Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.7.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0534	0.977
27DAP/17DAP	0.93427	0.885
39DAP/27DAP	1.31712	0.4
41DAP/39DAP	1.07428	0.797
42DAP/41DAP	1.47879	0.145
43DAP/42DAP	1.72297	0.07
47DAP/43DAP	1.63894	0.442
52DAP/47DAP	1.4251	0.371
57DAP/52DAP	1.03074	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1918	0.252
17DAP/reference	0.97661	0.597
27DAP/reference	1.02817	0.88
39DAP/reference	1.05817	0.162
41DAP/reference	1.05628	0.421
42DAP/reference	0.98279	0.359
43DAP/reference	1.10156	0.306
47DAP/reference	0.90133	0.05
52DAP/reference	0.96251	0.35
57DAP/reference	0.92862	0.118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93053	0.509
27DAP/17DAP	1.10521	0.761
39DAP/27DAP	1.22531	0.137
41DAP/39DAP	0.82248	0.42
42DAP/41DAP	1.12022	0.601
43DAP/42DAP	0.9808	0.875
47DAP/43DAP	1.15114	0.5
52DAP/47DAP	1.00417	0.97
57DAP/52DAP	0.9451	0.657
57DAP/7DAP	0.79347	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08951	0.511
17DAP/reference	1.33118	0.221
27DAP/reference	1.04901	1
39DAP/reference	1.37953	0.073
41DAP/reference	1.20643	0.655
42DAP/reference	0.91249	0.248
43DAP/reference	0.63453	0.014
47DAP/reference	0.92802	0.293
52DAP/reference	0.99407	0.679
57DAP/reference	1.17104	0.125

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18045	0.113
17DAP/reference	1.11219	0.127
27DAP/reference	1.04738	0.552
39DAP/reference	1.00293	0.661
41DAP/reference	1.0218	1
42DAP/reference	0.95917	0.392
43DAP/reference	1.03754	0.939
47DAP/reference	0.96885	0.349
52DAP/reference	1.29558	0.011
57DAP/reference	1.34481	0.045

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0794	0.456
17DAP/reference	1.08049	0.746
27DAP/reference	1.31227	0.284
39DAP/reference	0.93311	0.246
41DAP/reference	1.05063	1
42DAP/reference	0.8896	0.361
43DAP/reference	0.80574	0.073
47DAP/reference	0.86269	0.063
52DAP/reference	0.84824	0.368
57DAP/reference	0.71611	0.039

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03791	0.966
26DAP/20DAP	0.80202
34DAP/26DAP	1.16311	0.819
51DAP/34DAP	1.16277	0.746
52DAP/51DAP	1.22775	0.207
53DAP/52DAP	0.9245	0.677
55DAP/53DAP	1.86422	0.312
57DAP/55DAP	1.49425	0.492
62DAP/57DAP	1.14415	0.833
68DAP/62DAP	0.93186	0.787
68DAP/14DAP	0.72413	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.62307	0.039

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.85938	0.329
Mature Green Tomato/Ripe Tomato	0.23369	0.036
Immature Eggplant/Mature Eggplant	2.00565	0.05
Ripe Pepper/Ripe Tomato	3.57217	1
Mature Eggplant/Ripe Tomato	2.41661	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.26434	1
1-1-2/M82	0.93491	1
12-2/M82	1.35849
12-4/M82	1.18775	1
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	0.47004	0.752
4-1-1/M82	1.10617	1
4-1/M82	1.39323	1
4-3-2/M82	1.0125	1
4-3/M82	0.68609	0.611
5-3/M82	0.97452	1
6-2/M82	N/A	N/A
6-3/M82	1.04491	1
7-1/M82	0.89097	0.803
7-2/M82	0.54579
9-3-2/M82	1.40484	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.23445	0.277
IL2-6/WTpooled	1.19248	0.427
IL7-5/WTpooled	1.2115	0.792
IL7-3/WTpooled	0.92025	1
IL12-4/WTpooled	0.85163	0.581
IL1-4/WTpooled	1.135	1
WT/WTpooled	1.09099	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	1.60656	0.083

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97952	1
DC3000/delta hrp 6h	0.87456	0.95
DC3000/delta hrp 12h	1.01964	1
DC3000/delta hrp 24h	0.97696	0.861

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.17157	1
Exp 36h	2.86515	0.409
Exp 60h	1.69238	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97303	1
Var 0h	1.01496	1
Var 12h I row2-row1	1.09964	0.348
Var 12h NI row2-row1	1.01239	1
Var 36h I row2-row1	0.97228	1
Var 36h NI row2-row1	1.2278	1
Var 60h I row2-row1	0.91916	0.285
Var 60h NI row2-row1	1.02602
Time course 0hI-0hNI	0.95326	0.829
Time course 12hI-12hNI	1.01386	0.885
Time course 36hI-36hNI	0.99077	0.621
Time course 60hI-60hNI	1.58356	0.009

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)	1.1826	0.326
transgenic ySAMdc/azygous control (breaker)	1.29184	0.248
transgenic ySAMdc/azygous control (red)	0.96801	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00928	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07192	1
Manapal/WT (break)	1.08223	1
Manapal/WT (red)	1.00113	1