Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.9.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93743	0.671
27DAP/17DAP	1.1966	0.844
39DAP/27DAP	0.84542	0.529
41DAP/39DAP	1.04023	0.934
42DAP/41DAP	1.15739	0.967
43DAP/42DAP	0.91357	0.721
47DAP/43DAP	1.27818	0.689
52DAP/47DAP	1.05614	0.983
57DAP/52DAP	1.08385	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96263	0.379
17DAP/reference	0.96697	0.419
27DAP/reference	0.96482	0.417
39DAP/reference	1.13804	0.679
41DAP/reference	1.01408	0.714
42DAP/reference	0.97287	0.287
43DAP/reference	0.99617	0.882
47DAP/reference	0.92658	0.098
52DAP/reference	0.85706	0.089
57DAP/reference	0.8714	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97066	0.56
27DAP/17DAP	0.96547	0.782
39DAP/27DAP	1.01715	0.779
41DAP/39DAP	1.06402	0.735
42DAP/41DAP	0.99358	0.887
43DAP/42DAP	0.94737	0.165
47DAP/43DAP	1.05443	0.833
52DAP/47DAP	1.07724	0.81
57DAP/52DAP	1.00216	1
57DAP/7DAP	1.07789	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9759	0.402
17DAP/reference	0.96527	0.094
27DAP/reference	0.92555	0.012
39DAP/reference	0.98177	0.014
41DAP/reference	0.98447	0.235
42DAP/reference	1.02977	0.405
43DAP/reference	0.98714	0.385
47DAP/reference	0.91938	0.057
52DAP/reference	0.95087	0.232
57DAP/reference	0.99643	0.67

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07693	0.139
17DAP/reference	1.09376	0.124
27DAP/reference	1.10616	0.249
39DAP/reference	1.14621	0.119
41DAP/reference	1.01872	1
42DAP/reference	0.93701	0.212
43DAP/reference	1.04293	0.54
47DAP/reference	0.88419	0.055
52DAP/reference	1.07172	0.559
57DAP/reference	1.23172	0.236

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97301	0.249
17DAP/reference	1.01057	0.876
27DAP/reference	0.96206	0.053
39DAP/reference	1.00491	0.962
41DAP/reference	0.94911	0.107
42DAP/reference	0.92818	0.172
43DAP/reference	0.93968	0.137
47DAP/reference	0.97862	0.452
52DAP/reference	0.96827	0.573
57DAP/reference	0.87495	0.061

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98297	1
26DAP/20DAP	0.98563	1
34DAP/26DAP	0.94012	0.479
51DAP/34DAP	0.95198	0.472
52DAP/51DAP	1.03188	0.676
53DAP/52DAP	0.97242	0.835
55DAP/53DAP	0.99624
57DAP/55DAP	0.97923	0.914
62DAP/57DAP	1.00004	1
68DAP/62DAP	1.04743	1
68DAP/14DAP	1.02572	0.915

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.954	0.422

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.84287	0.377
Mature Green Tomato/Ripe Tomato	0.77408	0.051
Immature Eggplant/Mature Eggplant	1.62803	0.05
Ripe Pepper/Ripe Tomato	1.58503	0.258
Mature Eggplant/Ripe Tomato	2.11895	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93906	0.944
1-1-2/M82	1.07436	1
12-2/M82	0.96657	0.955
12-4/M82	0.93779	1
1-3/M82	0.90307	0.441
2-1-1/M82	0.76586
2-1/M82	N/A	N/A
2-6/M82	0.95185	0.501
3-2/M82	1.07418	0.717
4-1-1/M82	0.99341	1
4-1/M82	0.88363
4-3-2/M82	0.93817
4-3/M82	0.97085	1
5-3/M82	0.99216	1
6-2/M82	0.96787	1
6-3/M82	1.01495	1
7-1/M82	1.09807	1
7-2/M82	0.89118	0.881
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	0.80348	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96253	1
DC3000/delta hrp 6h	1.13837	1
DC3000/delta hrp 12h	1.0238	1
DC3000/delta hrp 24h	0.99953	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.29686	0.063
DC3000 delta B/DC3000 delta AB	1.10636	0.336

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03429	0.201
Exp 36h	0.90926	0.879
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	1.03692	1
Var 0h	1.07702	0.98
Var 12h I row2-row1	1.1963	0.324
Var 12h NI row2-row1	1.19373	0.649
Var 36h I row2-row1	0.78854	0.805
Var 36h NI row2-row1	0.83444	0.549
Var 60h I row2-row1	1.11903	1
Var 60h NI row2-row1	1.0717	1
Time course 0hI-0hNI	1.08137	0.852
Time course 12hI-12hNI	0.96823	0.806
Time course 36hI-36hNI	1.03978	0.513
Time course 60hI-60hNI	2.16959	0.025

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)	0.92874	0.289
transgenic ySAMdc/azygous control (breaker)	0.66994	0.139
transgenic ySAMdc/azygous control (red)	0.9525	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03266	0.163

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82617	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.94128	1
Manapal/WT (red)	1.40484	0.15