Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.20.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98277	0.779
27DAP/17DAP	1.09478	0.859
39DAP/27DAP	1.01557	0.899
41DAP/39DAP	1.3669	0.398
42DAP/41DAP	0.83793	0.774
43DAP/42DAP	0.83271	0.713
47DAP/43DAP	0.82946	0.455
52DAP/47DAP	1.07089	0.997
57DAP/52DAP	0.84707	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10666	1
17DAP/reference	0.91354	0.342
27DAP/reference	0.97583	0.654
39DAP/reference	0.91295	0.554
41DAP/reference	0.97507	0.814
42DAP/reference	1.13912	0.151
43DAP/reference	0.81386
47DAP/reference	1.05467	0.794
52DAP/reference	1.36224	0.766
57DAP/reference	0.60051

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11018	0.975
27DAP/17DAP	1.18944	0.344
39DAP/27DAP	0.90078	0.338
41DAP/39DAP	1.0274	1
42DAP/41DAP	1.07849	0.824
43DAP/42DAP	0.74417	0.045
47DAP/43DAP	0.97117	0.857
52DAP/47DAP	1.844	0.056
57DAP/52DAP	1.52295	0.069
57DAP/7DAP	0.84633	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95056	0.296
17DAP/reference	0.76353	0.011
27DAP/reference	0.74163	0.01
39DAP/reference	0.8782	0.013
41DAP/reference	0.95559	0.184
42DAP/reference	0.82139	0.033
43DAP/reference	0.91241	0.076
47DAP/reference	1.02794	0.854
52DAP/reference	1.0585	0.684
57DAP/reference	1.00558	0.694

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99002	0.811
17DAP/reference	0.94154	0.367
27DAP/reference	0.89895	0.203
39DAP/reference	1.12055	0.602
41DAP/reference	0.89906	0.173
42DAP/reference	0.92177	0.121
43DAP/reference	0.94394	0.507
47DAP/reference	0.91607	0.164
52DAP/reference	1.0778	0.279
57DAP/reference	1.0663	0.626

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80185	0.026
17DAP/reference	0.86278	0.262
27DAP/reference	0.82945	0.06
39DAP/reference	0.78721	0.022
41DAP/reference	0.82225	0.046
42DAP/reference	0.66307	0.015
43DAP/reference	0.86354	0.071
47DAP/reference	0.92401	0.174
52DAP/reference	0.74943	0.125
57DAP/reference	0.95632	0.572

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97229	1
26DAP/20DAP	1.32434	0.635
34DAP/26DAP	1.20507	1
51DAP/34DAP	1.24075	0.909
52DAP/51DAP	1.21459	0.492
53DAP/52DAP	1.58282	0.064
55DAP/53DAP	1.05866	0.898
57DAP/55DAP	0.73698	0.3
62DAP/57DAP	0.88277	0.466
68DAP/62DAP	3.14264	0.237
68DAP/14DAP	1.72662	0.026

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.46189	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.71906	0.199
Mature Green Tomato/Ripe Tomato	1.56882	0.048
Immature Eggplant/Mature Eggplant	0.81229	0.072
Ripe Pepper/Ripe Tomato	1.80416	0.256
Mature Eggplant/Ripe Tomato	2.10369	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.862	0.651
1-1-2/M82	0.82618	0.958
12-2/M82	1.05461	0.61
12-4/M82	0.91992	1
1-3/M82	0.86168	0.441
2-1-1/M82	0.92524	0.784
2-1/M82	1.07429	1
2-6/M82	0.90341	1
3-2/M82	1.15519
4-1-1/M82	0.87982	1
4-1/M82	0.84705	0.867
4-3-2/M82	0.84829	0.487
4-3/M82	0.75782	0.578
5-3/M82	1.047	1
6-2/M82	1.09297	1
6-3/M82	0.99894	1
7-1/M82	1.11349	0.598
7-2/M82	0.91099	0.796
9-3-2/M82	0.87296	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.02997	0.493
IL2-6/WTpooled	1.08043	0.46
IL7-5/WTpooled	1.1971	1
IL7-3/WTpooled	0.86763	0.31
IL12-4/WTpooled	1.1014	0.532
IL1-4/WTpooled	1.05117	1
WT/WTpooled	1.07893	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	1.04552	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92156	0.868
DC3000/delta hrp 6h	0.8602	0.95
DC3000/delta hrp 12h	0.95271	1
DC3000/delta hrp 24h	1.17546	0.054

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.27203	0.313
DC3000 delta B/DC3000 delta AB	1.27329	0.226

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96011	1
Exp 36h	1.13415	1
Exp 60h	1.11923	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96891	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.85615	0.39
Var 12h NI row2-row1	0.96816	0.82
Var 36h I row2-row1	1.36845	0.908
Var 36h NI row2-row1	1.13406	1
Var 60h I row2-row1	0.65859	0.287
Var 60h NI row2-row1	1.06978	0.904
Time course 0hI-0hNI	0.97221	0.873
Time course 12hI-12hNI	0.92304	0.338
Time course 36hI-36hNI	0.80418	0.039
Time course 60hI-60hNI	1.05661	0.359

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)	1.0259	0.654
transgenic ySAMdc/azygous control (breaker)	0.69048	0.173
transgenic ySAMdc/azygous control (red)	0.96854	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0509	0.163

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.96459	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84921	1
Manapal/WT (break)	1.03793	1
Manapal/WT (red)	0.95901	0.607