Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.9.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16434	0.812
27DAP/17DAP	1.1151	0.872
39DAP/27DAP	1.19242	0.804
41DAP/39DAP	0.97635	0.879
42DAP/41DAP	1.34214	0.825
43DAP/42DAP	1.20311	1
47DAP/43DAP	1.11718	0.208
52DAP/47DAP	1.10669	0.898
57DAP/52DAP	0.91338	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93457	0.362
17DAP/reference	0.88234	0.097
27DAP/reference	0.88832	0.349
39DAP/reference	1.00281	0.941
41DAP/reference	0.85524	0.201
42DAP/reference	0.82657	0.011
43DAP/reference	0.97175	0.691
47DAP/reference	0.96433	0.392
52DAP/reference	0.97121	0.461
57DAP/reference	1.08215	0.366

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.4339	0.372
27DAP/17DAP	1.19091	0.295
39DAP/27DAP	1.15656	0.505
41DAP/39DAP	1.26502	0.033
42DAP/41DAP	1.02848	1
43DAP/42DAP	0.94031	0.709
47DAP/43DAP	1.15498	0.383
52DAP/47DAP	1.01147	0.975
57DAP/52DAP	1.26647	0.622
57DAP/7DAP	1.35416	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13087	0.246
17DAP/reference	0.99689	0.693
27DAP/reference	1.21881	0.088
39DAP/reference	1.19854	0.149
41DAP/reference	1.39484	0.291
42DAP/reference	1.18607	0.308
43DAP/reference	1.44655	0.012
47DAP/reference	0.99287	1
52DAP/reference	1.19843	0.043
57DAP/reference	1.15472	0.029

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0935	0.874
17DAP/reference	0.97853	0.487
27DAP/reference	0.98779	0.663
39DAP/reference	1.00589	0.621
41DAP/reference	0.99844	0.557
42DAP/reference	0.90807	0.321
43DAP/reference	0.98919	0.706
47DAP/reference	0.86473	0.085
52DAP/reference	1.07421	0.471
57DAP/reference	0.9773	0.61

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16097	0.088
17DAP/reference	1.08522	0.675
27DAP/reference	1.47977	0.033
39DAP/reference	1.08172	0.377
41DAP/reference	1.09389	0.471
42DAP/reference	1.02875	1
43DAP/reference	0.89125	0.188
47DAP/reference	0.96659	0.478
52DAP/reference	1.18534	0.198
57DAP/reference	1.29274	0.332

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07346	1
26DAP/20DAP	1.29259	0.243
34DAP/26DAP	0.92605	0.898
51DAP/34DAP	1.54373	0.1
52DAP/51DAP	0.91884	1
53DAP/52DAP	1.18867	0.343
55DAP/53DAP	1.11308	0.898
57DAP/55DAP	1.07391	1
62DAP/57DAP	0.80672	0.162
68DAP/62DAP	1.2583	0.375
68DAP/14DAP	1.29777	0.87

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.46725	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.91395	0.471
Mature Green Tomato/Ripe Tomato	0.90423	0.611
Immature Eggplant/Mature Eggplant	1.64919	0.222
Ripe Pepper/Ripe Tomato	3.01116	1
Mature Eggplant/Ripe Tomato	1.48126	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91722	0.944
1-1-2/M82	0.95679	1
12-2/M82	0.9327	0.955
12-4/M82	0.89077	0.33
1-3/M82	0.89672	0.501
2-1-1/M82	1.01981
2-1/M82	1.20561
2-6/M82	1.01555	1
3-2/M82	1.20992
4-1-1/M82	0.99773	1
4-1/M82	N/A	N/A
4-3-2/M82	0.83326	0.698
4-3/M82	0.99336	1
5-3/M82	1.08143	1
6-2/M82	0.81317	0.481
6-3/M82	0.99569	1
7-1/M82	1.07748	1
7-2/M82	0.87155
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.2426
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	0.82025	0.341

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95961	1
DC3000/delta hrp 6h	1.39128	1
DC3000/delta hrp 12h	1.0217	1
DC3000/delta hrp 24h	1.54637	0.099

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	0.63468

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.19774	0.227
Exp 36h	1.13208	0.693
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	0.98359	1
Var 0h	1.20442	0.98
Var 12h I row2-row1	1.15774	0.473
Var 12h NI row2-row1	1.07585	1
Var 36h I row2-row1	1.16201	0.298
Var 36h NI row2-row1	0.86276	0.645
Var 60h I row2-row1	1.11119	0.543
Var 60h NI row2-row1	0.97383	1
Time course 0hI-0hNI	0.88339	0.169
Time course 12hI-12hNI	1.09179	0.56
Time course 36hI-36hNI	1.07905	0.513
Time course 60hI-60hNI	0.99931	1

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)	1.13919	0.212
transgenic ySAMdc/azygous control (breaker)	0.99912	1
transgenic ySAMdc/azygous control (red)	0.95967	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96783	0.237

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.7821	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.82944	1
Manapal/WT (break)	0.88986	1
Manapal/WT (red)	0.77481	0.181