Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.19.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22269	0.975
27DAP/17DAP	0.8472	0.5
39DAP/27DAP	4.72394	0.046
41DAP/39DAP	1.25689	0.624
42DAP/41DAP	1.1416	0.916
43DAP/42DAP	1.88526	1
47DAP/43DAP	0.98598	0.876
52DAP/47DAP	1.3245	0.545
57DAP/52DAP	1.01037	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02623	0.756
17DAP/reference	1.12246	0.306
27DAP/reference	0.86651	0.17
39DAP/reference	1.1459	0.114
41DAP/reference	1.14497	0.855
42DAP/reference	1.02832	0.688
43DAP/reference	2.01068
47DAP/reference	1.42915	0.032
52DAP/reference	1.28331
57DAP/reference	1.46197

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09045	0.736
27DAP/17DAP	0.80323	0.446
39DAP/27DAP	0.95927	0.747
41DAP/39DAP	1.44782	0.075
42DAP/41DAP	0.88898	0.273
43DAP/42DAP	1.39599	0.031
47DAP/43DAP	1.38412	0.024
52DAP/47DAP	0.68939	0.085
57DAP/52DAP	0.72592	0.169
57DAP/7DAP	0.81353	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20831	0.252
17DAP/reference	1.04537	1
27DAP/reference	1.44327	0.017
39DAP/reference	1.47712	0.779
41DAP/reference	1.5649	0.011
42DAP/reference	1.54785	0.013
43DAP/reference	1.3488	0.014
47DAP/reference	1.15919	0.604
52DAP/reference	1.32033	0.062
57DAP/reference	0.80526	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00088	0.884
17DAP/reference	0.9351	0.422
27DAP/reference	1.0618	0.974
39DAP/reference	1.20364	0.67
41DAP/reference	1.04143	1
42DAP/reference	0.9795	0.534
43DAP/reference	1.02683	0.814
47DAP/reference	1.21424	0.089
52DAP/reference	0.94994	0.302
57DAP/reference	1.01815	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10038	0.23
17DAP/reference	1.01306	0.81
27DAP/reference	1.17016	0.059
39DAP/reference	1.1125	0.342
41DAP/reference	1.06546	0.276
42DAP/reference	1.66428	0.01
43DAP/reference	1.56514	0.022
47DAP/reference	1.04786	0.901
52DAP/reference	1.38228	0.179
57DAP/reference	1.18709	0.157

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.57147
26DAP/20DAP	0.92155	1
34DAP/26DAP	1.02574	1
51DAP/34DAP	1.32344	0.706
52DAP/51DAP	0.87781	1
53DAP/52DAP	1.01086	1
55DAP/53DAP	1.13893	0.771
57DAP/55DAP	1.13994	1
62DAP/57DAP	0.997	1
68DAP/62DAP	0.66993	0.144
68DAP/14DAP	1.83543	0.071

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.28393	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.05416	0.014
Immature Eggplant/Mature Eggplant	0.77087
Ripe Pepper/Ripe Tomato	0.01567	1
Mature Eggplant/Ripe Tomato	0.17052	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.15039
1-1-2/M82	1.18162	1
12-2/M82	1.23598	1
12-4/M82	0.74997	0.358
1-3/M82	2.74738	0.479
2-1-1/M82	1.11588
2-1/M82	0.82021
2-6/M82	1.82567	0.594
3-2/M82	0.5835
4-1-1/M82	2.48872	0.968
4-1/M82	1.20987
4-3-2/M82	1.66428	0.284
4-3/M82	2.22354	1
5-3/M82	1.4354	1
6-2/M82	1.37269
6-3/M82	0.99596	1
7-1/M82	1.67233
7-2/M82	0.2328
9-3-2/M82	3.47319	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.72725	0.247
IL2-6/WTpooled	1.70776	0.456
IL7-5/WTpooled	0.53365	0.559
IL7-3/WTpooled	1.55317	1
IL12-4/WTpooled	1.46518	0.525
IL1-4/WTpooled	0.91551	0.834
WT/WTpooled	0.99951	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	1.07131	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98292	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.09853	1
DC3000/delta hrp 24h	0.82899	0.131

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.98381	0.955
DC3000 delta B/DC3000 delta AB	1.00969	1

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

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

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00547	1
Var 0h	0.50005	1
Var 12h I row2-row1	0.89856	0.363
Var 12h NI row2-row1	1.18891	0.34
Var 36h I row2-row1	0.83511	1
Var 36h NI row2-row1	1.37239	1
Var 60h I row2-row1	0.77351	0.832
Var 60h NI row2-row1	0.88289	0.63
Time course 0hI-0hNI	0.94884	0.675
Time course 12hI-12hNI	1.05057	0.738
Time course 36hI-36hNI	1.00098	0.73
Time course 60hI-60hNI	0.88284	0.161

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)	1.30992	1
transgenic ySAMdc/azygous control (breaker)	0.58016	0.173
transgenic ySAMdc/azygous control (red)	0.86278	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.88575	0.059

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87256	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.2696	0.181