Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.13.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91562	0.543
27DAP/17DAP	0.9349	0.877
39DAP/27DAP	0.82507	0.529
41DAP/39DAP	1.28211	0.293
42DAP/41DAP	1.20498	0.926
43DAP/42DAP	0.92062	0.813
47DAP/43DAP	1.05041	0.746
52DAP/47DAP	1.64599	0.31
57DAP/52DAP	1.02314	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00803	0.771
17DAP/reference	0.99934	1
27DAP/reference	0.97226	0.538
39DAP/reference	1.30713	0.423
41DAP/reference	0.98056	0.814
42DAP/reference	0.99562	0.547
43DAP/reference	1.03252	0.705
47DAP/reference	0.99339	0.602
52DAP/reference	0.85574	0.075
57DAP/reference	0.91251	0.131

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99998	0.899
27DAP/17DAP	1.0331	0.924
39DAP/27DAP	0.99908	1
41DAP/39DAP	1.12673	0.799
42DAP/41DAP	1.07255	0.593
43DAP/42DAP	0.96017	0.538
47DAP/43DAP	0.95725	0.687
52DAP/47DAP	1.04701	0.819
57DAP/52DAP	1.03352	0.806
57DAP/7DAP	1.31069	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96788	0.326
17DAP/reference	0.94601	0.011
27DAP/reference	0.9427	0.031
39DAP/reference	0.98056	0.17
41DAP/reference	0.94105	0.146
42DAP/reference	0.99042	0.582
43DAP/reference	0.97664	0.48
47DAP/reference	1.04145	0.659
52DAP/reference	0.9273	0.196
57DAP/reference	0.93651	0.069

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08617	0.22
17DAP/reference	1.00996	0.999
27DAP/reference	0.96639	0.393
39DAP/reference	0.98323	0.526
41DAP/reference	0.88434	0.081
42DAP/reference	1.00235	1
43DAP/reference	1.14734	0.195
47DAP/reference	1.03141	0.513
52DAP/reference	0.95053	0.203
57DAP/reference	1.00745	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08904	0.723
17DAP/reference	1.1107	0.136
27DAP/reference	0.84479	0.218
39DAP/reference	0.93743	0.092
41DAP/reference	0.96711	0.167
42DAP/reference	0.95441	0.036
43DAP/reference	0.95841	0.348
47DAP/reference	1.01512	1
52DAP/reference	0.95932	0.493
57DAP/reference	1.05718	0.909

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95028	1
26DAP/20DAP	0.89182	0.512
34DAP/26DAP	0.95297	0.917
51DAP/34DAP	0.82654	0.164
52DAP/51DAP	0.94702	1
53DAP/52DAP	1.03619	0.806
55DAP/53DAP	1.01314	0.994
57DAP/55DAP	1.08141	0.906
62DAP/57DAP	1.07056	0.185
68DAP/62DAP	1.15166	0.767
68DAP/14DAP	0.92507	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07606	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.9212	0.503
Mature Green Tomato/Ripe Tomato	1.30046	0.69
Immature Eggplant/Mature Eggplant	0.80396
Ripe Pepper/Ripe Tomato	0.86469	1
Mature Eggplant/Ripe Tomato	1.308	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95074	0.883
1-1-2/M82	0.96237	1
12-2/M82	1.10986	1
12-4/M82	0.91027	1
1-3/M82	1.03	1
2-1-1/M82	1.05029	0.764
2-1/M82	1.30866	1
2-6/M82	0.92725	1
3-2/M82	0.94115	0.752
4-1-1/M82	1.05883	1
4-1/M82	1.00979	1
4-3-2/M82	0.88493	1
4-3/M82	1.11591	1
5-3/M82	1.04847	1
6-2/M82	1.06202	1
6-3/M82	1.03098	1
7-1/M82	0.94027	1
7-2/M82	1.03605	1
9-3-2/M82	0.8343	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.98527	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.0205	1
IL12-4/WTpooled	1.10557	0.891
IL1-4/WTpooled	0.89143
WT/WTpooled	1.04718	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	0.91493	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93877	1
DC3000/delta hrp 6h	0.90065	0.95
DC3000/delta hrp 12h	1.1902	1
DC3000/delta hrp 24h	0.89451	0.464

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.17773	0.102
DC3000 delta B/DC3000 delta AB	1.01898	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99892	1
Exp 36h	1.55135	0.326
Exp 60h	1.09586	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01575	1
Var 0h	0.50663	1
Var 12h I row2-row1	1.17442	0.379
Var 12h NI row2-row1	0.92602	0.546
Var 36h I row2-row1	1.12929	1
Var 36h NI row2-row1	0.94386	0.791
Var 60h I row2-row1	1.38121	1
Var 60h NI row2-row1	1.39884	0.904
Time course 0hI-0hNI	1.07894	0.764
Time course 12hI-12hNI	1.10503	0.633
Time course 36hI-36hNI	0.98151	0.533
Time course 60hI-60hNI	1.13139	0.042

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)	1.14528	0.455
transgenic ySAMdc/azygous control (breaker)	0.69498	0.173
transgenic ySAMdc/azygous control (red)	0.93246	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04945	0.261

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04173	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.70877	0.172
Manapal/WT (break)	0.91165	1
Manapal/WT (red)	0.58488	0.181