Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.9.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.39626	0.812
27DAP/17DAP	1.14252	0.854
39DAP/27DAP	0.90954	0.641
41DAP/39DAP	0.73698	0.195
42DAP/41DAP	1.24879	0.614
43DAP/42DAP	0.97856	0.925
47DAP/43DAP	1.29693	0.394
52DAP/47DAP	1.26158	0.794
57DAP/52DAP	0.88488	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96504	0.526
17DAP/reference	1.26386	0.138
27DAP/reference	1.07895	0.487
39DAP/reference	1.10588	0.771
41DAP/reference	1.13231	0.552
42DAP/reference	0.8252	0.054
43DAP/reference	0.97075	0.691
47DAP/reference	0.92285	0.161
52DAP/reference	0.79129	0.093
57DAP/reference	1.00768	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15451	0.252
27DAP/17DAP	1.05123	0.909
39DAP/27DAP	0.84371	0.123
41DAP/39DAP	1.0544	0.896
42DAP/41DAP	0.96881	0.712
43DAP/42DAP	0.91307	0.482
47DAP/43DAP	0.94393	0.554
52DAP/47DAP	0.99996	0.941
57DAP/52DAP	0.9734	0.685
57DAP/7DAP	1.21135	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.46902	0.041
17DAP/reference	1.54905	0.006
27DAP/reference	1.44323	0.01
39DAP/reference	2.05633	0.006
41DAP/reference	1.55747	0.012
42DAP/reference	1.56432	0.132
43DAP/reference	1.95643	0.006
47DAP/reference	1.59707	0.67
52DAP/reference	1.95047	0.007
57DAP/reference	1.86861	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15142	0.284
17DAP/reference	1.09344	0.874
27DAP/reference	0.88301	0.195
39DAP/reference	0.82488	0.085
41DAP/reference	0.89138	0.205
42DAP/reference	1.16054	1
43DAP/reference	0.97455	0.516
47DAP/reference	0.89189	0.061
52DAP/reference	1.14978	0.322
57DAP/reference	1.01366	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92371	0.197
17DAP/reference	1.02513	0.966
27DAP/reference	1.16767	0.408
39DAP/reference	1.30038	0.1
41DAP/reference	1.36177	0.013
42DAP/reference	1.3039	0.209
43DAP/reference	1.16613	0.755
47DAP/reference	0.88136	0.278
52DAP/reference	1.05653	0.904
57DAP/reference	0.83748	0.191

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.8315	0.151
26DAP/20DAP	0.92653	1
34DAP/26DAP	0.9317	0.741
51DAP/34DAP	0.89701	0.466
52DAP/51DAP	0.98531	1
53DAP/52DAP	0.8713	0.505
55DAP/53DAP	1.12704	0.608
57DAP/55DAP	0.92115	0.715
62DAP/57DAP	1.25278	0.35
68DAP/62DAP	0.99557	0.834
68DAP/14DAP	0.87419	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97636	0.576

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.18608	0.036
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	4.85992
Mature Eggplant/Ripe Tomato	0.47635

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.56273
1-1-2/M82	1.22478
12-2/M82	N/A	N/A
12-4/M82	0.80623	1
1-3/M82	0.9557
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.96495
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.15799
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.91183	1
6-2/M82	N/A	N/A
6-3/M82	1.01972
7-1/M82	0.77755
7-2/M82	0.96547
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.06441	0.365
IL2-6/WTpooled	0.95074	1
IL7-5/WTpooled	0.78786	1
IL7-3/WTpooled	1.23477	1
IL12-4/WTpooled	1.09516	0.839
IL1-4/WTpooled	1.01781	1
WT/WTpooled	1.02768	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	0.7925	0.341

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.856	1
DC3000/delta hrp 6h	0.74492	0.95
DC3000/delta hrp 12h	1.76083	1
DC3000/delta hrp 24h	0.70592	0.085

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.1859
DC3000 delta B/DC3000 delta AB	0.90742	0.418

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	0.62661	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05498	1
Var 0h	1.05087	1
Var 12h I row2-row1	0.96669	0.856
Var 12h NI row2-row1	0.91466	0.546
Var 36h I row2-row1	1.13874	1
Var 36h NI row2-row1	1.14777	1
Var 60h I row2-row1	1.20091	0.487
Var 60h NI row2-row1	1.11313	0.904
Time course 0hI-0hNI	0.95961	0.812
Time course 12hI-12hNI	0.94984	0.53
Time course 36hI-36hNI	0.80109	0.023
Time course 60hI-60hNI	0.38457	0.006

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)	0.90023	0.362
transgenic ySAMdc/azygous control (breaker)	1.10187	0.248
transgenic ySAMdc/azygous control (red)	1.12611	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94816	0.122

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.48647	0.228

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.2451	0.096
Manapal/WT (break)	1.67961	0.13
Manapal/WT (red)	2.38868	0.142