Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.2.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.6703	0.09
27DAP/17DAP	0.70204	0.184
39DAP/27DAP	0.59997	0.286
41DAP/39DAP	0.66927	0.103
42DAP/41DAP	0.84417	0.774
43DAP/42DAP	1.27949	0.252
47DAP/43DAP	0.96383	0.851
52DAP/47DAP	1.40707	0.384
57DAP/52DAP	0.76415	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.57367	0.024
17DAP/reference	0.40474	0.007
27DAP/reference	0.4142	0.011
39DAP/reference	0.38488	0.009
41DAP/reference	0.37315	0.008
42DAP/reference	0.53898	0.001
43DAP/reference	0.38374	0.014
47DAP/reference	0.44881	0.001
52DAP/reference	0.43887	0.014
57DAP/reference	0.52727	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.98848	0.036
27DAP/17DAP	0.63645	0.1
39DAP/27DAP	0.44555	0.028
41DAP/39DAP	1.1521	0.439
42DAP/41DAP	0.93301	0.61
43DAP/42DAP	0.98972	0.902
47DAP/43DAP	1.29179	1
52DAP/47DAP	1.05323	0.883
57DAP/52DAP	1.13377	0.759
57DAP/7DAP	1.14165	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81207	0.06
17DAP/reference	0.62351	0.012
27DAP/reference	0.54526	0.01
39DAP/reference	0.46935	0.011
41DAP/reference	0.51072	0.012
42DAP/reference	0.66505	0.04
43DAP/reference	0.49536	0.008
47DAP/reference	0.43772	0.03
52DAP/reference	0.50841	0.013
57DAP/reference	0.63615	0.031

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.42716	0.005
17DAP/reference	0.46286	0.008
27DAP/reference	0.47299	0.006
39DAP/reference	0.53673	0.026
41DAP/reference	0.64393	0.015
42DAP/reference	0.58598	0.013
43DAP/reference	0.33201	0.002
47DAP/reference	0.47182	0.01
52DAP/reference	0.48315	0.014
57DAP/reference	0.49797	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.39595	0.039
17DAP/reference	1.38562	0.143
27DAP/reference	0.9477	0.416
39DAP/reference	0.78665	0.029
41DAP/reference	0.7579	0.046
42DAP/reference	0.56017	0.019
43DAP/reference	0.54644	0.041
47DAP/reference	0.40652	0.004
52DAP/reference	0.49444	0.047
57DAP/reference	0.80499	0.116

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9979	1
26DAP/20DAP	0.86617	1
34DAP/26DAP	0.91505	0.834
51DAP/34DAP	0.72463	0.311
52DAP/51DAP	0.99166	1
53DAP/52DAP	0.5846	0.049
55DAP/53DAP	0.89256	0.563
57DAP/55DAP	1.24088	0.888
62DAP/57DAP	1.4378
68DAP/62DAP	0.99816	0.914
68DAP/14DAP	1.19137	0.915

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.48869	0.031

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.78457	0.058
Mature Green Tomato/Ripe Tomato	1.57569	0.209
Immature Eggplant/Mature Eggplant	0.2191	0.062
Ripe Pepper/Ripe Tomato	0.79194	0.224
Mature Eggplant/Ripe Tomato	1.02222	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.66461	0.402
1-1-2/M82	1.02822	1
12-2/M82	1.23253	0.448
12-4/M82	0.75533	0.358
1-3/M82	1.13978	0.479
2-1-1/M82	0.89656	1
2-1/M82	1.15062	1
2-6/M82	0.87156	1
3-2/M82	0.63195
4-1-1/M82	0.67894	0.792
4-1/M82	0.80249	0.737
4-3-2/M82	0.67536	0.487
4-3/M82	0.49444	0.273
5-3/M82	1.10489	1
6-2/M82	1.35848	1
6-3/M82	0.92165	1
7-1/M82	1.19134	1
7-2/M82	1.12872	0.385
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.62177
IL2-6/WTpooled	1.01557	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.02958	1
IL12-4/WTpooled	1.0847	0.646
IL1-4/WTpooled	0.95873
WT/WTpooled	1.05936	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	0.96806	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99861	1
DC3000/delta hrp 6h	1.08257	1
DC3000/delta hrp 12h	0.81135	1
DC3000/delta hrp 24h	0.92899	0.543

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.60134	0.038
DC3000 delta B/DC3000 delta AB	0.4745	0.024

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01736	1
Exp 36h	0.90609	0.82
Exp 60h	0.82752	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96453	1
Var 0h	0.95327	1
Var 12h I row2-row1	0.88727	0.514
Var 12h NI row2-row1	1.04572	1
Var 36h I row2-row1	0.87099	0.805
Var 36h NI row2-row1	1.08366	1
Var 60h I row2-row1	1.28244	0.543
Var 60h NI row2-row1	1.00001	1
Time course 0hI-0hNI	1.01921	1
Time course 12hI-12hNI	0.93521	0.357
Time course 36hI-36hNI	0.87847	0.096
Time course 60hI-60hNI	0.24974	0.006

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)	1.00346	0.931
transgenic ySAMdc/azygous control (breaker)	0.92048	0.49
transgenic ySAMdc/azygous control (red)	0.99855	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.61192	0.131

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.50515	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	13.6616	0.093
Manapal/WT (break)	1.22277	1
Manapal/WT (red)	0.59957	0.181