Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.19.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99882	0.919
27DAP/17DAP	0.8758	0.751
39DAP/27DAP	1.05942	0.652
41DAP/39DAP	0.90822	0.591
42DAP/41DAP	0.89358	1
43DAP/42DAP	0.76782	0.744
47DAP/43DAP	1.0872	0.776
52DAP/47DAP	1.03035	0.859
57DAP/52DAP	0.80034	0.796

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21314	0.366
17DAP/reference	1.38318	0.342
27DAP/reference	1.25772	0.252
39DAP/reference	1.12158	0.368
41DAP/reference	1.52027	0.171
42DAP/reference	1.04705	0.812
43DAP/reference	1.14585	0.287
47DAP/reference	1.09671	0.524
52DAP/reference	1.17358	0.576
57DAP/reference	1.11477	0.447

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08113	0.547
27DAP/17DAP	0.95243	0.648
39DAP/27DAP	0.90089	0.3
41DAP/39DAP	1.03417	0.801
42DAP/41DAP	0.97444	0.772
43DAP/42DAP	0.95275	0.399
47DAP/43DAP	0.98713	0.939
52DAP/47DAP	1.03168	0.868
57DAP/52DAP	0.97773	0.68
57DAP/7DAP	0.84103	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76236	0.066
17DAP/reference	0.82272	0.108
27DAP/reference	0.92205	0.135
39DAP/reference	1.15439	0.015
41DAP/reference	0.82928	0.166
42DAP/reference	0.87486	0.178
43DAP/reference	1.01797	0.746
47DAP/reference	1.33498	0.7
52DAP/reference	0.96061	0.398
57DAP/reference	1.12626	0.108

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95759	0.688
17DAP/reference	1.11878	0.979
27DAP/reference	1.08713	0.471
39DAP/reference	0.96572	0.455
41DAP/reference	1.28298	0.088
42DAP/reference	1.04284	0.759
43DAP/reference	1.20237	0.777
47DAP/reference	1.36475	0.108
52DAP/reference	1.08708	0.528
57DAP/reference	1.36202	0.161

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71097	0.039
17DAP/reference	0.79435	0.275
27DAP/reference	0.82369	0.048
39DAP/reference	1.01349	0.962
41DAP/reference	1.01048	1
42DAP/reference	1.03215	0.848
43DAP/reference	0.89737	0.305
47DAP/reference	1.04198	1
52DAP/reference	1.56727	0.324
57DAP/reference	0.67301	0.073

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00611	1
26DAP/20DAP	0.94567	0.512
34DAP/26DAP	1.07274	0.542
51DAP/34DAP	0.89915	0.436
52DAP/51DAP	1.07938	0.454
53DAP/52DAP	0.95833	0.811
55DAP/53DAP	1.04507	0.696
57DAP/55DAP	0.82195	0.313
62DAP/57DAP	0.72416	0.681
68DAP/62DAP	0.88146	0.722
68DAP/14DAP	1.0572	0.676

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.02222	0.855

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.6323	0.016
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.32633
Mature Eggplant/Ripe Tomato	0.66647	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.28603	0.877
1-1-2/M82	1.05247	1
12-2/M82	0.99237	1
12-4/M82	0.9902	1
1-3/M82	1.28957	0.26
2-1-1/M82	0.94925	1
2-1/M82	0.78426	0.519
2-6/M82	1.21248	0.452
3-2/M82	1.61622
4-1-1/M82	0.78597	0.926
4-1/M82	1.01395	1
4-3-2/M82	1.16557	1
4-3/M82	1.06313	1
5-3/M82	1.00584	1
6-2/M82	1.9208
6-3/M82	0.90946	1
7-1/M82	0.84843	0.803
7-2/M82	0.98125	1
9-3-2/M82	1.25873	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.8712	1
IL2-6/WTpooled	1.18948	0.584
IL7-5/WTpooled	1.39978	0.792
IL7-3/WTpooled	0.94104	0.294
IL12-4/WTpooled	0.94339	1
IL1-4/WTpooled	0.92456	0.834
WT/WTpooled	0.95157	0.873

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	0.94484	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01284	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.25475	0.165

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.6001	0.023
DC3000 delta B/DC3000 delta AB	0.54703	0.02

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97661	1
Var 0h	1.23381	0.98
Var 12h I row2-row1	0.70629	0.338
Var 12h NI row2-row1	0.94673	0.627
Var 36h I row2-row1	0.82695	1
Var 36h NI row2-row1	1.14575	1
Var 60h I row2-row1	1.06488	0.562
Var 60h NI row2-row1	0.99176	1
Time course 0hI-0hNI	0.99464	1
Time course 12hI-12hNI	0.97536	0.802
Time course 36hI-36hNI	0.95954	0.366
Time course 60hI-60hNI	0.35128	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.21524	1
transgenic ySAMdc/azygous control (red)	0.98582	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.19497	0.055

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.01257	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.87759	0.242