Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.13.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89473	0.427
27DAP/17DAP	1.08441	0.881
39DAP/27DAP	0.7465	0.255
41DAP/39DAP	1.44015	0.422
42DAP/41DAP	0.99058	1
43DAP/42DAP	0.88539	0.801
47DAP/43DAP	0.93212	0.754
52DAP/47DAP	1.1056	0.844
57DAP/52DAP	0.94363	0.918

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97257	0.465
17DAP/reference	0.96268	0.24
27DAP/reference	0.97841	0.552
39DAP/reference	1.03838	0.294
41DAP/reference	0.93649	0.267
42DAP/reference	0.95332	0.081
43DAP/reference	0.99457	0.861
47DAP/reference	0.95975	0.137
52DAP/reference	0.87889	0.099
57DAP/reference	1.00384	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9649	0.613
27DAP/17DAP	0.98638	0.748
39DAP/27DAP	1.03373	0.603
41DAP/39DAP	1.02349	0.88
42DAP/41DAP	0.94004	0.473
43DAP/42DAP	1.0215	0.297
47DAP/43DAP	0.98199	0.928
52DAP/47DAP	0.97718	0.9
57DAP/52DAP	0.99686	0.881
57DAP/7DAP	1.05989	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31574	0.087
17DAP/reference	1.46553	0.022
27DAP/reference	1.3386	0.008
39DAP/reference	1.54066	0.018
41DAP/reference	1.47704	0.042
42DAP/reference	1.39573	0.024
43DAP/reference	1.81958	0.007
47DAP/reference	1.24443	0.48
52DAP/reference	1.3465	0.076
57DAP/reference	1.49327	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19307	0.634
17DAP/reference	0.92577	0.092
27DAP/reference	0.89882	0.229
39DAP/reference	0.91773	0.099
41DAP/reference	0.94148	0.212
42DAP/reference	0.93107	0.098
43DAP/reference	0.96331	0.494
47DAP/reference	1.0133	0.775
52DAP/reference	0.94179	0.047
57DAP/reference	0.94296	0.169

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.9056	0.019
17DAP/reference	1.06014	0.934
27DAP/reference	1.79108	0.02
39DAP/reference	1.41651	0.025
41DAP/reference	1.36013	0.062
42DAP/reference	1.16522	0.18
43DAP/reference	1.01749	0.973
47DAP/reference	0.96831	0.325
52DAP/reference	1.24781	0.212
57DAP/reference	1.06597	0.892

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03642	0.966
26DAP/20DAP	0.99084	1
34DAP/26DAP	1.03123	0.819
51DAP/34DAP	0.97143	0.779
52DAP/51DAP	1.02871	0.704
53DAP/52DAP	1.02698	0.83
55DAP/53DAP	1.03713	0.885
57DAP/55DAP	1.05178	0.682
62DAP/57DAP	0.99467	1
68DAP/62DAP	1.05087	0.936
68DAP/14DAP	1.17317	0.403

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.06839	0.198

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.56774
Mature Green Tomato/Ripe Tomato	0.78091	0.165
Immature Eggplant/Mature Eggplant	1.42126	0.065
Ripe Pepper/Ripe Tomato	0.87096	1
Mature Eggplant/Ripe Tomato	0.98728	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.86647	0.536
1-1-2/M82	0.95264	0.958
12-2/M82	0.96771	0.955
12-4/M82	0.93742	1
1-3/M82	0.97564	0.501
2-1-1/M82	1.09841	0.764
2-1/M82	1.53702	1
2-6/M82	0.96737	1
3-2/M82	0.98583	1
4-1-1/M82	1.08577	1
4-1/M82	0.92177	1
4-3-2/M82	0.94094	1
4-3/M82	0.98421	1
5-3/M82	1.02198	1
6-2/M82	0.99748	1
6-3/M82	1.00428	1
7-1/M82	1.02187	0.598
7-2/M82	0.95496	0.578
9-3-2/M82	0.85145	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.16591	0.365
IL2-6/WTpooled	0.92661	1
IL7-5/WTpooled	1.0522	1
IL7-3/WTpooled	0.99954	1
IL12-4/WTpooled	1.07748	0.646
IL1-4/WTpooled	0.94837	0.834
WT/WTpooled	0.97429	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	1.14817	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98835	0.545
DC3000/delta hrp 6h	0.9789	0.95
DC3000/delta hrp 12h	1.00355	1
DC3000/delta hrp 24h	1.00511	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.26567	0.044
DC3000 delta B/DC3000 delta AB	1.16229	0.272

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92893	0.328
Exp 36h	1.238	1
Exp 60h	1.10437	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98449	1
Var 0h	1.13254	0.594
Var 12h I row2-row1	1.12948	0.22
Var 12h NI row2-row1	1.00984	1
Var 36h I row2-row1	1.11978	1
Var 36h NI row2-row1	0.99518	1
Var 60h I row2-row1	1.05543	1
Var 60h NI row2-row1	1.0817	0.904
Time course 0hI-0hNI	1.02094	1
Time course 12hI-12hNI	1.02907	0.798
Time course 36hI-36hNI	0.94145	0.246
Time course 60hI-60hNI	1.17646	0.008

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)	0.98648	0.662
transgenic ySAMdc/azygous control (breaker)	1.60009	0.166
transgenic ySAMdc/azygous control (red)	1.14725	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96538	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.13581	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84451	0.172
Manapal/WT (break)	1.0683	1
Manapal/WT (red)	0.80559	0.181