Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.18.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84923	0.339
27DAP/17DAP	1.32765	0.841
39DAP/27DAP	0.9473	0.652
41DAP/39DAP	1.27235	0.56
42DAP/41DAP	1.01543	1
43DAP/42DAP	1.05715	0.937
47DAP/43DAP	0.93349	0.76
52DAP/47DAP	0.99224	0.927
57DAP/52DAP	0.75172	0.833

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95716	0.503
17DAP/reference	0.85065	0.012
27DAP/reference	0.89775	0.124
39DAP/reference	1.10973	0.557
41DAP/reference	0.85673	0.065
42DAP/reference	1.27278	0.025
43DAP/reference	1.09716	0.445
47DAP/reference	1.12319	0.085
52DAP/reference	0.89485	0.167
57DAP/reference	1.23842	0.037

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15036	0.241
27DAP/17DAP	1.20999	0.664
39DAP/27DAP	1.05977	0.799
41DAP/39DAP	1.27313	0.124
42DAP/41DAP	1.09416	0.774
43DAP/42DAP	1.29447	0.134
47DAP/43DAP	0.99954	0.961
52DAP/47DAP	1.05683	0.986
57DAP/52DAP	1.09798	0.79
57DAP/7DAP	0.86787

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86918	0.115
17DAP/reference	0.94672	0.253
27DAP/reference	0.96634	0.375
39DAP/reference	0.80386	0.031
41DAP/reference	0.97496	0.512
42DAP/reference	0.94347	0.248
43DAP/reference	1.04806	0.511
47DAP/reference	1.02604	0.932
52DAP/reference	1.11067	0.401
57DAP/reference	1.12655	0.654

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08214	0.823
17DAP/reference	0.8405	0.063
27DAP/reference	0.77422	0.053
39DAP/reference	0.798	0.144
41DAP/reference	0.82836	0.089
42DAP/reference	0.98686	0.594
43DAP/reference	0.98906	0.67
47DAP/reference	0.97636	0.459
52DAP/reference	0.87401	0.093
57DAP/reference	0.84092	0.208

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86501	0.169
17DAP/reference	0.92062	0.3
27DAP/reference	1.04273	0.721
39DAP/reference	0.92366	0.083
41DAP/reference	0.95762	0.459
42DAP/reference	0.99901	0.816
43DAP/reference	0.92993	0.384
47DAP/reference	1.16865	0.155
52DAP/reference	0.89224	0.368
57DAP/reference	1.05506	0.786

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91589	1
26DAP/20DAP	1.06608	1
34DAP/26DAP	0.41431	0.046
51DAP/34DAP	0.96954	0.863
52DAP/51DAP	1.227	0.367
53DAP/52DAP	1.37431	0.274
55DAP/53DAP	1.24396	0.671
57DAP/55DAP	1.01929	0.825
62DAP/57DAP	1.03761	1
68DAP/62DAP	1.0626	1
68DAP/14DAP	0.89554	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.5432	0.246

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	2.15854	0.05
Ripe Pepper/Ripe Tomato	0.24566
Mature Eggplant/Ripe Tomato	0.51125

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.86802
1-1-2/M82	0.98145
12-2/M82	N/A	N/A
12-4/M82	0.87481
1-3/M82	0.6926
2-1-1/M82	1.39506
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.93995
5-3/M82	0.81178	0.49
6-2/M82	N/A	N/A
6-3/M82	1.01231	1
7-1/M82	0.78965
7-2/M82	0.88576
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.2171	0.277
IL2-6/WTpooled	1.05634	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.82358	1
IL12-4/WTpooled	1.13142	0.891
IL1-4/WTpooled	1.08122	1
WT/WTpooled	1.0363	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	1.28822

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04924	0.921
DC3000/delta hrp 6h	0.61098	0.95
DC3000/delta hrp 12h	1.06845	1
DC3000/delta hrp 24h	1.01407	1

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	1.22176	1
Exp 36h	1.49475	0.693
Exp 60h	1.51065	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97748
Var 0h	1.10897	1
Var 12h I row2-row1	0.54212	0.338
Var 12h NI row2-row1	0.69608	0.82
Var 36h I row2-row1	0.92603	0.438
Var 36h NI row2-row1	1.1682	0.482
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.95648	1
Time course 0hI-0hNI	0.94817	0.843
Time course 12hI-12hNI	0.95462	0.698
Time course 36hI-36hNI	1.18049	0.651
Time course 60hI-60hNI	0.64454	0.081

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)	1.04223	0.921
transgenic ySAMdc/azygous control (breaker)	0.86316	0.142
transgenic ySAMdc/azygous control (red)	1.09317	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96289	0.062

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98596	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.9546	1
Manapal/WT (break)	0.93435	0.333
Manapal/WT (red)	1.1287	0.413