Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.14.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.32558	0.63
27DAP/17DAP	1.19153	0.859
39DAP/27DAP	1.3221	0.391
41DAP/39DAP	1.0275	0.905
42DAP/41DAP	1.14675	0.938
43DAP/42DAP	1.05629	1
47DAP/43DAP	0.82921	0.487
52DAP/47DAP	0.98066	0.873
57DAP/52DAP	1.06601	0.987

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96104	0.442
17DAP/reference	0.80935	0.019
27DAP/reference	0.95031	0.484
39DAP/reference	0.91644	0.315
41DAP/reference	0.8961	0.065
42DAP/reference	1.07971	0.113
43DAP/reference	0.92974	0.36
47DAP/reference	1.06798	1
52DAP/reference	1.15788	0.092
57DAP/reference	0.98148	0.553

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14883	0.642
27DAP/17DAP	1.1362	0.403
39DAP/27DAP	1.01545	1
41DAP/39DAP	0.93059	0.63
42DAP/41DAP	1.07017	0.8
43DAP/42DAP	1.03831	0.413
47DAP/43DAP	1.05143	0.749
52DAP/47DAP	1.11072	0.703
57DAP/52DAP	1.17729	0.523
57DAP/7DAP	1.14014	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87555	0.086
17DAP/reference	0.95508	0.124
27DAP/reference	0.98542	0.462
39DAP/reference	0.96087	0.025
41DAP/reference	0.88222	0.027
42DAP/reference	0.95171	0.211
43DAP/reference	0.94317	0.159
47DAP/reference	0.90004	0.293
52DAP/reference	0.89329	0.126
57DAP/reference	0.91555	0.144

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91366	0.374
17DAP/reference	0.91359	0.245
27DAP/reference	0.97837	0.537
39DAP/reference	0.84196	0.064
41DAP/reference	0.85399	0.085
42DAP/reference	0.90985	0.135
43DAP/reference	1.05381	0.863
47DAP/reference	0.9099	0.081
52DAP/reference	0.81504	0.009
57DAP/reference	0.85868	0.079

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91362	0.032
17DAP/reference	0.89322	0.144
27DAP/reference	0.9198	0.081
39DAP/reference	0.92317	0.022
41DAP/reference	0.95927	0.209
42DAP/reference	1.09585	0.391
43DAP/reference	1.05227	0.58
47DAP/reference	1.03243	0.704
52DAP/reference	1.05166	0.639
57DAP/reference	1.09984	0.614

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.40043	0.966
26DAP/20DAP	0.98789	1
34DAP/26DAP	0.9921	1
51DAP/34DAP	1.00544	1
52DAP/51DAP	1.05162	0.626
53DAP/52DAP	0.93405	0.75
55DAP/53DAP	1.17576	0.295
57DAP/55DAP	1.02178	0.96
62DAP/57DAP	1.07979	0.868
68DAP/62DAP	1.09649	0.984
68DAP/14DAP	0.79052	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98485	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.49193	0.058
Mature Green Tomato/Ripe Tomato	1.43291	0.02
Immature Eggplant/Mature Eggplant	1.19842	0.07
Ripe Pepper/Ripe Tomato	0.47559	0.224
Mature Eggplant/Ripe Tomato	0.53371

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.99414
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.75697	0.243
IL2-6/WTpooled	1.23848	0.788
IL7-5/WTpooled	1.41789	0.792
IL7-3/WTpooled	0.73994	0.31
IL12-4/WTpooled	0.88876	0.71
IL1-4/WTpooled	1.11368	1
WT/WTpooled	0.97085	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	1.09926	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92804	1
DC3000/delta hrp 6h	0.99979	0.95
DC3000/delta hrp 12h	1.25688	1
DC3000/delta hrp 24h	2.66746	0.027

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14696	0.081
DC3000 delta B/DC3000 delta AB	1.22001	0.179

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98538	1
Exp 36h	1.14759	0.693
Exp 60h	1.07012	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04627	1
Var 0h	1.29261	0.782
Var 12h I row2-row1	1.09308	0.654
Var 12h NI row2-row1	0.88897	0.494
Var 36h I row2-row1	0.9899	1
Var 36h NI row2-row1	0.86447	0.645
Var 60h I row2-row1	1.09939	0.562
Var 60h NI row2-row1	1.02653	1
Time course 0hI-0hNI	1.02724	0.833
Time course 12hI-12hNI	1.02116	0.747
Time course 36hI-36hNI	1.14342	0.056
Time course 60hI-60hNI	1.11198	0.115

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)	0.91428	0.314
transgenic ySAMdc/azygous control (breaker)	1.00286	1
transgenic ySAMdc/azygous control (red)	0.9525	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00573	0.958

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.51757	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94974	1
Manapal/WT (break)	0.91556	1
Manapal/WT (red)	1.27683	1