Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.5.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98005	0.823
27DAP/17DAP	0.70691	0.194
39DAP/27DAP	1.25831	1
41DAP/39DAP	1.01194	1
42DAP/41DAP	1.04094	1
43DAP/42DAP	1.17706	0.957
47DAP/43DAP	1.3878	0.809
52DAP/47DAP	1.1875	0.976
57DAP/52DAP	1.36608	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93467	0.194
17DAP/reference	0.98236	0.737
27DAP/reference	1.02042	1
39DAP/reference	1.021	0.842
41DAP/reference	0.86755	0.267
42DAP/reference	0.95421	0.218
43DAP/reference	1.18763	0.152
47DAP/reference	0.96969	0.392
52DAP/reference	1.06444	0.407
57DAP/reference	1.40376	0.014

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08603	0.785
27DAP/17DAP	0.88879	0.537
39DAP/27DAP	0.80995	0.215
41DAP/39DAP	1.12041	0.674
42DAP/41DAP	1.07194	0.836
43DAP/42DAP	1.05157	0.96
47DAP/43DAP	0.93135	0.75
52DAP/47DAP	1.07145	1
57DAP/52DAP	1.36886	0.206
57DAP/7DAP	0.9837	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04798	0.732
17DAP/reference	0.75658	0.025
27DAP/reference	0.99253	0.656
39DAP/reference	0.76297	0.012
41DAP/reference	0.93689	0.311
42DAP/reference	1.09164	0.174
43DAP/reference	1.1085	0.408
47DAP/reference	1.19196	0.086
52DAP/reference	1.08294	0.636
57DAP/reference	0.85911	0.083

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09331	0.507
17DAP/reference	0.88458	0.208
27DAP/reference	1.10574	0.618
39DAP/reference	0.98396	0.509
41DAP/reference	1.19892	0.149
42DAP/reference	1.09614	0.596
43DAP/reference	0.98108	0.581
47DAP/reference	1.08317	0.527
52DAP/reference	0.89839	0.156
57DAP/reference	1.01333	0.916

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98712	0.653
17DAP/reference	0.88612	0.313
27DAP/reference	0.74669	0.027
39DAP/reference	1.00543	0.889
41DAP/reference	0.78866	0.021
42DAP/reference	0.99091	0.816
43DAP/reference	0.98205	0.614
47DAP/reference	1.02907	1
52DAP/reference	0.88025	0.385
57DAP/reference	1.10337	1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.24676	0.966
26DAP/20DAP	1.91971	0.109
34DAP/26DAP	1.61551	0.819
51DAP/34DAP	1.72733	0.775
52DAP/51DAP	1.7075	0.06
53DAP/52DAP	1.41386	0.738
55DAP/53DAP	1.53301	0.241
57DAP/55DAP	0.73065	0.151
62DAP/57DAP	1.02134	0.902
68DAP/62DAP	1.81735	0.054
68DAP/14DAP	1.31141	0.091

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.1697	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	7.75789

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.67659
IL2-6/WTpooled	1.07327	0.788
IL7-5/WTpooled	1.31628
IL7-3/WTpooled	1.19737	1
IL12-4/WTpooled	1.13553	0.646
IL1-4/WTpooled	1.12992	1
WT/WTpooled	0.91245	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	1.27332	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.014	0.921
DC3000/delta hrp 6h	1.00016	0.95
DC3000/delta hrp 12h	1.29578	1
DC3000/delta hrp 24h	0.74868	0.19

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.91365	0.943
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	1.02402	1
Var 0h	1.07617	0.259
Var 12h I row2-row1	1.14251	0.692
Var 12h NI row2-row1	1.07081	1
Var 36h I row2-row1	0.52111	0.805
Var 36h NI row2-row1	4.78422	1
Var 60h I row2-row1	1.05435	1
Var 60h NI row2-row1	1.15183	0.586
Time course 0hI-0hNI	1.00996	0.867
Time course 12hI-12hNI	0.96494	0.782
Time course 36hI-36hNI	0.8376	0.072
Time course 60hI-60hNI	0.41151	0.005

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)	1.30485	0.218
transgenic ySAMdc/azygous control (breaker)	1.52693	0.178
transgenic ySAMdc/azygous control (red)	1.20228	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96903	0.27

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97222	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.66095	0.172
Manapal/WT (break)	1.13314	0.126
Manapal/WT (red)	1.00095	1