Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.16.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.70415	0.19
27DAP/17DAP	1.97854	0.51
39DAP/27DAP	1.21488	1
41DAP/39DAP	1.0182	0.985
42DAP/41DAP	0.85465	1
43DAP/42DAP	1.02599	1
47DAP/43DAP	1.208	0.474
52DAP/47DAP	1.46885	0.43
57DAP/52DAP	0.78269	0.768

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06489	0.9
17DAP/reference	0.9687	0.597
27DAP/reference	0.96238	0.581
39DAP/reference	0.96932	0.72
41DAP/reference	0.83798	0.049
42DAP/reference	0.88293	0.016
43DAP/reference	1.0201	0.957
47DAP/reference	0.85946	0.032
52DAP/reference	0.97551	0.515
57DAP/reference	0.8692	0.101

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94793	0.484
27DAP/17DAP	1.06305	0.969
39DAP/27DAP	1.09167	1
41DAP/39DAP	1.44374	0.735
42DAP/41DAP	0.91584	0.486
43DAP/42DAP	1.22041	0.478
47DAP/43DAP	1.03787	0.911
52DAP/47DAP	1.43377	0.46
57DAP/52DAP	1.26102	0.407
57DAP/7DAP	2.78853	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88173	0.146
17DAP/reference	1.00803	1
27DAP/reference	0.91754	0.135
39DAP/reference	0.9184	0.264
41DAP/reference	0.83508	0.127
42DAP/reference	0.94248	0.393
43DAP/reference	1.02752	1
47DAP/reference	0.92093	0.383
52DAP/reference	0.84673	0.072
57DAP/reference	1.05011	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90736	0.386
17DAP/reference	0.79102	0.049
27DAP/reference	0.96269	0.438
39DAP/reference	0.92101	0.298
41DAP/reference	0.99845	0.601
42DAP/reference	0.93402	0.108
43DAP/reference	0.8849	0.217
47DAP/reference	0.91929	0.11
52DAP/reference	0.89679	0.203
57DAP/reference	0.98267	0.433

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98827	0.653
17DAP/reference	1.00191	0.81
27DAP/reference	0.96768	0.539
39DAP/reference	0.97287	0.504
41DAP/reference	1.03295	0.939
42DAP/reference	1.09376	0.47
43DAP/reference	1.06603	0.803
47DAP/reference	0.94537	0.357
52DAP/reference	0.97697	0.663
57DAP/reference	2.21212	0.452

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.50973	0.966
26DAP/20DAP	0.67014	0.512
34DAP/26DAP	1.23079	1
51DAP/34DAP	1.06026	0.924
52DAP/51DAP	1.4865	0.396
53DAP/52DAP	0.92738	0.663
55DAP/53DAP	0.83514	0.462
57DAP/55DAP	1.27866
62DAP/57DAP	1.06588	0.935
68DAP/62DAP	1.14772	0.864
68DAP/14DAP	1.67548	0.045

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.58855	0.097

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.10691
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.03459
Ripe Pepper/Ripe Tomato	0.31396	0.224
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09222	0.877
1-1-2/M82	0.83935	0.804
12-2/M82	1.00625	1
12-4/M82	0.87162	0.358
1-3/M82	0.79554	0.441
2-1-1/M82	0.96303	1
2-1/M82	N/A	N/A
2-6/M82	1.35914
3-2/M82	0.53699
4-1-1/M82	1.12524	1
4-1/M82	1.03211
4-3-2/M82	0.87132
4-3/M82	1.01007	1
5-3/M82	0.79781	0.374
6-2/M82	1.08423	0.212
6-3/M82	1.08732	1
7-1/M82	0.98781
7-2/M82	1.01766	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.32727	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.87331	0.941
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.95462	1
DC3000/delta hrp 24h	1.10231	0.356

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.81738	0.042
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.20176	1
Var 0h	1.04517	0.98
Var 12h I row2-row1	5.83706	0.613
Var 12h NI row2-row1	3.23777	1
Var 36h I row2-row1	0.9395	1
Var 36h NI row2-row1	0.20344
Var 60h I row2-row1	0.9715	1
Var 60h NI row2-row1	0.92087	1
Time course 0hI-0hNI	1.16975	0.852
Time course 12hI-12hNI	0.92196	0.687
Time course 36hI-36hNI	1.29992	0.355
Time course 60hI-60hNI	1.70119	0.137

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)	1.44719	0.238
transgenic ySAMdc/azygous control (breaker)	0.52924	0.131
transgenic ySAMdc/azygous control (red)	1.59569	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95443	0.305

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.57057	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.63143	0.172
Manapal/WT (break)	0.63784	1
Manapal/WT (red)	0.74617	0.181