Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.1.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03334	0.904
27DAP/17DAP	1.02505	1
39DAP/27DAP	0.91017	0.537
41DAP/39DAP	1.19015	0.357
42DAP/41DAP	0.98099	1
43DAP/42DAP	0.90911	0.694
47DAP/43DAP	0.98914	0.895
52DAP/47DAP	1.09086	0.828
57DAP/52DAP	1.07536	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11171	1
17DAP/reference	0.96511	0.701
27DAP/reference	1.23373	0.569
39DAP/reference	0.89725	0.513
41DAP/reference	1.06238	0.855
42DAP/reference	0.96055	0.01
43DAP/reference	1.0974	0.838
47DAP/reference	0.8802	0.161
52DAP/reference	1.02742	0.791
57DAP/reference	1.09281	0.805

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95068	0.47
27DAP/17DAP	1.01653	0.954
39DAP/27DAP	0.91829	0.507
41DAP/39DAP	1.05284	0.719
42DAP/41DAP	0.94617	0.591
43DAP/42DAP	0.98345	0.854
47DAP/43DAP	1.00828	0.948
52DAP/47DAP	1.00946	0.979
57DAP/52DAP	0.92532	0.519
57DAP/7DAP	0.9972	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97552	0.495
17DAP/reference	0.93114	0.064
27DAP/reference	0.93594	0.109
39DAP/reference	0.93514	0.02
41DAP/reference	0.85823	0.013
42DAP/reference	0.92327	0.046
43DAP/reference	0.87197	0.046
47DAP/reference	1.05804	0.791
52DAP/reference	0.80766	0.012
57DAP/reference	0.86318	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.23078
17DAP/reference	0.83485	0.279
27DAP/reference	1.33931	0.373
39DAP/reference	0.80286	0.322
41DAP/reference	1.25573	0.459
42DAP/reference	1.01877	0.723
43DAP/reference	1.01701	1
47DAP/reference	1.09266	1
52DAP/reference	1.22554	0.988
57DAP/reference	1.40862

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11405	0.456
17DAP/reference	1.23067	0.72
27DAP/reference	0.97461	0.184
39DAP/reference	1.04876	0.836
41DAP/reference	0.95122	0.371
42DAP/reference	1.23143	0.54
43DAP/reference	0.97825	0.468
47DAP/reference	0.9705	0.538
52DAP/reference	1.03154	0.928
57DAP/reference	0.99349	0.73

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	N/A	N/A
26DAP/20DAP	0.94485	1
34DAP/26DAP	1.09327	1
51DAP/34DAP	1.02722	0.962
52DAP/51DAP	1.26457	0.056
53DAP/52DAP	0.9682	0.723
55DAP/53DAP	1.04792	0.741
57DAP/55DAP	0.7834	0.178
62DAP/57DAP	1.54315	0.35
68DAP/62DAP	0.75669	0.032
68DAP/14DAP	2.82278	0.2

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85713	0.083

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.04744	1
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.57422
Mature Eggplant/Ripe Tomato	0.28515

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.08676	0.877
1-1-2/M82	0.98001	1
12-2/M82	1.11564	1
12-4/M82	1.04776	1
1-3/M82	0.9628	1
2-1-1/M82	1.04154	1
2-1/M82	N/A	N/A
2-6/M82	1.01667	1
3-2/M82	0.88064	1
4-1-1/M82	0.95736	1
4-1/M82	0.82429	1
4-3-2/M82	0.97209	1
4-3/M82	0.97979	1
5-3/M82	1.03655	1
6-2/M82	1.03061
6-3/M82	0.98687	1
7-1/M82	1.20103
7-2/M82	0.95727	0.881
9-3-2/M82	0.85865	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.05578	0.365
IL2-6/WTpooled	1.0173	1
IL7-5/WTpooled	0.93754	1
IL7-3/WTpooled	1.11395	0.362
IL12-4/WTpooled	0.77075	0.581
IL1-4/WTpooled	1.05007	1
WT/WTpooled	0.81141	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	1.06326	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0062	1
DC3000/delta hrp 6h	1.53829
DC3000/delta hrp 12h	1.23112
DC3000/delta hrp 24h	1.10484	0.296

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.10642	0.355
DC3000 delta B/DC3000 delta AB	1.06058	0.484

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.25	0.254
Exp 36h	1.68232	0.409
Exp 60h	0.90568	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.93962	1
Var 0h	1.13294	0.782
Var 12h I row2-row1	1.00662	1
Var 12h NI row2-row1	0.97745	0.906
Var 36h I row2-row1	1.0921	1
Var 36h NI row2-row1	1.30307	1
Var 60h I row2-row1	1.02797	0.562
Var 60h NI row2-row1	1.09616	0.904
Time course 0hI-0hNI	1.02082	0.852
Time course 12hI-12hNI	0.94961	0.562
Time course 36hI-36hNI	0.87912	0.108
Time course 60hI-60hNI	1.0113	1

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)	1.23834	0.278
transgenic ySAMdc/azygous control (breaker)	1.01552	1
transgenic ySAMdc/azygous control (red)	1.13192	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.22599	0.125

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.79409	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.06195	1
Manapal/WT (break)	1.01082	1
Manapal/WT (red)	0.85841	0.503