Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.1.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79574	0.162
27DAP/17DAP	0.86178	0.674
39DAP/27DAP	0.99728	0.67
41DAP/39DAP	0.83028	0.394
42DAP/41DAP	0.87537	1
43DAP/42DAP	1.27268	0.595
47DAP/43DAP	1.18769	0.369
52DAP/47DAP	0.83365	0.564
57DAP/52DAP	1.04504	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98008	0.589
17DAP/reference	0.94301	0.419
27DAP/reference	1.01948	0.934
39DAP/reference	1.10737	0.326
41DAP/reference	1.06937	0.855
42DAP/reference	1.12401	0.219
43DAP/reference	1.0454	0.36
47DAP/reference	1.10384	0.069
52DAP/reference	1.16496	0.035
57DAP/reference	1.19173	0.043

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02419	0.847
27DAP/17DAP	1.03344	0.942
39DAP/27DAP	0.65314	0.055
41DAP/39DAP	0.99742	1
42DAP/41DAP	1.00011	0.902
43DAP/42DAP	0.97801	0.801
47DAP/43DAP	0.86941	0.41
52DAP/47DAP	1.09486	0.851
57DAP/52DAP	2.07418	0.442
57DAP/7DAP	0.70048

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.56868	0.027
17DAP/reference	1.62512	0.006
27DAP/reference	1.72154	0.008
39DAP/reference	1.61662	0.006
41DAP/reference	1.49279	0.016
42DAP/reference	1.78014	0.008
43DAP/reference	1.18525	0.083
47DAP/reference	1.27383	0.037
52DAP/reference	1.10456	0.328
57DAP/reference	1.22935	0.027

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14376	0.146
17DAP/reference	1.07563	0.628
27DAP/reference	1.46113	0.03
39DAP/reference	1.58781	0.05
41DAP/reference	1.33476	0.015
42DAP/reference	1.17665	0.091
43DAP/reference	1.12532	0.479
47DAP/reference	1.18962	0.143
52DAP/reference	1.38884	0.006
57DAP/reference	1.24921	0.387

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.54507	0.018
17DAP/reference	1.16366	0.39
27DAP/reference	1.33597	0.081
39DAP/reference	1.16483	0.203
41DAP/reference	1.23602	0.035
42DAP/reference	1.54255	0.015
43DAP/reference	1.58427	0.02
47DAP/reference	1.03392	0.994
52DAP/reference	1.76132	0.098
57DAP/reference	2.25805	0.012

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20606	0.966
26DAP/20DAP	0.8502	1
34DAP/26DAP	0.88313	0.826
51DAP/34DAP	0.76364	0.085
52DAP/51DAP	1.12233	0.638
53DAP/52DAP	1.04993	0.83
55DAP/53DAP	0.9634	0.796
57DAP/55DAP	0.77091	0.256
62DAP/57DAP	1.24129	0.622
68DAP/62DAP	1.11878	0.866
68DAP/14DAP	1.41095	0.295

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.61376	0.042

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.59744	0.058
Mature Green Tomato/Ripe Tomato	2.8074	0.018
Immature Eggplant/Mature Eggplant	0.43686	0.063
Ripe Pepper/Ripe Tomato	2.19408	0.258
Mature Eggplant/Ripe Tomato	1.86947	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.13164	1
12-2/M82	0.71422
12-4/M82	0.94693	1
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	0.99271
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.90953
7-2/M82	1.20893
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.85012	0.321
IL2-6/WTpooled	0.78364	1
IL7-5/WTpooled	0.68742	1
IL7-3/WTpooled	0.85735	0.418
IL12-4/WTpooled	0.87769	0.71
IL1-4/WTpooled	0.80047	0.457
WT/WTpooled	1.07403	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	0.78425	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99645	1
DC3000/delta hrp 6h	0.96532	0.95
DC3000/delta hrp 12h	0.92544	1
DC3000/delta hrp 24h	0.90935	0.43

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05928	1
DC3000 delta B/DC3000 delta AB	0.8395	0.162

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.11588	1
Exp 36h	1.11489	1
Exp 60h	0.73413	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03848	1
Var 0h	1.00256	1
Var 12h I row2-row1	0.88877	0.467
Var 12h NI row2-row1	1.04683	0.649
Var 36h I row2-row1	1.06106	0.908
Var 36h NI row2-row1	1.30704	0.276
Var 60h I row2-row1	1.46056	0.543
Var 60h NI row2-row1	0.96699	1
Time course 0hI-0hNI	0.98394	0.962
Time course 12hI-12hNI	0.89041	0.275
Time course 36hI-36hNI	0.80229	0.023
Time course 60hI-60hNI	0.18099	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)	0.97359	0.485
transgenic ySAMdc/azygous control (breaker)	1.6262	0.172
transgenic ySAMdc/azygous control (red)	1.08446	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96785	0.196

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.89209	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.76392	0.084
Manapal/WT (break)	1.36723	0.381
Manapal/WT (red)	2.41714	0.126