Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.15.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.39662	0.026
27DAP/17DAP	2.03313	0.263
39DAP/27DAP	0.92853	0.62
41DAP/39DAP	1.1245	0.844
42DAP/41DAP	0.69602	0.397
43DAP/42DAP	0.851	0.786
47DAP/43DAP	1.29861	0.455
52DAP/47DAP	2.26698	0.112
57DAP/52DAP	0.77798	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96953	0.465
17DAP/reference	1.02786	0.675
27DAP/reference	1.04347	0.498
39DAP/reference	1.0387	0.386
41DAP/reference	1.03249	0.759
42DAP/reference	0.9517	0.107
43DAP/reference	0.91061	0.191
47DAP/reference	0.9546	0.046
52DAP/reference	0.93123	0.237
57DAP/reference	0.81834	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.66394	0.08
27DAP/17DAP	0.80669	0.169
39DAP/27DAP	1.32915	0.615
41DAP/39DAP	1.37921	0.103
42DAP/41DAP	0.96371	0.704
43DAP/42DAP	1.79668	0.032
47DAP/43DAP	1.08208	0.779
52DAP/47DAP	1.41139	0.367
57DAP/52DAP	2.10338	0.068
57DAP/7DAP	1.45352	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87111	0.122
17DAP/reference	0.75968	0.012
27DAP/reference	0.83403	0.042
39DAP/reference	0.75944	0.013
41DAP/reference	0.76255	0.076
42DAP/reference	0.87742	0.1
43DAP/reference	0.81114	0.012
47DAP/reference	0.87061	0.222
52DAP/reference	0.75529	0.017
57DAP/reference	0.88116	0.056

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10347	0.098
17DAP/reference	1.0176	1
27DAP/reference	0.89628	0.16
39DAP/reference	0.93322	0.289
41DAP/reference	0.93585	0.242
42DAP/reference	0.92707	0.289
43DAP/reference	1.06039	0.704
47DAP/reference	0.99247	0.678
52DAP/reference	0.96266	0.28
57DAP/reference	1.07801	0.177

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80009	0.071
17DAP/reference	0.93851	0.462
27DAP/reference	0.76042	0.038
39DAP/reference	0.77366	0.019
41DAP/reference	0.80718	0.019
42DAP/reference	0.80204	0.059
43DAP/reference	0.78213	0.023
47DAP/reference	1.01417	1
52DAP/reference	0.87012	0.242
57DAP/reference	0.71939	0.039

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9595	1
26DAP/20DAP	1.04755	0.896
34DAP/26DAP	0.87664	0.682
51DAP/34DAP	2.01534	0.038
52DAP/51DAP	1.57728	0.054
53DAP/52DAP	0.71104	0.117
55DAP/53DAP	0.96556	0.761
57DAP/55DAP	1.1215	0.666
62DAP/57DAP	1.06638	0.902
68DAP/62DAP	0.90505	0.579
68DAP/14DAP	1.41828	0.17

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.45273	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.53042	0.105
Mature Green Tomato/Ripe Tomato	0.16687	0.014
Immature Eggplant/Mature Eggplant	1.15388	0.321
Ripe Pepper/Ripe Tomato	1.33452	1
Mature Eggplant/Ripe Tomato	0.42585	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07385	0.742
1-1-2/M82	0.97631	1
12-2/M82	1.91745	0.519
12-4/M82	0.78114	0.175
1-3/M82	0.84088
2-1-1/M82	0.86643	0.465
2-1/M82	0.763
2-6/M82	1.28074	0.695
3-2/M82	0.95334
4-1-1/M82	1.31571	1
4-1/M82	1.30554
4-3-2/M82	0.86296	0.698
4-3/M82	1.09152	1
5-3/M82	0.78063	0.642
6-2/M82	1.06295
6-3/M82	0.87599	1
7-1/M82	0.481
7-2/M82	1.00768	1
9-3-2/M82	1.24921	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.25058
IL2-6/WTpooled	0.94287	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.95242	0.418
IL12-4/WTpooled	0.93677	0.71
IL1-4/WTpooled	0.797	0.415
WT/WTpooled	0.95647	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	1.29677	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06902	0.921
DC3000/delta hrp 6h	1.07825	1
DC3000/delta hrp 12h	1.10211	1
DC3000/delta hrp 24h	0.94318	0.654

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.52202	0.042
DC3000 delta B/DC3000 delta AB	1.82806	0.101

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0621	1
Exp 36h	1.60709	0.371
Exp 60h	1.46357	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96742	1
Var 0h	1.25341	0.421
Var 12h I row2-row1	1.48638	0.272
Var 12h NI row2-row1	0.92054	0.82
Var 36h I row2-row1	1.01841	1
Var 36h NI row2-row1	1.25705	1
Var 60h I row2-row1	0.75745	0.285
Var 60h NI row2-row1	0.79146	0.306
Time course 0hI-0hNI	1.0764	0.852
Time course 12hI-12hNI	1.62721	0.275
Time course 36hI-36hNI	3.20745	0.004
Time course 60hI-60hNI	6.40919	0.008

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)	1.05823	0.921
transgenic ySAMdc/azygous control (breaker)	0.57766	0.131
transgenic ySAMdc/azygous control (red)	1.22293	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00327	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05837	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88833	1
Manapal/WT (break)	0.86866	1
Manapal/WT (red)	0.44683	0.181