Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.15.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89087	0.357
27DAP/17DAP	1.0622	0.881
39DAP/27DAP	1.39031	0.397
41DAP/39DAP	1.13873	0.334
42DAP/41DAP	0.84862	1
43DAP/42DAP	0.88816	0.67
47DAP/43DAP	1.24248	0.269
52DAP/47DAP	1.20178	0.593
57DAP/52DAP	0.98221	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95773	0.3
17DAP/reference	0.94394	0.208
27DAP/reference	0.95117	0.249
39DAP/reference	0.91935	0.35
41DAP/reference	0.90405	0.085
42DAP/reference	0.98447	0.372
43DAP/reference	1.06158	0.445
47DAP/reference	0.923	0.035
52DAP/reference	0.92992	0.237
57DAP/reference	0.96735	0.395

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9526	0.578
27DAP/17DAP	1.07272	0.909
39DAP/27DAP	1.09692	0.465
41DAP/39DAP	1.0588	1
42DAP/41DAP	1.0712	0.708
43DAP/42DAP	0.98171	0.875
47DAP/43DAP	1.05393	0.892
52DAP/47DAP	0.97001	0.902
57DAP/52DAP	1.04052	0.772
57DAP/7DAP	1.01766	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91703	0.138
17DAP/reference	0.92362	0.021
27DAP/reference	0.93351	0.017
39DAP/reference	0.88335	0.011
41DAP/reference	0.83472	0.017
42DAP/reference	0.85933	0.035
43DAP/reference	0.90372	0.079
47DAP/reference	0.91495	0.168
52DAP/reference	0.85163	0.04
57DAP/reference	0.87435	0.025

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00613	1
17DAP/reference	0.9717	0.51
27DAP/reference	0.93682	0.352
39DAP/reference	0.87505	0.05
41DAP/reference	0.86874	0.044
42DAP/reference	0.96815	0.392
43DAP/reference	1.02755	0.929
47DAP/reference	1.02058	0.89
52DAP/reference	0.95008	0.156
57DAP/reference	1.11987	0.236

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94516	0.29
17DAP/reference	1.09278	0.563
27DAP/reference	0.9069	0.119
39DAP/reference	0.92889	0.054
41DAP/reference	0.8506	0.264
42DAP/reference	0.92586	0.059
43DAP/reference	0.85846	0.051
47DAP/reference	1.01749	0.994
52DAP/reference	0.9127	0.385
57DAP/reference	0.86713	0.057

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91032	0.42
26DAP/20DAP	0.85475	0.244
34DAP/26DAP	1.01534	1
51DAP/34DAP	0.81861	0.117
52DAP/51DAP	1.09818	0.51
53DAP/52DAP	1.03564	0.901
55DAP/53DAP	1.0673	0.689
57DAP/55DAP	0.82004	0.246
62DAP/57DAP	1.00572	1
68DAP/62DAP	0.93826	0.747
68DAP/14DAP	0.98317	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.02247	0.696

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.28734	0.058
Mature Green Tomato/Ripe Tomato	0.7853	0.107
Immature Eggplant/Mature Eggplant	1.03005	0.683
Ripe Pepper/Ripe Tomato	0.85286	0.224
Mature Eggplant/Ripe Tomato	0.99287	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10421	1
1-1-2/M82	0.93011	1
12-2/M82	1.16899	1
12-4/M82	0.8897	1
1-3/M82	0.94932	0.501
2-1-1/M82	1.02543	1
2-1/M82	1.47664	1
2-6/M82	0.99097	1
3-2/M82	0.98377
4-1-1/M82	1.11048	1
4-1/M82	1.13838	0.853
4-3-2/M82	0.97167
4-3/M82	1.13116	1
5-3/M82	1.04433	1
6-2/M82	1.02479	1
6-3/M82	0.99813	1
7-1/M82	0.92327	0.803
7-2/M82	0.9535	0.881
9-3-2/M82	0.74078	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.76744	0.383
IL7-5/WTpooled	0.92166
IL7-3/WTpooled	0.98814	1
IL12-4/WTpooled	0.90641	0.581
IL1-4/WTpooled	0.96439	1
WT/WTpooled	1.04782	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	1.0498	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03351	0.921
DC3000/delta hrp 6h	1.33906	1
DC3000/delta hrp 12h	1.08058	1
DC3000/delta hrp 24h	1.01085	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.94772	0.955
DC3000 delta B/DC3000 delta AB	0.96294	0.745

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.12805	1
Exp 60h	1.21314	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00748	1
Var 0h	0.93832	1
Var 12h I row2-row1	1.09928	0.283
Var 12h NI row2-row1	0.99515	1
Var 36h I row2-row1	0.91293	0.805
Var 36h NI row2-row1	0.89238	0.61
Var 60h I row2-row1	1.34972	0.562
Var 60h NI row2-row1	1.20569	0.904
Time course 0hI-0hNI	1.06039	0.799
Time course 12hI-12hNI	1.00375	1
Time course 36hI-36hNI	0.94566	0.129
Time course 60hI-60hNI	1.16172	0.069

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)	1.05994	1
transgenic ySAMdc/azygous control (breaker)	1.09521	1
transgenic ySAMdc/azygous control (red)	1.03863	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05318	0.041

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99437	1
Manapal/WT (break)	1.30356	1
Manapal/WT (red)	1.0444	1