Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.2.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07814	0.827
27DAP/17DAP	0.86723	0.67
39DAP/27DAP	1.05881	0.857
41DAP/39DAP	0.61067	0.048
42DAP/41DAP	1.14551	0.871
43DAP/42DAP	1.0996	1
47DAP/43DAP	0.54921	0.055
52DAP/47DAP	0.82324	0.554
57DAP/52DAP	0.78741	0.772

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20888	0.093
17DAP/reference	1.03139	0.813
27DAP/reference	1.02251	0.966
39DAP/reference	1.26763	0.039
41DAP/reference	0.98702	0.814
42DAP/reference	1.38018	0.001
43DAP/reference	1.1362	0.126
47DAP/reference	0.93316	0.09
52DAP/reference	0.88829	0.105
57DAP/reference	1.04603	0.724

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17853	0.117
27DAP/17DAP	0.89219	0.1
39DAP/27DAP	0.7155	0.047
41DAP/39DAP	0.92135	0.747
42DAP/41DAP	0.8525	0.116
43DAP/42DAP	0.86746	0.035
47DAP/43DAP	0.83248	0.166
52DAP/47DAP	0.95712	0.839
57DAP/52DAP	0.98612	0.745
57DAP/7DAP	0.76558	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.43309	0.038
17DAP/reference	1.1259	0.147
27DAP/reference	1.08114	0.041
39DAP/reference	1.07923	0.486
41DAP/reference	0.88848	0.042
42DAP/reference	1.17418	0.076
43DAP/reference	0.99835	0.694
47DAP/reference	1.01902	0.932
52DAP/reference	1.12965	0.016
57DAP/reference	1.28669	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93143	0.518
17DAP/reference	1.51437	0.151
27DAP/reference	1.19889	0.083
39DAP/reference	0.97213	0.509
41DAP/reference	1.29118	0.106
42DAP/reference	1.21993	0.056
43DAP/reference	1.02828	1
47DAP/reference	1.31648	0.01
52DAP/reference	0.85778	0.111
57DAP/reference	0.8039	0.035

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.46225	0.033
17DAP/reference	1.83458	0.264
27DAP/reference	1.41038	0.028
39DAP/reference	1.66958	0.008
41DAP/reference	1.4039	0.01
42DAP/reference	1.18918	0.106
43DAP/reference	1.18489	0.254
47DAP/reference	1.20083	0.085
52DAP/reference	0.83102	0.111
57DAP/reference	1.68578	0.009

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.43935	0.966
26DAP/20DAP	0.80014	0.512
34DAP/26DAP	1.23946	1
51DAP/34DAP	1.35991	0.898
52DAP/51DAP	1.0306	0.965
53DAP/52DAP	0.96218	0.844
55DAP/53DAP	1.18561	0.361
57DAP/55DAP	1.08463	0.975
62DAP/57DAP	0.78882	0.28
68DAP/62DAP	1.10009	0.831
68DAP/14DAP	1.58522	0.041

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.27586	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	4.51866	0.058
Mature Green Tomato/Ripe Tomato	9.23912	0.015
Immature Eggplant/Mature Eggplant	0.50003	0.062
Ripe Pepper/Ripe Tomato	1.2214	1
Mature Eggplant/Ripe Tomato	7.84502	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12235	0.742
1-1-2/M82	1.05166	1
12-2/M82	0.91498	0.955
12-4/M82	0.93057	1
1-3/M82	1.09525	1
2-1-1/M82	1.1584	1
2-1/M82	0.69086
2-6/M82	1.24075	0.505
3-2/M82	N/A	N/A
4-1-1/M82	0.9936
4-1/M82	1.2795
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.82079	0.642
6-2/M82	1.09103	1
6-3/M82	0.95707	1
7-1/M82	N/A	N/A
7-2/M82	1.09917	1
9-3-2/M82	1.64569

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.06609	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.85128	0.418
IL12-4/WTpooled	1.02425	0.891
IL1-4/WTpooled	0.92044	0.394
WT/WTpooled	0.97209	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	1.0166	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98178	1
DC3000/delta hrp 6h	0.99107	0.95
DC3000/delta hrp 12h	1.15375	1
DC3000/delta hrp 24h	0.69697	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.51321	0.023
DC3000 delta B/DC3000 delta AB	0.57764	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04078	1
Exp 36h	0.68954	0.449
Exp 60h	0.60186	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04048	1
Var 0h	1.21045	0.311
Var 12h I row2-row1	0.73947	0.357
Var 12h NI row2-row1	0.93288	0.713
Var 36h I row2-row1	0.86028	0.805
Var 36h NI row2-row1	1.20675	1
Var 60h I row2-row1	1.27475	0.543
Var 60h NI row2-row1	0.91409	0.932
Time course 0hI-0hNI	0.97385	0.892
Time course 12hI-12hNI	0.96226	0.698
Time course 36hI-36hNI	0.8685	0.058
Time course 60hI-60hNI	0.11254	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)	1.09672	0.541
transgenic ySAMdc/azygous control (breaker)	1.3699	0.248
transgenic ySAMdc/azygous control (red)	1.04663	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98213	0.517

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.34242	0.228

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.34074	0.083
Manapal/WT (break)	4.03749	0.123
Manapal/WT (red)	1.95245	0.133