Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.8.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13614	0.851
27DAP/17DAP	0.87397	0.683
39DAP/27DAP	1.08242	1
41DAP/39DAP	1.11554	0.339
42DAP/41DAP	1.21233	0.712
43DAP/42DAP	0.92973	0.829
47DAP/43DAP	0.77949	0.35
52DAP/47DAP	0.96861	0.848
57DAP/52DAP	1.01769	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98239	0.63
17DAP/reference	1.0659	0.148
27DAP/reference	0.98937	0.741
39DAP/reference	1.00877	0.691
41DAP/reference	1.10719	0.171
42DAP/reference	0.87033	0.017
43DAP/reference	1.00957	1
47DAP/reference	0.91306	0.06
52DAP/reference	0.86835	0.115
57DAP/reference	0.87911	0.059

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94647	0.56
27DAP/17DAP	1.01986	1
39DAP/27DAP	1.03349	1
41DAP/39DAP	0.89495	0.586
42DAP/41DAP	1.28217	0.009
43DAP/42DAP	1.10349	0.094
47DAP/43DAP	0.99416	0.985
52DAP/47DAP	0.97861	0.905
57DAP/52DAP	1.03537	0.941
57DAP/7DAP	1.213	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88799	0.246
17DAP/reference	0.84844	0.124
27DAP/reference	0.88754	0.117
39DAP/reference	0.86654	0.17
41DAP/reference	1.09927	0.215
42DAP/reference	1.00497	0.675
43DAP/reference	0.94629	0.421
47DAP/reference	0.92488	0.293
52DAP/reference	1.10318	0.491
57DAP/reference	0.85986	0.093

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99254	0.77
17DAP/reference	0.87812	0.139
27DAP/reference	0.94761	0.352
39DAP/reference	0.93628	0.257
41DAP/reference	0.85467	0.042
42DAP/reference	0.81482	0.016
43DAP/reference	1.19525	0.343
47DAP/reference	0.95038	0.133
52DAP/reference	0.8886	0.143
57DAP/reference	1.11417	0.449

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92928	0.335
17DAP/reference	1.00958	0.855
27DAP/reference	1.04389	0.871
39DAP/reference	1.12118	0.13
41DAP/reference	0.88736	0.209
42DAP/reference	0.88785	0.22
43DAP/reference	0.95664	0.468
47DAP/reference	0.97111	0.478
52DAP/reference	0.82696	0.073
57DAP/reference	0.82854	0.086

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20392	0.966
26DAP/20DAP	1.24144	0.53
34DAP/26DAP	0.95063	0.857
51DAP/34DAP	1.36603	0.164
52DAP/51DAP	0.83215	0.151
53DAP/52DAP	1.1771	0.47
55DAP/53DAP	0.89431	0.478
57DAP/55DAP	0.95475	0.76
62DAP/57DAP	0.84246	0.28
68DAP/62DAP	1.22727	0.813
68DAP/14DAP	0.89567	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03993	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	4.28901
Mature Green Tomato/Ripe Tomato	0.81936	0.182
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.12968

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	0.93766
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	1.12903
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	1.07976

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.91277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.56164	0.71
IL1-4/WTpooled	1.34759
WT/WTpooled	0.60396

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	1.01386	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08614	0.921
DC3000/delta hrp 6h	1.07855	1
DC3000/delta hrp 12h	0.86011	1
DC3000/delta hrp 24h	0.96759	0.851

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.90634	0.882
DC3000 delta B/DC3000 delta AB	1.12373	0.403

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	0.94852	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94598	1
Var 0h	0.93316	0.933
Var 12h I row2-row1	0.99466	1
Var 12h NI row2-row1	1.13111	0.266
Var 36h I row2-row1	0.88686	1
Var 36h NI row2-row1	0.91829	0.478
Var 60h I row2-row1	0.86007	0.292
Var 60h NI row2-row1	0.93897	1
Time course 0hI-0hNI	0.99342	1
Time course 12hI-12hNI	1.10995	0.067
Time course 36hI-36hNI	1.05229	0.975
Time course 60hI-60hNI	0.82865	0.161

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)	1.13416	0.305
transgenic ySAMdc/azygous control (breaker)	1.20276	0.178
transgenic ySAMdc/azygous control (red)	1.06007	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99041	0.631

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06864	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.52188	1
Manapal/WT (break)	0.86971	1
Manapal/WT (red)	0.98344	0.863