Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.8.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.6657	0.133
27DAP/17DAP	1.46565	0.761
39DAP/27DAP	1.44595	0.223
41DAP/39DAP	0.67189	0.061
42DAP/41DAP	1.13271	0.92
43DAP/42DAP	1.7287	0.662
47DAP/43DAP	1.29058	0.481
52DAP/47DAP	0.85789	0.607
57DAP/52DAP	1.25903	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03055	0.685
17DAP/reference	0.98498	0.819
27DAP/reference	0.98163	0.694
39DAP/reference	0.98554	0.828
41DAP/reference	1.00662	1
42DAP/reference	0.89884	0.013
43DAP/reference	1.01487	0.982
47DAP/reference	0.896	0.004
52DAP/reference	0.6891	0.033
57DAP/reference	0.86078	0.235

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.9468	0.036
27DAP/17DAP	1.25258	0.447
39DAP/27DAP	1.08564	0.587
41DAP/39DAP	1.22637	1
42DAP/41DAP	1.05809	1
43DAP/42DAP	1.3772	0.23
47DAP/43DAP	1.07731	0.827
52DAP/47DAP	1.15059	0.619
57DAP/52DAP	0.77796	0.137
57DAP/7DAP	2.05972	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90168	0.361
17DAP/reference	0.78511	0.082
27DAP/reference	0.87229	0.303
39DAP/reference	1.05345	0.634
41DAP/reference	0.85908	0.139
42DAP/reference	0.99284	0.675
43DAP/reference	0.91637	0.159
47DAP/reference	1.19509	0.259
52DAP/reference	0.85361	0.126
57DAP/reference	1.15819	0.571

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0123	0.933
17DAP/reference	1.0445	0.892
27DAP/reference	0.91371	0.282
39DAP/reference	1.02625	0.824
41DAP/reference	0.81117	0.242
42DAP/reference	0.87867	0.121
43DAP/reference	0.99709	0.681
47DAP/reference	0.95926	0.338
52DAP/reference	0.9965	0.619
57DAP/reference	0.98887	0.72

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29641	0.122
17DAP/reference	1.00077	0.886
27DAP/reference	0.83823	0.357
39DAP/reference	0.99071	0.755
41DAP/reference	0.8214	0.371
42DAP/reference	0.70051	0.032
43DAP/reference	1.16216	0.894
47DAP/reference	0.95316	0.396
52DAP/reference	1.09421	0.614
57DAP/reference	0.97242	0.468

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01565	0.966
26DAP/20DAP	1.1977	0.334
34DAP/26DAP	0.84646	0.209
51DAP/34DAP	0.71728	0.06
52DAP/51DAP	0.99945	1
53DAP/52DAP	1.27579	0.261
55DAP/53DAP	0.89225	0.445
57DAP/55DAP	1.12245	0.915
62DAP/57DAP	1.12543	0.678
68DAP/62DAP	0.99279	0.914
68DAP/14DAP	1.21157	0.403

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	5.79326	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.83026	0.309
Mature Green Tomato/Ripe Tomato	0.8982	0.411
Immature Eggplant/Mature Eggplant	0.97663	0.808
Ripe Pepper/Ripe Tomato	1.2085	1
Mature Eggplant/Ripe Tomato	1.11672	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9624	0.944
1-1-2/M82	1.02359	1
12-2/M82	1.04494	1
12-4/M82	1.31268	1
1-3/M82	N/A	N/A
2-1-1/M82	1.2235	0.457
2-1/M82	1.23839	1
2-6/M82	1.10384	0.695
3-2/M82	0.94845	1
4-1-1/M82	0.81354
4-1/M82	0.86804	1
4-3-2/M82	1.15372	1
4-3/M82	0.81024	0.578
5-3/M82	1.00586	1
6-2/M82	0.94192	1
6-3/M82	1.16127	1
7-1/M82	1.06862	1
7-2/M82	1.03899	1
9-3-2/M82	1.13851	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.96014	1
IL2-6/WTpooled	1.05885	1
IL7-5/WTpooled	0.85247	0.483
IL7-3/WTpooled	1.06792	1
IL12-4/WTpooled	0.85685	0.71
IL1-4/WTpooled	1.0754	1
WT/WTpooled	0.91715	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	0.92514	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.32582	0.914
DC3000/delta hrp 6h	1.18761	1
DC3000/delta hrp 12h	1.06901	1
DC3000/delta hrp 24h	1.04073	0.633

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.59354	0.027
DC3000 delta B/DC3000 delta AB	0.59559	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02983	1
Exp 36h	0.93489	0.879
Exp 60h	0.79727	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05091	1
Var 0h	0.91506	1
Var 12h I row2-row1	0.8654	0.338
Var 12h NI row2-row1	0.85482	0.438
Var 36h I row2-row1	0.91771	1
Var 36h NI row2-row1	1.01056	1
Var 60h I row2-row1	1.03444	1
Var 60h NI row2-row1	0.93736	0.977
Time course 0hI-0hNI	0.97506	0.886
Time course 12hI-12hNI	0.99875	1
Time course 36hI-36hNI	1.02371	0.799
Time course 60hI-60hNI	0.67768	0.015

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)	1.09077	0.699
transgenic ySAMdc/azygous control (breaker)	1.40433	0.248
transgenic ySAMdc/azygous control (red)	1.04888	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00676	0.958

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.12149	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90432	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.16804	0.413