Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.2.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.69747	0.11
27DAP/17DAP	0.72898	0.206
39DAP/27DAP	0.93178	0.641
41DAP/39DAP	0.68632	0.102
42DAP/41DAP	1.30707	0.825
43DAP/42DAP	0.96479	0.909
47DAP/43DAP	1.17656	0.595
52DAP/47DAP	1.34468	0.509
57DAP/52DAP	0.90821	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.37866	0.012
17DAP/reference	1.14697	0.059
27DAP/reference	1.23671	0.03
39DAP/reference	0.94425	0.37
41DAP/reference	0.94435	0.267
42DAP/reference	0.87398	0.003
43DAP/reference	0.93579	0.331
47DAP/reference	0.94766	0.161
52DAP/reference	0.84743	0.064
57DAP/reference	0.96877	0.395

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84542	0.323
27DAP/17DAP	0.95628	0.782
39DAP/27DAP	1.00533	1
41DAP/39DAP	0.75626	0.108
42DAP/41DAP	1.22166	0.74
43DAP/42DAP	1.06131	0.664
47DAP/43DAP	0.97243	0.886
52DAP/47DAP	0.93192	0.777
57DAP/52DAP	1.09086	0.806
57DAP/7DAP	0.7762	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93698	0.445
17DAP/reference	1.01195	1
27DAP/reference	0.95505	0.375
39DAP/reference	0.89648	0.198
41DAP/reference	1.04618	0.678
42DAP/reference	1.26491	0.174
43DAP/reference	0.81875	0.054
47DAP/reference	0.98435	0.671
52DAP/reference	0.92155	0.179
57DAP/reference	0.77658	0.034

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.46069	0.067
17DAP/reference	1.50179	0.007
27DAP/reference	1.24959	0.146
39DAP/reference	0.89185	0.119
41DAP/reference	0.91092	0.242
42DAP/reference	1.0717	0.488
43DAP/reference	1.30839	0.447
47DAP/reference	0.94262	0.284
52DAP/reference	0.96989	0.433
57DAP/reference	0.97313	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92011	0.311
17DAP/reference	1.22923	0.203
27DAP/reference	1.13521	0.137
39DAP/reference	1.0057	0.819
41DAP/reference	0.97862	0.618
42DAP/reference	0.92931	0.361
43DAP/reference	0.86167	0.11
47DAP/reference	0.92467	0.199
52DAP/reference	1.08153	0.759
57DAP/reference	0.94992	0.234

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.28472	0.678
26DAP/20DAP	0.72569	0.512
34DAP/26DAP	1.10196	1
51DAP/34DAP	0.79615	0.188
52DAP/51DAP	0.89748	1
53DAP/52DAP	1.00647	0.938
55DAP/53DAP	0.88957	0.188
57DAP/55DAP	0.99129	0.902
62DAP/57DAP	1.09698	0.678
68DAP/62DAP	1.32412	0.657
68DAP/14DAP	0.92185	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.65511	0.031

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	8.2464	0.058
Mature Green Tomato/Ripe Tomato	1.79199	0.022
Immature Eggplant/Mature Eggplant	0.18155	0.062
Ripe Pepper/Ripe Tomato	17.1173
Mature Eggplant/Ripe Tomato	N/A	N/A

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	1.03334
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	1.35703
3-2/M82	0.79363
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	0.73907
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	1.11438

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.88184	1
IL2-6/WTpooled	1.02288	0.46
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.01251	1
IL12-4/WTpooled	0.95321	1
IL1-4/WTpooled	0.97073	0.444
WT/WTpooled	0.98184	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	0.85213	0.341

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97532	1
DC3000/delta hrp 6h	1.08604	1
DC3000/delta hrp 12h	1.00913	1
DC3000/delta hrp 24h	1.00764	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.41954	0.023
DC3000 delta B/DC3000 delta AB	0.57516	0.042

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07128	1
Exp 36h	0.65761	0.426
Exp 60h	0.63048	0.253

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98828	1
Var 0h	0.99453	1
Var 12h I row2-row1	1.00133	1
Var 12h NI row2-row1	0.99946	1
Var 36h I row2-row1	1.2911	0.601
Var 36h NI row2-row1	0.95173	0.478
Var 60h I row2-row1	0.99709	1
Var 60h NI row2-row1	0.95363	0.932
Time course 0hI-0hNI	0.98176	0.945
Time course 12hI-12hNI	0.94346	0.393
Time course 36hI-36hNI	0.92053	0.091
Time course 60hI-60hNI	0.45857	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)	0.69587	0.246
transgenic ySAMdc/azygous control (breaker)	1.69896	1
transgenic ySAMdc/azygous control (red)	1.10458	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.91847	0.062

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.88637	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02216	1
Manapal/WT (break)	1.55758	0.381
Manapal/WT (red)	0.99673	0.863