Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.1.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.12138	0.101
27DAP/17DAP	0.8447	0.587
39DAP/27DAP	0.87661	0.487
41DAP/39DAP	0.88057	0.615
42DAP/41DAP	0.82881	0.397
43DAP/42DAP	1.00582	0.93
47DAP/43DAP	1.40325	0.49
52DAP/47DAP	1.03219	0.875
57DAP/52DAP	0.95368	0.94

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9605	0.476
17DAP/reference	1.0487	0.476
27DAP/reference	0.98226	0.623
39DAP/reference	0.979	0.734
41DAP/reference	1.0123	1
42DAP/reference	0.98625	0.455
43DAP/reference	1.04893	0.569
47DAP/reference	1.00028	0.674
52DAP/reference	1.02812	0.951
57DAP/reference	1.25142	0.153

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	3.30994	0.127
27DAP/17DAP	1.03526	1
39DAP/27DAP	0.6444	0.127
41DAP/39DAP	1.52299	0.393
42DAP/41DAP	1.08775	0.976
43DAP/42DAP	0.91605	0.522
47DAP/43DAP	0.90046	0.757
52DAP/47DAP	1.43976	0.268
57DAP/52DAP	1.21056	0.533
57DAP/7DAP	1.62703

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86182	0.1
17DAP/reference	0.95049	0.295
27DAP/reference	0.96855	0.402
39DAP/reference	1.01123	1
41DAP/reference	0.98596	0.589
42DAP/reference	1.05832	0.889
43DAP/reference	1.42014	0.707
47DAP/reference	0.85368	0.168
52DAP/reference	0.90933	0.213
57DAP/reference	0.99028	0.589

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0639	0.852
17DAP/reference	0.99523	0.728
27DAP/reference	1.02051	1
39DAP/reference	0.95609	0.485
41DAP/reference	1.00279	0.735
42DAP/reference	0.90253	0.212
43DAP/reference	1.22821	0.239
47DAP/reference	0.88992	0.038
52DAP/reference	1.09336	0.259
57DAP/reference	1.06946	0.609

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97196	0.566
17DAP/reference	1.00722	1
27DAP/reference	0.95585	0.516
39DAP/reference	1.07605	0.792
41DAP/reference	0.91474	0.167
42DAP/reference	1.02963	0.635
43DAP/reference	0.94662	0.432
47DAP/reference	0.93764	0.286
52DAP/reference	1.05088	0.763
57DAP/reference	0.95168	0.438

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.17406	1
26DAP/20DAP	0.64451	0.228
34DAP/26DAP	0.76554	0.575
51DAP/34DAP	1.149	0.869
52DAP/51DAP	1.12139	0.776
53DAP/52DAP	0.79695	0.265
55DAP/53DAP	1.3439	0.504
57DAP/55DAP	0.96917	0.909
62DAP/57DAP	1.02328	1
68DAP/62DAP	1.05132	1
68DAP/14DAP	0.93588	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.1447	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	115.945	0.024
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	6.17722	0.694
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	1.04891	1
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	0.95363	1
IL2-6/WTpooled	1.27093	0.659
IL7-5/WTpooled	1.14763	1
IL7-3/WTpooled	0.87913	0.294
IL12-4/WTpooled	0.91551	0.71
IL1-4/WTpooled	0.94925	0.476
WT/WTpooled	1.00774	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	0.87017	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.83759	0.868
DC3000/delta hrp 6h	1.07052	1
DC3000/delta hrp 12h	1.18078	1
DC3000/delta hrp 24h	0.39114	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.86269
DC3000 delta B/DC3000 delta AB	0.63778	0.063

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87183	1
Exp 36h	1.00311	1
Exp 60h	0.90363	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01889	1
Var 0h	0.65921	0.933
Var 12h I row2-row1	1.18962	0.348
Var 12h NI row2-row1	1.40526	0.649
Var 36h I row2-row1	0.92825	0.805
Var 36h NI row2-row1	1.56817	0.276
Var 60h I row2-row1	1.17514
Var 60h NI row2-row1	1.36495	0.793
Time course 0hI-0hNI	0.99761	1
Time course 12hI-12hNI	0.89954	0.435
Time course 36hI-36hNI	0.74494	0.024
Time course 60hI-60hNI	0.26721	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)	0.98914	0.862
transgenic ySAMdc/azygous control (breaker)	4.09257	0.166
transgenic ySAMdc/azygous control (red)	1.16348	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00284	0.94

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.88753	0.228

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	11.481	0.083
Manapal/WT (break)	3.2927	0.123
Manapal/WT (red)	3.21847	0.137