Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.7.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10865	0.602
27DAP/17DAP	1.28368	0.732
39DAP/27DAP	1.23142	0.476
41DAP/39DAP	0.92935	0.65
42DAP/41DAP	1.04224	0.997
43DAP/42DAP	1.02865	1
47DAP/43DAP	0.85532	0.522
52DAP/47DAP	0.89878	0.702
57DAP/52DAP	0.98897	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00627	1
17DAP/reference	0.99177	0.819
27DAP/reference	0.99619	0.847
39DAP/reference	1.05326	0.311
41DAP/reference	0.91686	0.341
42DAP/reference	1.15477	0.001
43DAP/reference	1.07136	0.163
47DAP/reference	1.15805	0.003
52DAP/reference	0.98499	0.546
57DAP/reference	1.12656	0.034

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0338	0.871
27DAP/17DAP	0.62415	0.227
39DAP/27DAP	0.71699	0.087
41DAP/39DAP	1.16279	1
42DAP/41DAP	1.03714	0.887
43DAP/42DAP	1.15697	0.351
47DAP/43DAP	1.0251	0.951
52DAP/47DAP	1.01941	1
57DAP/52DAP	0.92325	0.43
57DAP/7DAP	0.40593	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	3.15922	0.025
17DAP/reference	1.64301	0.007
27DAP/reference	0.88938	0.028
39DAP/reference	1.27699	0.014
41DAP/reference	0.98357	0.449
42DAP/reference	1.02406	0.889
43DAP/reference	1.22326	0.066
47DAP/reference	1.26277	0.029
52DAP/reference	1.31	0.058
57DAP/reference	1.51431	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32414	0.438
17DAP/reference	0.95003	0.317
27DAP/reference	1.03942	0.961
39DAP/reference	0.99324	0.621
41DAP/reference	1.03524	0.862
42DAP/reference	1.03603	0.715
43DAP/reference	0.96313	0.361
47DAP/reference	1.04063	0.556
52DAP/reference	0.99706	0.713
57DAP/reference	0.94186	0.156

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	4.01461	0.017
17DAP/reference	1.58207	0.39
27DAP/reference	1.12779	0.149
39DAP/reference	1.31027	0.025
41DAP/reference	0.94916	0.148
42DAP/reference	1.07356	0.529
43DAP/reference	1.06852	0.505
47DAP/reference	1.08591	0.294
52DAP/reference	1.21846	0.216
57DAP/reference	1.06502	0.694

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01977	0.966
26DAP/20DAP	1.13444	0.449
34DAP/26DAP	0.93766	0.412
51DAP/34DAP	1.02341	0.909
52DAP/51DAP	1.06923	0.596
53DAP/52DAP	0.94438	0.695
55DAP/53DAP	0.97726	0.864
57DAP/55DAP	1.01967	0.955
62DAP/57DAP	1.11706	0.833
68DAP/62DAP	1.37059	0.491
68DAP/14DAP	1.01553	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.89671	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.3247	0.287
Mature Green Tomato/Ripe Tomato	0.88809	0.446
Immature Eggplant/Mature Eggplant	2.45892	0.05
Ripe Pepper/Ripe Tomato	0.1575	0.224
Mature Eggplant/Ripe Tomato	0.14164	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95768	0.934
1-1-2/M82	0.98304	0.958
12-2/M82	0.98812	0.955
12-4/M82	1.05206	1
1-3/M82	0.98931	1
2-1-1/M82	0.79272	0.465
2-1/M82	0.92138	0.74
2-6/M82	0.98634	1
3-2/M82	0.94933	0.752
4-1-1/M82	0.92109	0.847
4-1/M82	1.10507	1
4-3-2/M82	0.96072	1
4-3/M82	0.95649	0.72
5-3/M82	1.00317	1
6-2/M82	0.96534	1
6-3/M82	1.00751	1
7-1/M82	0.96063	0.803
7-2/M82	1.03751	0.385
9-3-2/M82	0.90666	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.23761	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.3352	1
IL12-4/WTpooled	0.79837	0.71
IL1-4/WTpooled	1.16038	0.426
WT/WTpooled	0.87666	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	1.12394	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92969	1
DC3000/delta hrp 6h	0.99938	0.95
DC3000/delta hrp 12h	1.03067	1
DC3000/delta hrp 24h	1.01083	0.821

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.85909	0.105
DC3000 delta B/DC3000 delta AB	0.74903	0.032

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.82087	1
Exp 36h	1.21067	1
Exp 60h	0.85881	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99023	1
Var 0h	0.71048	0.933
Var 12h I row2-row1	1.27948	0.348
Var 12h NI row2-row1	1.22096	1
Var 36h I row2-row1	0.72547	0.374
Var 36h NI row2-row1	2.01067	1
Var 60h I row2-row1	0.81797	0.832
Var 60h NI row2-row1	0.98004	1
Time course 0hI-0hNI	0.7017	0.045
Time course 12hI-12hNI	1.03232	0.867
Time course 36hI-36hNI	0.62289	0.027
Time course 60hI-60hNI	0.52789	0.007

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)	1.36783	0.339
transgenic ySAMdc/azygous control (breaker)	1.21094	1
transgenic ySAMdc/azygous control (red)	0.97106	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.16131	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.57215	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.17185	1
Manapal/WT (break)	1.25734	0.381
Manapal/WT (red)	0.69132	0.181