Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.2.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89006	0.427
27DAP/17DAP	1.0116	0.973
39DAP/27DAP	1.03856	1
41DAP/39DAP	0.99547	0.873
42DAP/41DAP	1.1745	0.899
43DAP/42DAP	0.94717	0.89
47DAP/43DAP	1.02498	0.949
52DAP/47DAP	1.63715	0.333
57DAP/52DAP	0.90452	0.895

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05155	0.366
17DAP/reference	0.9548	0.147
27DAP/reference	0.92706	0.08
39DAP/reference	0.98469	0.828
41DAP/reference	0.93086	0.201
42DAP/reference	1.09124	0.007
43DAP/reference	1.00669	0.928
47DAP/reference	0.96851	0.258
52DAP/reference	0.95109	0.125
57DAP/reference	0.97871	0.358

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95181	0.578
27DAP/17DAP	0.9978	0.969
39DAP/27DAP	1.00715	0.862
41DAP/39DAP	0.99548	1
42DAP/41DAP	1.05686	0.81
43DAP/42DAP	1.14854	0.324
47DAP/43DAP	1.04291	0.889
52DAP/47DAP	0.99295	0.93
57DAP/52DAP	0.90546	0.379
57DAP/7DAP	1.02048	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9521	0.445
17DAP/reference	0.81334	0.064
27DAP/reference	0.76163	0.012
39DAP/reference	1.04377	1
41DAP/reference	0.84015	0.098
42DAP/reference	0.91959	0.151
43DAP/reference	0.73781	0.022
47DAP/reference	0.94422	0.383
52DAP/reference	0.8542	0.083
57DAP/reference	0.80881	0.038

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05455	0.67
17DAP/reference	1.15205	0.011
27DAP/reference	1.06855	0.471
39DAP/reference	1.04899	0.556
41DAP/reference	1.04472	0.705
42DAP/reference	1.06031	0.569
43DAP/reference	1.15302	0.154
47DAP/reference	1.02492	0.712
52DAP/reference	1.04088	0.368
57DAP/reference	1.14483	0.193

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07497	0.518
17DAP/reference	1.04984	0.804
27DAP/reference	0.75427	0.043
39DAP/reference	0.82509	0.058
41DAP/reference	1.02931	1
42DAP/reference	0.89959	0.287
43DAP/reference	0.96308	0.503
47DAP/reference	1.02814	0.355
52DAP/reference	0.77895	0.174
57DAP/reference	0.97167	0.468

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08169	0.966
26DAP/20DAP	0.93626	1
34DAP/26DAP	1.00915	1
51DAP/34DAP	0.99985	0.96
52DAP/51DAP	1.02038	0.848
53DAP/52DAP	1.02111	1
55DAP/53DAP	1.23291	0.261
57DAP/55DAP	0.95504	0.783
62DAP/57DAP	1.22244	0.04
68DAP/62DAP	0.90579	0.345
68DAP/14DAP	0.97368	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98598	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.71961	0.207
Mature Green Tomato/Ripe Tomato	1.27169	0.437
Immature Eggplant/Mature Eggplant	0.60011	0.079
Ripe Pepper/Ripe Tomato	1.49482	0.258
Mature Eggplant/Ripe Tomato	0.8251	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.33181	0.574
1-1-2/M82	0.99096	1
12-2/M82	1.1715
12-4/M82	0.95111	0.619
1-3/M82	1.08897	1
2-1-1/M82	0.94282	0.92
2-1/M82	N/A	N/A
2-6/M82	0.91815	1
3-2/M82	0.97589	1
4-1-1/M82	0.9992	1
4-1/M82	0.94103
4-3-2/M82	1.04949	0.241
4-3/M82	1.29742	1
5-3/M82	0.99481	1
6-2/M82	0.96867	1
6-3/M82	0.99446	1
7-1/M82	1.03626	1
7-2/M82	1.01822	1
9-3-2/M82	0.84494

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.12568	1
IL2-6/WTpooled	1.40004	0.659
IL7-5/WTpooled	0.77791	1
IL7-3/WTpooled	0.79462	0.31
IL12-4/WTpooled	1.06939	0.839
IL1-4/WTpooled	0.88853	0.562
WT/WTpooled	0.99283	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	0.75724	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07692	0.846
DC3000/delta hrp 6h	1.11576	1
DC3000/delta hrp 12h	0.94318	1
DC3000/delta hrp 24h	0.9199	0.607

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.93934	0.765
DC3000 delta B/DC3000 delta AB	0.96044	0.619

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.86999	1
Exp 36h	0.7762	0.449
Exp 60h	0.73422	0.266

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97842	1
Var 0h	0.76797	1
Var 12h I row2-row1	0.97219	0.627
Var 12h NI row2-row1	1.10943	1
Var 36h I row2-row1	0.83309	1
Var 36h NI row2-row1	0.96074	0.61
Var 60h I row2-row1	1.08447	1
Var 60h NI row2-row1	0.98591	1
Time course 0hI-0hNI	0.95581	0.612
Time course 12hI-12hNI	1.03501	0.785
Time course 36hI-36hNI	0.96848	0.389
Time course 60hI-60hNI	0.71975	0.026

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)	1.02802	0.541
transgenic ySAMdc/azygous control (breaker)	1.57097	0.172
transgenic ySAMdc/azygous control (red)	1.09861	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02462	0.163

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.54797	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.86039	0.083
Manapal/WT (break)	2.27853	0.123
Manapal/WT (red)	2.38593	0.126