Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.20.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10479	0.851
27DAP/17DAP	1.2836	0.752
39DAP/27DAP	1.30153	0.453
41DAP/39DAP	1.47976	0.284
42DAP/41DAP	1.15764	0.877
43DAP/42DAP	0.93848	0.877
47DAP/43DAP	1.01036	0.84
52DAP/47DAP	1.12747	0.989
57DAP/52DAP	1.01834	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88062	0.14
17DAP/reference	0.9418	0.18
27DAP/reference	0.94982	0.275
39DAP/reference	0.97467	0.611
41DAP/reference	0.88173	0.154
42DAP/reference	0.84106	0.004
43DAP/reference	0.87204	0.103
47DAP/reference	0.92667	0.106
52DAP/reference	0.89337	0.258
57DAP/reference	0.82336	0.054

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98058	0.716
27DAP/17DAP	1.01746	0.954
39DAP/27DAP	1.14853	0.253
41DAP/39DAP	0.99126	1
42DAP/41DAP	1.014	1
43DAP/42DAP	1.02969	0.413
47DAP/43DAP	1.00095	1
52DAP/47DAP	0.97477	0.898
57DAP/52DAP	1.00182	0.929
57DAP/7DAP	0.99863	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0943	0.377
17DAP/reference	1.16339	0.03
27DAP/reference	1.19723	0.011
39DAP/reference	1.36062	0.005
41DAP/reference	1.32098	0.014
42DAP/reference	1.52019	0.007
43DAP/reference	1.51695	0.014
47DAP/reference	1.12929	0.395
52DAP/reference	1.30085	0.029
57DAP/reference	1.20153	0.057

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01786	0.903
17DAP/reference	0.86868	0.023
27DAP/reference	0.90136	0.15
39DAP/reference	0.95087	0.274
41DAP/reference	0.73838	0.024
42DAP/reference	0.88905	0.017
43DAP/reference	1.06645	0.598
47DAP/reference	0.9169	0.027
52DAP/reference	1.00249	1
57DAP/reference	0.9484	0.298

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0301	0.709
17DAP/reference	0.97816	0.528
27DAP/reference	1.03732	0.298
39DAP/reference	1.07953	0.028
41DAP/reference	1.09231	0.093
42DAP/reference	1.18674	0.124
43DAP/reference	0.99292	0.738
47DAP/reference	0.96093	0.383
52DAP/reference	1.22782	0.141
57DAP/reference	0.97504	0.534

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.88852	0.672
26DAP/20DAP	1.03365	1
34DAP/26DAP	0.96266	0.777
51DAP/34DAP	1.06715	0.677
52DAP/51DAP	1.01012	0.873
53DAP/52DAP	1.02153	0.901
55DAP/53DAP	1.03243	0.898
57DAP/55DAP	1.00139	0.944
62DAP/57DAP	1.05769	0.902
68DAP/62DAP	1.17198	0.448
68DAP/14DAP	1.13141	0.436

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.08365	0.439

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.79159	0.295
Mature Green Tomato/Ripe Tomato	0.3976	0.02
Immature Eggplant/Mature Eggplant	0.88717	0.651
Ripe Pepper/Ripe Tomato	0.86453	0.224
Mature Eggplant/Ripe Tomato	0.57041	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05075	1
1-1-2/M82	1.03765	1
12-2/M82	1.01886	1
12-4/M82	1.00795	1
1-3/M82	0.9917	1
2-1-1/M82	1.00859	1
2-1/M82	1.18943	1
2-6/M82	0.99737	1
3-2/M82	0.97407	1
4-1-1/M82	1.05817	1
4-1/M82	1.16344	0.853
4-3-2/M82	1.05025	1
4-3/M82	0.98243	1
5-3/M82	0.97013	1
6-2/M82	1.01092	1
6-3/M82	1.03631	1
7-1/M82	1.03264
7-2/M82	1.07551	1
9-3-2/M82	1.44274	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.07907	0.365
IL2-6/WTpooled	0.99313	1
IL7-5/WTpooled	0.80006	0.559
IL7-3/WTpooled	1.17394
IL12-4/WTpooled	1.05856	0.891
IL1-4/WTpooled	1.21517	1
WT/WTpooled	0.96141	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	1.2084	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00146	1
DC3000/delta hrp 6h	0.95462	0.95
DC3000/delta hrp 12h	1.06751	1
DC3000/delta hrp 24h	1.04354	0.673

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.15198	0.043
DC3000 delta B/DC3000 delta AB	1.13838	0.265

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.21774	0.254
Exp 36h	0.77228	0.661
Exp 60h	0.85837	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00718	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.17096	0.209
Var 12h NI row2-row1	1.07462	1
Var 36h I row2-row1	0.84769	0.575
Var 36h NI row2-row1	0.8679	0.549
Var 60h I row2-row1	1.08084	1
Var 60h NI row2-row1	1.10344	0.904
Time course 0hI-0hNI	1.00594	1
Time course 12hI-12hNI	1.03287	0.703
Time course 36hI-36hNI	1.0016	0.826
Time course 60hI-60hNI	1.5003	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)	1.07352	0.482
transgenic ySAMdc/azygous control (breaker)	0.80914	0.49
transgenic ySAMdc/azygous control (red)	1.14196	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97208	0.227

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.0032	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.74032	1
Manapal/WT (break)	1.59183	0.14
Manapal/WT (red)	0.91753	0.503