Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.1.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.6583	0.162
27DAP/17DAP	1.26796	0.829
39DAP/27DAP	0.80473	0.512
41DAP/39DAP	0.97802	0.909
42DAP/41DAP	1.26583	0.832
43DAP/42DAP	1.1492	0.91
47DAP/43DAP	1.21473	0.715
52DAP/47DAP	0.91435	0.742
57DAP/52DAP	0.75925	0.754

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87096	0.111
17DAP/reference	1.03271	0.546
27DAP/reference	1.04533	0.599
39DAP/reference	0.87095	0.064
41DAP/reference	0.83917	0.014
42DAP/reference	0.99551	0.517
43DAP/reference	0.98061	0.691
47DAP/reference	1.04659	0.558
52DAP/reference	0.9973	0.654
57DAP/reference	0.96469	0.415

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.63486	0.455
27DAP/17DAP	0.91704	0.854
39DAP/27DAP	0.74296	0.279
41DAP/39DAP	1.10612	0.79
42DAP/41DAP	0.85841	0.303
43DAP/42DAP	1.11804	0.478
47DAP/43DAP	1.13758	0.713
52DAP/47DAP	0.88556	0.671
57DAP/52DAP	1.35732	0.451
57DAP/7DAP	3.17711

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89084	0.078
17DAP/reference	1.0142	0.971
27DAP/reference	0.91225	0.135
39DAP/reference	0.97471	0.474
41DAP/reference	0.91828	0.133
42DAP/reference	0.92723	0.178
43DAP/reference	0.8091	0.031
47DAP/reference	1.01062	1
52DAP/reference	0.82109	0.053
57DAP/reference	1.19499	0.41

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90041	0.329
17DAP/reference	0.84508	0.049
27DAP/reference	0.95001	0.257
39DAP/reference	1.02429	1
41DAP/reference	1.01225	1
42DAP/reference	0.96854	0.392
43DAP/reference	0.96083	0.539
47DAP/reference	0.8785	0.026
52DAP/reference	0.95329	0.259
57DAP/reference	1.00388	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93812	0.335
17DAP/reference	1.09254	0.398
27DAP/reference	1.16722	0.727
39DAP/reference	0.8427	0.076
41DAP/reference	1.03205	1
42DAP/reference	1.02524	0.979
43DAP/reference	1.06965	0.555
47DAP/reference	0.98141	0.558
52DAP/reference	1.02696	0.928
57DAP/reference	1.11485	0.268

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.59682	0.966
26DAP/20DAP	1.47657	0.162
34DAP/26DAP	1.5532	0.819
51DAP/34DAP	1.09669	0.869
52DAP/51DAP	1.70973	0.454
53DAP/52DAP	1.07212	0.91
55DAP/53DAP	0.83108	0.417
57DAP/55DAP	0.7726	0.135
62DAP/57DAP	1.11668	0.833
68DAP/62DAP	2.70334	0.383
68DAP/14DAP	1.34238	0.279

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.78062	0.239

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.79648	0.274
Mature Green Tomato/Ripe Tomato	1.05103	0.898
Immature Eggplant/Mature Eggplant	0.86547	0.366
Ripe Pepper/Ripe Tomato	0.97094	1
Mature Eggplant/Ripe Tomato	1.04608

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.0127
12-2/M82	N/A	N/A
12-4/M82	1.0699
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	0.79743
6-2/M82	N/A	N/A
6-3/M82	0.86688
7-1/M82	N/A	N/A
7-2/M82	0.93794
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.88138	1
IL2-6/WTpooled	0.99552	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.82108	1
IL12-4/WTpooled	0.95196
IL1-4/WTpooled	1.22654	1
WT/WTpooled	1.15372	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	0.74874	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05103	0.692
DC3000/delta hrp 6h	0.97715	0.95
DC3000/delta hrp 12h	1.05939
DC3000/delta hrp 24h	0.95659	0.736

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	0.94088	1
Exp 36h	1.22922	0.489
Exp 60h	1.10038	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.92622	1
Var 0h	1.45438	0.98
Var 12h I row2-row1	0.88983	0.418
Var 12h NI row2-row1	1.13864	0.649
Var 36h I row2-row1	1.04057	0.742
Var 36h NI row2-row1	1.51407	1
Var 60h I row2-row1	0.8471	0.374
Var 60h NI row2-row1	1.0888	0.904
Time course 0hI-0hNI	2.23231	0.852
Time course 12hI-12hNI	0.95185	0.551
Time course 36hI-36hNI	0.87515	0.198
Time course 60hI-60hNI	0.45902	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)	0.92345	0.428
transgenic ySAMdc/azygous control (breaker)	0.99027	1
transgenic ySAMdc/azygous control (red)	1.00023	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02042	0.525

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9296	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.21562	0.105
Manapal/WT (break)	1.21743	1
Manapal/WT (red)	1.1607	0.137