Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-8.1.16.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98455	0.811
27DAP/17DAP	0.91058	0.807
39DAP/27DAP	0.92994	0.495
41DAP/39DAP	0.97594	0.909
42DAP/41DAP	0.85347	1
43DAP/42DAP	0.84996	0.767
47DAP/43DAP	1.5872	0.309
52DAP/47DAP	2.20925	0.174
57DAP/52DAP	1.00738	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18221	0.218
17DAP/reference	1.05965	0.369
27DAP/reference	1.09154	0.384
39DAP/reference	1.15865	0.162
41DAP/reference	0.99318	0.814
42DAP/reference	1.1056	0.523
43DAP/reference	1.02439	1
47DAP/reference	1.02125	1
52DAP/reference	1.10471	0.73
57DAP/reference	0.96468	0.456

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96022	0.644
27DAP/17DAP	0.93053	0.854
39DAP/27DAP	0.94263	0.628
41DAP/39DAP	1.04442	0.896
42DAP/41DAP	0.97087	0.61
43DAP/42DAP	1.13558	0.382
47DAP/43DAP	1.09834	0.957
52DAP/47DAP	1.01785	0.975
57DAP/52DAP	1.22354	0.444
57DAP/7DAP	1.42783	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0791	0.452
17DAP/reference	1.23101	0.008
27DAP/reference	1.11101	0.03
39DAP/reference	1.0317	0.865
41DAP/reference	1.11818	0.375
42DAP/reference	1.06896	0.405
43DAP/reference	1.07823	0.569
47DAP/reference	1.05342	1
52DAP/reference	0.96886	0.196
57DAP/reference	1.06799	0.536

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96808	0.669
17DAP/reference	0.97756	0.536
27DAP/reference	1.23414	0.171
39DAP/reference	1.04654	0.702
41DAP/reference	1.1633	0.269
42DAP/reference	1.08967	0.398
43DAP/reference	1.0316	1
47DAP/reference	1.03056	0.89
52DAP/reference	1.15871	0.279
57DAP/reference	1.16538	0.296

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10108	0.146
17DAP/reference	1.20752	0.11
27DAP/reference	1.13712	0.624
39DAP/reference	1.07639	0.483
41DAP/reference	1.00045	0.826
42DAP/reference	1.11399	0.239
43DAP/reference	1.13187	0.459
47DAP/reference	1.26225	0.023
52DAP/reference	1.02312	0.928
57DAP/reference	1.37138	0.25

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.18942	0.966
26DAP/20DAP	0.94346	1
34DAP/26DAP	1.24673	1
51DAP/34DAP	0.43893	0.056
52DAP/51DAP	1.19216	0.742
53DAP/52DAP	1.06245	0.845
55DAP/53DAP	1.16139	0.733
57DAP/55DAP	1.03914	1
62DAP/57DAP	0.9891	0.994
68DAP/62DAP	1.54746	0.845
68DAP/14DAP	0.8838	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.30113	0.439

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.01394	0.058
Mature Green Tomato/Ripe Tomato	0.80293	0.119
Immature Eggplant/Mature Eggplant	2.91322	0.05
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	3.54581	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94897	N/A
1-1-2/M82	1.061	1
12-2/M82	0.94538	0.955
12-4/M82	1.09205	1
1-3/M82	0.64705	0.378
2-1-1/M82	0.92477	1
2-1/M82	N/A	N/A
2-6/M82	1.27568	N/A
3-2/M82	0.8861	N/A
4-1-1/M82	0.82757	N/A
4-1/M82	1.37131	N/A
4-3-2/M82	0.89368	0.487
4-3/M82	0.84483	N/A
5-3/M82	1.00333	1
6-2/M82	0.77842	0.444
6-3/M82	1.12819	1
7-1/M82	1.01269	N/A
7-2/M82	0.91067	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.3194	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	0.97061	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	0.67358	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07858	1
DC3000/delta hrp 6h	0.829	N/A
DC3000/delta hrp 12h	0.9377	1
DC3000/delta hrp 24h	0.89753	0.174

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	1.84041	N/A

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	0.80311	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97242	1
Var 0h	1.25052	0.374
Var 12h I row2-row1	1.05579	0.736
Var 12h NI row2-row1	1.03516	1
Var 36h I row2-row1	0.64682	1
Var 36h NI row2-row1	4.4122	1
Var 60h I row2-row1	1.25172	0.562
Var 60h NI row2-row1	0.93997	0.977
Time course 0hI-0hNI	0.95576	0.715
Time course 12hI-12hNI	0.89898	0.398
Time course 36hI-36hNI	0.80758	0.023
Time course 60hI-60hNI	0.59312	0.011

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)	0.98741	0.789
transgenic ySAMdc/azygous control (breaker)	1.07048	1
transgenic ySAMdc/azygous control (red)	1.2599	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93167	0.058

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07093	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.16787	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.52361	0.116