Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.13.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98112	0.83
27DAP/17DAP	1.07375	0.88
39DAP/27DAP	1.3039	0.354
41DAP/39DAP	0.94053	0.726
42DAP/41DAP	1.11127	0.85
43DAP/42DAP	0.92558	0.744
47DAP/43DAP	0.9608	0.864
52DAP/47DAP	0.92951	0.777
57DAP/52DAP	1.02127	0.958

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97664	0.465
17DAP/reference	1.04677	0.294
27DAP/reference	0.96712	0.525
39DAP/reference	1.00811	0.654
41DAP/reference	1.00834	0.714
42DAP/reference	0.99886	0.665
43DAP/reference	1.04134	0.217
47DAP/reference	0.98654	0.473
52DAP/reference	1.12172	0.388
57DAP/reference	1.11792	0.079

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00311	1
27DAP/17DAP	1.0143	0.945
39DAP/27DAP	0.97443	0.795
41DAP/39DAP	0.98923	1
42DAP/41DAP	1.01251	0.976
43DAP/42DAP	0.99782	1
47DAP/43DAP	0.9932	0.977
52DAP/47DAP	0.97657	0.876
57DAP/52DAP	1.01092	0.992
57DAP/7DAP	0.99191	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05706	0.444
17DAP/reference	0.98495	0.338
27DAP/reference	0.97159	0.231
39DAP/reference	1.00911	0.74
41DAP/reference	1.02388	0.524
42DAP/reference	1.03575	0.132
43DAP/reference	0.97373	0.334
47DAP/reference	1.03931	0.537
52DAP/reference	1.00012	1
57DAP/reference	1.01342	0.799

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97363	0.623
17DAP/reference	0.99342	0.711
27DAP/reference	0.98267	0.554
39DAP/reference	0.95529	0.221
41DAP/reference	0.93117	0.188
42DAP/reference	0.99831	0.723
43DAP/reference	1.01462	0.827
47DAP/reference	1.07574	0.069
52DAP/reference	0.96128	0.302
57DAP/reference	0.98915	0.72

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0337	0.338
17DAP/reference	0.99181	0.709
27DAP/reference	1.01779	0.695
39DAP/reference	0.99305	0.693
41DAP/reference	0.99282	0.512
42DAP/reference	0.93572	0.22
43DAP/reference	0.968	0.281
47DAP/reference	0.98594	0.626
52DAP/reference	0.97636	0.747
57DAP/reference	0.90813	0.083

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00325	1
26DAP/20DAP	1.05796	0.806
34DAP/26DAP	1.03256	1
51DAP/34DAP	1.00206	0.988
52DAP/51DAP	0.94326	0.151
53DAP/52DAP	1.01683	0.961
55DAP/53DAP	1.07818	0.599
57DAP/55DAP	0.97709	0.863
62DAP/57DAP	1.2436	0.569
68DAP/62DAP	1.22947	0.272
68DAP/14DAP	1.2451	0.091

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01665	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.57711	0.135
Mature Green Tomato/Ripe Tomato	0.84046	0.347
Immature Eggplant/Mature Eggplant	0.91747	0.594
Ripe Pepper/Ripe Tomato	1.81514	1
Mature Eggplant/Ripe Tomato	1.41369	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94896	0.944
1-1-2/M82	0.75785	1
12-2/M82	1.00085	1
12-4/M82	1.03194	1
1-3/M82	0.9704	1
2-1-1/M82	0.9151	0.565
2-1/M82	0.97275	1
2-6/M82	1.02038	0.695
3-2/M82	0.98716	0.752
4-1-1/M82	0.95417	1
4-1/M82	0.9451	1
4-3-2/M82	0.94771	0.698
4-3/M82	0.9666	1
5-3/M82	0.9909	1
6-2/M82	1.00865	1
6-3/M82	1.03681	1
7-1/M82	0.99692	1
7-2/M82	0.95124	0.599
9-3-2/M82	0.98457	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.21115	0.456
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.8791	0.418
IL12-4/WTpooled	0.76893	0.71
IL1-4/WTpooled	0.90183	0.699
WT/WTpooled	1.01133	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	0.71306	0.216

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95877	1
DC3000/delta hrp 6h	1.13575	1
DC3000/delta hrp 12h	1.03278	1
DC3000/delta hrp 24h	1.13196	0.069

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.06688	0.29
DC3000 delta B/DC3000 delta AB	1.07099	0.429

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.68896	1
Exp 36h	0.57341	0.434
Exp 60h	0.60091	0.29

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03689	1
Var 0h	0.95356	1
Var 12h I row2-row1	1.16243	0.195
Var 12h NI row2-row1	1.02455	1
Var 36h I row2-row1	0.82117	0.805
Var 36h NI row2-row1	0.90472	0.432
Var 60h I row2-row1	1.11442	0.562
Var 60h NI row2-row1	1.07648	1
Time course 0hI-0hNI	1.01536	1
Time course 12hI-12hNI	1.04717	0.687
Time course 36hI-36hNI	1.01351	0.908
Time course 60hI-60hNI	1.13862	0.302

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)	1.06077	0.431
transgenic ySAMdc/azygous control (breaker)	1.61185	0.178
transgenic ySAMdc/azygous control (red)	1.28338	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98825	0.568

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09773	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.60845	0.083
Manapal/WT (break)	1.69328	0.183
Manapal/WT (red)	1.32167	0.126