Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.16.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14269	0.656
27DAP/17DAP	1.66959	0.332
39DAP/27DAP	1.39788	0.4
41DAP/39DAP	1.26732	0.584
42DAP/41DAP	0.98922	1
43DAP/42DAP	1.07436	1
47DAP/43DAP	1.13356	0.668
52DAP/47DAP	0.82956	0.554
57DAP/52DAP	1.10958	0.837

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95374	0.211
17DAP/reference	1.00528	0.874
27DAP/reference	0.97271	0.484
39DAP/reference	0.96737	0.5
41DAP/reference	1.14272	0.085
42DAP/reference	0.93796	0.062
43DAP/reference	0.97051	0.48
47DAP/reference	0.98813	0.535
52DAP/reference	0.89273	0.23
57DAP/reference	0.84684	0.049

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97827	0.732
27DAP/17DAP	1.06728	0.9
39DAP/27DAP	1.46167	0.308
41DAP/39DAP	2.02396	0.01
42DAP/41DAP	0.92768	0.524
43DAP/42DAP	0.69811	0.023
47DAP/43DAP	1.46845	0.028
52DAP/47DAP	0.90536	0.439
57DAP/52DAP	0.95886	0.709
57DAP/7DAP	1.46945	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89571	0.08
17DAP/reference	0.92611	0.049
27DAP/reference	0.87571	0.017
39DAP/reference	0.94774	0.073
41DAP/reference	0.87307	0.019
42DAP/reference	0.88827	0.026
43DAP/reference	0.97412	0.385
47DAP/reference	0.94701	0.383
52DAP/reference	0.92156	0.15
57DAP/reference	0.97775	0.396

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99261	0.869
17DAP/reference	0.91757	0.077
27DAP/reference	0.84518	0.087
39DAP/reference	0.92692	0.202
41DAP/reference	0.85155	0.04
42DAP/reference	0.81895	0.046
43DAP/reference	0.94273	0.37
47DAP/reference	0.97068	0.141
52DAP/reference	0.92887	0.093
57DAP/reference	1.00206	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89263	0.068
17DAP/reference	0.97397	0.601
27DAP/reference	0.97451	0.442
39DAP/reference	0.92095	0.022
41DAP/reference	0.93484	0.237
42DAP/reference	0.84721	0.087
43DAP/reference	0.89446	0.084
47DAP/reference	1.04075	0.61
52DAP/reference	0.87098	0.303
57DAP/reference	0.68137	0.025

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04773	0.966
26DAP/20DAP	1.00458	1
34DAP/26DAP	1.1111	0.819
51DAP/34DAP	1.26118	0.565
52DAP/51DAP	1.03057	1
53DAP/52DAP	0.93806	0.741
55DAP/53DAP	1.4328	0.069
57DAP/55DAP	1.19803	0.818
62DAP/57DAP	1.24844	0.767
68DAP/62DAP	1.07365	0.897
68DAP/14DAP	1.15082	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.6141	0.028

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.3501	0.058
Mature Green Tomato/Ripe Tomato	0.88505	0.377
Immature Eggplant/Mature Eggplant	0.85649	0.197
Ripe Pepper/Ripe Tomato	0.54827	0.224
Mature Eggplant/Ripe Tomato	0.75254	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90502	0.69
1-1-2/M82	0.80869	1
12-2/M82	1.18427	0.405
12-4/M82	1.0005	1
1-3/M82	0.98877	1
2-1-1/M82	0.98453	1
2-1/M82	0.81568	0.322
2-6/M82	1.1049	0.594
3-2/M82	1.06372
4-1-1/M82	0.97658	1
4-1/M82	0.93083	1
4-3-2/M82	0.56548	0.698
4-3/M82	1.04359	1
5-3/M82	1.00227	1
6-2/M82	1.20317	1
6-3/M82	1.03251	1
7-1/M82	1.10284
7-2/M82	1.0901	1
9-3-2/M82	0.54743	0.355

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	1.08363
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	1.70459	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97145	1
DC3000/delta hrp 6h	0.82139	0.95
DC3000/delta hrp 12h	0.99485	1
DC3000/delta hrp 24h	1.06072	0.582

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.03284
DC3000 delta B/DC3000 delta AB	1.2528	0.162

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.67906	1
Exp 36h	0.98568	1
Exp 60h	1.30834	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01913	1
Var 0h	2.13455	0.936
Var 12h I row2-row1	0.83812	0.565
Var 12h NI row2-row1	1.08624	0.649
Var 36h I row2-row1	1.12888	1
Var 36h NI row2-row1	0.82812	0.584
Var 60h I row2-row1	1.05141	1
Var 60h NI row2-row1	0.87516	0.756
Time course 0hI-0hNI	1.02758	0.867
Time course 12hI-12hNI	1.01536	0.82
Time course 36hI-36hNI	2.48671	0.005
Time course 60hI-60hNI	3.28919	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)	0.97217	0.567
transgenic ySAMdc/azygous control (breaker)	0.88689	0.49
transgenic ySAMdc/azygous control (red)	0.88467	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01326	0.287

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.72549	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8016	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.98572	0.863