Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.13.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99512	0.919
27DAP/17DAP	0.94815	0.923
39DAP/27DAP	0.96857	0.7
41DAP/39DAP	1.29385	0.268
42DAP/41DAP	1.21662	0.752
43DAP/42DAP	0.95569	0.883
47DAP/43DAP	0.90207	0.667
52DAP/47DAP	1.12231	0.786
57DAP/52DAP	0.93035	0.899

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02855	0.522
17DAP/reference	1.04064	0.342
27DAP/reference	1.01132	0.909
39DAP/reference	0.90168	0.254
41DAP/reference	1.04986	0.587
42DAP/reference	1.02463	0.609
43DAP/reference	1.02393	0.787
47DAP/reference	0.9627	0.242
52DAP/reference	0.84937	0.03
57DAP/reference	0.94475	0.235

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99571	0.871
27DAP/17DAP	1.0265	0.909
39DAP/27DAP	0.98979	0.932
41DAP/39DAP	1.03126	0.837
42DAP/41DAP	0.95773	0.637
43DAP/42DAP	0.99983	1
47DAP/43DAP	0.95223	0.637
52DAP/47DAP	0.97402	0.839
57DAP/52DAP	1.01001	1
57DAP/7DAP	1.14075	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96395	0.168
17DAP/reference	0.98997	0.447
27DAP/reference	1.00193	0.8
39DAP/reference	1.01751	0.57
41DAP/reference	0.97888	0.153
42DAP/reference	1.01203	0.889
43DAP/reference	0.97117	0.279
47DAP/reference	0.92503	0.101
52DAP/reference	0.96958	0.363
57DAP/reference	0.96967	0.156

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09754	0.23
17DAP/reference	1.03912	0.171
27DAP/reference	0.96147	0.381
39DAP/reference	0.96943	0.339
41DAP/reference	0.97343	0.441
42DAP/reference	0.94885	0.392
43DAP/reference	1.09824	0.297
47DAP/reference	1.09463	0.128
52DAP/reference	1.00905	0.882
57DAP/reference	1.06339	0.2

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00415	1
17DAP/reference	1.02138	0.685
27DAP/reference	0.92859	0.14
39DAP/reference	0.94719	0.083
41DAP/reference	0.99395	0.618
42DAP/reference	0.96457	0.445
43DAP/reference	0.94699	0.143
47DAP/reference	0.99513	0.667
52DAP/reference	1.01283	0.917
57DAP/reference	0.86448	0.062

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99393	1
26DAP/20DAP	0.9422	1
34DAP/26DAP	0.72877	0.811
51DAP/34DAP	0.94507	0.64
52DAP/51DAP	0.98778	1
53DAP/52DAP	1.07094	0.608
55DAP/53DAP	0.99785	0.939
57DAP/55DAP	0.67647	0.249
62DAP/57DAP	1.06627	0.833
68DAP/62DAP	1.02768	1
68DAP/14DAP	1.02465	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00297	0.855

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.14965
Mature Green Tomato/Ripe Tomato	1.04588	0.898
Immature Eggplant/Mature Eggplant	1.0377	1
Ripe Pepper/Ripe Tomato	0.93746
Mature Eggplant/Ripe Tomato	1.72654	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0354	1
1-1-2/M82	0.90142	0.958
12-2/M82	1.09667	0.421
12-4/M82	0.95891	1
1-3/M82	0.87546	0.441
2-1-1/M82	1.1174	0.457
2-1/M82	1.03476
2-6/M82	0.9834	1
3-2/M82	0.99107	1
4-1-1/M82	1.00857	1
4-1/M82	0.88304	0.737
4-3-2/M82	0.92656	1
4-3/M82	1.04423	1
5-3/M82	1.05765	0.572
6-2/M82	1.0127	1
6-3/M82	1.0093	1
7-1/M82	1.01112	1
7-2/M82	1.00483	1
9-3-2/M82	0.97845	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.12757	0.277
IL2-6/WTpooled	1.32788	0.395
IL7-5/WTpooled	1.22474	0.792
IL7-3/WTpooled	0.88569	1
IL12-4/WTpooled	0.95421	0.581
IL1-4/WTpooled	0.96408	0.444
WT/WTpooled	1.10735	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01381	1
DC3000/delta hrp 6h	0.73085	0.637
DC3000/delta hrp 12h	1.05784	1
DC3000/delta hrp 24h	1.38296	0.254

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.9922	1
DC3000 delta B/DC3000 delta AB	0.92777	0.431

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.17726	1
Exp 60h	0.85528	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94379	1
Var 0h	1.30543	0.936
Var 12h I row2-row1	1.16317	0.202
Var 12h NI row2-row1	0.93598	0.82
Var 36h I row2-row1	1.06095	1
Var 36h NI row2-row1	0.91561	0.549
Var 60h I row2-row1	1.32405	0.562
Var 60h NI row2-row1	1.31414	0.904
Time course 0hI-0hNI	1.03366	1
Time course 12hI-12hNI	1.14535	0.385
Time course 36hI-36hNI	0.98993	0.654
Time course 60hI-60hNI	0.95663	0.319

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)	0.83649	0.32
transgenic ySAMdc/azygous control (breaker)	1.47907	1
transgenic ySAMdc/azygous control (red)	1.58604	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98661	0.242

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04656	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.61139	0.307
Manapal/WT (break)	1.21314	1
Manapal/WT (red)	0.95466	0.728