24405	0.769
57DAP/52DAP	1.06495	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9065	0.205
17DAP/reference	1.10262	0.057
27DAP/reference	0.92083	0.208
39DAP/reference	1.08727	0.082
41DAP/reference	1.10435	0.102
42DAP/reference	0.83434	0.007
43DAP/reference	1.08799	0.252
47DAP/reference	0.9246	0.174
52DAP/reference	0.82326	0.086
57DAP/reference	0.74847	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13841	0.218
27DAP/17DAP	1.00787	0.969
39DAP/27DAP	0.9517	0.52
41DAP/39DAP	0.99135	0.997
42DAP/41DAP	1.01144	0.865
43DAP/42DAP	0.87945	0.293
47DAP/43DAP	0.94959	0.687
52DAP/47DAP	1.05133	0.851
57DAP/52DAP	1.06905	0.818
57DAP/7DAP	1.00586	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81719	0.129
17DAP/reference	0.91003	0.22
27DAP/reference	0.9729	0.494
39DAP/reference	0.89583	0.109
41DAP/reference	0.94458	0.357
42DAP/reference	0.8629	0.042
43DAP/reference	1.07205	0.637
47DAP/reference	0.78869	0.101
52DAP/reference	0.833	0.017
57DAP/reference	0.94764	0.291

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14198	0.43
17DAP/reference	0.94915	0.245
27DAP/reference	0.87822	0.16
39DAP/reference	0.80204	0.065
41DAP/reference	0.84273	0.061
42DAP/reference	0.80333	0.037
43DAP/reference	1.1921	0.532
47DAP/reference	0.9052	0.092
52DAP/reference	1.02299	0.882
57DAP/reference	0.99539	0.72

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95942	0.489
17DAP/reference	0.97717	0.647
27DAP/reference	1.00704	1
39DAP/reference	0.83725	0.054
41DAP/reference	0.84493	0.04
42DAP/reference	0.92289	0.445
43DAP/reference	0.91321	0.281
47DAP/reference	0.87821	0.02
52DAP/reference	0.95606	0.582
57DAP/reference	0.67809	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.49235	0.966
26DAP/20DAP	1.12759	0.642
34DAP/26DAP	0.99841	1
51DAP/34DAP	1.179	0.55
52DAP/51DAP	0.78757	0.151
53DAP/52DAP	1.56153	0.089
55DAP/53DAP	1.25562	0.494
57DAP/55DAP	0.90871	0.583
62DAP/57DAP	0.79039	0.088
68DAP/62DAP	0.9801	0.834
68DAP/14DAP	1.28368	0.656

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.18814	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.68487	0.188
Mature Green Tomato/Ripe Tomato	1.15354	0.752
Immature Eggplant/Mature Eggplant	0.71272	0.134
Ripe Pepper/Ripe Tomato	1.20539	1
Mature Eggplant/Ripe Tomato	0.89078	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.34429	N/A
12-2/M82	N/A	N/A
12-4/M82	0.98541	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	1.01101	1
4-1-1/M82	N/A	N/A
4-1/M82	1.15792	N/A
4-3-2/M82	1.22435	0.241
4-3/M82	1.08053	N/A
5-3/M82	1.08673	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.05319	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.25506	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.77879	N/A
WT/WTpooled	N/A	N/A

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	1.666	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95155	1
DC3000/delta hrp 6h	1.14981	1
DC3000/delta hrp 12h	0.97376	1
DC3000/delta hrp 24h	0.9295	0.363

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.5539	0.025
DC3000 delta B/DC3000 delta AB	0.58292	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.18853	1
Exp 36h	0.97908	0.943
Exp 60h	1.2536	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96442	1
Var 0h	1.02062	1
Var 12h I row2-row1	0.68094	0.344
Var 12h NI row2-row1	0.90112	0.488
Var 36h I row2-row1	0.8554	0.805
Var 36h NI row2-row1	1.05928	1
Var 60h I row2-row1	1.05568	0.562
Var 60h NI row2-row1	1.02731	1
Time course 0hI-0hNI	1.01221	1
Time course 12hI-12hNI	0.98439	0.87
Time course 36hI-36hNI	0.89778	0.099
Time course 60hI-60hNI	0.30799	0.005

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)	1.02033	0.511
transgenic ySAMdc/azygous control (breaker)	1.29289	0.178
transgenic ySAMdc/azygous control (red)	1.06515	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92839	0.136

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.51168	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03101	1
Manapal/WT (break)	1.03639	1
Manapal/WT (red)	1.30995	0.413