Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.11.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08969	0.798
27DAP/17DAP	1.0653	0.881
39DAP/27DAP	0.99007	0.782
41DAP/39DAP	0.95123	0.785
42DAP/41DAP	0.91961	1
43DAP/42DAP	1.09187	1
47DAP/43DAP	1.05317	0.926
52DAP/47DAP	0.96343	0.859
57DAP/52DAP	1.01044	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97917	0.601
17DAP/reference	1.03224	0.068
27DAP/reference	0.98143	0.683
39DAP/reference	1.10269	0.067
41DAP/reference	1.00236	1
42DAP/reference	0.89011	0.001
43DAP/reference	0.98235	0.728
47DAP/reference	0.97521	0.366
52DAP/reference	0.86922	0.075
57DAP/reference	0.90687	0.096

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96379	0.679
27DAP/17DAP	0.99935	1
39DAP/27DAP	1.12044	0.337
41DAP/39DAP	1.03976	0.807
42DAP/41DAP	0.98701	0.841
43DAP/42DAP	1.16744	0.016
47DAP/43DAP	1.09003	0.601
52DAP/47DAP	0.92315	0.382
57DAP/52DAP	0.97949	0.716
57DAP/7DAP	0.97155	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88874	0.086
17DAP/reference	0.89983	0.014
27DAP/reference	0.90075	0.01
39DAP/reference	0.99738	0.745
41DAP/reference	0.9764	0.375
42DAP/reference	0.93609	0.026
43DAP/reference	0.9561	0.192
47DAP/reference	0.94877	0.293
52DAP/reference	1.0156	0.832
57DAP/reference	0.92269	0.032

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98413	0.736
17DAP/reference	0.95541	0.113
27DAP/reference	0.93422	0.304
39DAP/reference	0.8846	0.095
41DAP/reference	0.90507	0.054
42DAP/reference	0.9492	0.212
43DAP/reference	1.01691	0.827
47DAP/reference	0.94808	0.045
52DAP/reference	0.95959	0.187
57DAP/reference	1.01163	0.807

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90294	0.037
17DAP/reference	0.95427	0.221
27DAP/reference	0.94046	0.058
39DAP/reference	0.93058	0.021
41DAP/reference	0.91495	0.148
42DAP/reference	0.82839	0.02
43DAP/reference	0.88634	0.04
47DAP/reference	0.9698	0.371
52DAP/reference	0.94509	0.444
57DAP/reference	0.79283	0.024

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92904	0.611
26DAP/20DAP	1.00624	1
34DAP/26DAP	0.94605	0.682
51DAP/34DAP	1.02226	0.814
52DAP/51DAP	0.98264	1
53DAP/52DAP	0.96945	0.924
55DAP/53DAP	N/A	N/A
57DAP/55DAP	1.0621	0.793
62DAP/57DAP	1.01625	1
68DAP/62DAP	1.28826	0.206
68DAP/14DAP	0.7924	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.06755	0.045

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.08118	0.287
Mature Green Tomato/Ripe Tomato	0.80726	0.182
Immature Eggplant/Mature Eggplant	1.32461	0.065
Ripe Pepper/Ripe Tomato	1.35869	1
Mature Eggplant/Ripe Tomato	1.65815	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98948	0.961
1-1-2/M82	1.08074	1
12-2/M82	1.02679	1
12-4/M82	0.9387	1
1-3/M82	1.02698
2-1-1/M82	1.13362	0.689
2-1/M82	N/A	N/A
2-6/M82	0.98546	1
3-2/M82	0.92712	0.752
4-1-1/M82	0.89312	0.962
4-1/M82	0.97673	1
4-3-2/M82	0.88079	0.487
4-3/M82	0.81936	0.72
5-3/M82	1.01843	1
6-2/M82	1.07314
6-3/M82	N/A	N/A
7-1/M82	1.15011	0.598
7-2/M82	0.99294	1
9-3-2/M82	0.84609	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.21277	0.277
IL2-6/WTpooled	0.91666	0.473
IL7-5/WTpooled	0.98352	1
IL7-3/WTpooled	1.03353	1
IL12-4/WTpooled	1.13984	0.546
IL1-4/WTpooled	1.0514	1
WT/WTpooled	1.01266	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	1.44306	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96747	1
DC3000/delta hrp 6h	1.13242	1
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.0526	0.673

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.13482	0.183
DC3000 delta B/DC3000 delta AB	1.10554	0.324

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92462	1
Exp 36h	1.06782	1
Exp 60h	1.19635	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99739	1
Var 0h	1.07382	1
Var 12h I row2-row1	1.12947	0.406
Var 12h NI row2-row1	0.99244	1
Var 36h I row2-row1	0.89603	0.805
Var 36h NI row2-row1	0.89038	0.584
Var 60h I row2-row1	1.17489	1
Var 60h NI row2-row1	1.17472	0.904
Time course 0hI-0hNI	1.02444	1
Time course 12hI-12hNI	1.01553	0.867
Time course 36hI-36hNI	0.92589	0.26
Time course 60hI-60hNI	0.96979	0.646

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)	0.88852	0.32
transgenic ySAMdc/azygous control (breaker)	1.6628	0.166
transgenic ySAMdc/azygous control (red)	1.0798	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00472	0.766

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.18213	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.72729	0.172
Manapal/WT (break)	0.97559	1
Manapal/WT (red)	1.43166	0.15