Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.9.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.38764	0.183
27DAP/17DAP	1.03659	1
39DAP/27DAP	1.47067	0.244
41DAP/39DAP	0.9323	0.636
42DAP/41DAP	1.15788	0.938
43DAP/42DAP	1.15235	0.991
47DAP/43DAP	0.92113	0.687
52DAP/47DAP	0.90297	0.693
57DAP/52DAP	1.41961	0.95

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7368	0.064
17DAP/reference	0.58773	0.016
27DAP/reference	0.74113	0.065
39DAP/reference	0.73792	0.056
41DAP/reference	0.45508	0.013
42DAP/reference	0.87672	0.095
43DAP/reference	0.90817	0.41
47DAP/reference	0.92311	0.207
52DAP/reference	1.20608	0.195
57DAP/reference	1.35794	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.64551	0.036
27DAP/17DAP	0.94573	0.614
39DAP/27DAP	1.07711	0.534
41DAP/39DAP	1.14134	0.69
42DAP/41DAP	1.20811	0.178
43DAP/42DAP	0.63855	0.022
47DAP/43DAP	0.93294	0.569
52DAP/47DAP	1.27508	0.31
57DAP/52DAP	1.32242	0.243
57DAP/7DAP	1.32079	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03307	0.91
17DAP/reference	1.05887	0.328
27DAP/reference	1.11104	0.131
39DAP/reference	1.3106	0.006
41DAP/reference	1.10434	0.314
42DAP/reference	0.87066	0.082
43DAP/reference	0.94313	0.292
47DAP/reference	1.28458	0.046
52DAP/reference	1.22097	0.308
57DAP/reference	1.63307	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.64817	0.031
17DAP/reference	0.51554	0.003
27DAP/reference	1.02207	0.735
39DAP/reference	1.0035	0.642
41DAP/reference	1.04179	0.799
42DAP/reference	0.98917	0.594
43DAP/reference	0.65843	0.053
47DAP/reference	0.82647	0.029
52DAP/reference	0.78264	0.014
57DAP/reference	0.37947	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87647	0.169
17DAP/reference	0.84693	0.239
27DAP/reference	0.95812	0.243
39DAP/reference	1.02708	0.836
41DAP/reference	1.05023	0.369
42DAP/reference	1.32328	0.036
43DAP/reference	1.23071	0.131
47DAP/reference	0.95796	0.421
52DAP/reference	1.29536	0.272
57DAP/reference	2.35841	0.015

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09854	0.966
26DAP/20DAP	1.5423	0.129
34DAP/26DAP	0.86007	0.619
51DAP/34DAP	0.98023	0.835
52DAP/51DAP	1.11745	0.873
53DAP/52DAP	0.84043	0.393
55DAP/53DAP	0.97332	0.619
57DAP/55DAP	0.59725	0.068
62DAP/57DAP	1.69717	0.35
68DAP/62DAP	5.87157	0.03
68DAP/14DAP	13.3905	0.018

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.5204	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.13882	0.068
Mature Green Tomato/Ripe Tomato	1.08231	0.898
Immature Eggplant/Mature Eggplant	0.57961	0.125
Ripe Pepper/Ripe Tomato	0.58865	0.224
Mature Eggplant/Ripe Tomato	0.19539	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98786	1
1-1-2/M82	0.81655
12-2/M82	0.60362
12-4/M82	0.77642
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	0.75112
3-2/M82	0.99129	1
4-1-1/M82	0.61217
4-1/M82	N/A	N/A
4-3-2/M82	1.04595
4-3/M82	0.90709	1
5-3/M82	1.40465	0.572
6-2/M82	0.92583
6-3/M82	N/A	N/A
7-1/M82	1.238	1
7-2/M82	N/A	N/A
9-3-2/M82	0.991	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.03386	1
IL2-6/WTpooled	1.52286	0.395
IL7-5/WTpooled	1.04197	0.792
IL7-3/WTpooled	0.84162	0.31
IL12-4/WTpooled	1.04325	0.595
IL1-4/WTpooled	1.03075	1
WT/WTpooled	0.89425	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	1.12805	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05032	0.921
DC3000/delta hrp 6h	1.05495	0.95
DC3000/delta hrp 12h	1.04818	1
DC3000/delta hrp 24h	0.94699	0.67

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.10257	0.102
DC3000 delta B/DC3000 delta AB	1.49297	0.081

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93888	1
Exp 36h	1.09942	1
Exp 60h	1.10877	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.20688	1
Var 0h	1.22173	0.782
Var 12h I row2-row1	0.92279	0.627
Var 12h NI row2-row1	1.08448	1
Var 36h I row2-row1	1.15412	0.291
Var 36h NI row2-row1	0.90551	0.522
Var 60h I row2-row1	0.92248	0.832
Var 60h NI row2-row1	0.80979	0.359
Time course 0hI-0hNI	1.03605	0.852
Time course 12hI-12hNI	1.05724	0.452
Time course 36hI-36hNI	1.1981	0.147
Time course 60hI-60hNI	1.30584	0.022

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)	0.85589	0.286
transgenic ySAMdc/azygous control (breaker)	1.47013	0.172
transgenic ySAMdc/azygous control (red)	1.11743	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.33307	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10514	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.69712	1
Manapal/WT (break)	1.0115	1
Manapal/WT (red)	1.73066	0.15