Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.13.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92448	0.551
27DAP/17DAP	0.97942	0.928
39DAP/27DAP	1.09606	0.946
41DAP/39DAP	1.06624	0.663
42DAP/41DAP	1.14184	0.856
43DAP/42DAP	0.89886	0.801
47DAP/43DAP	1.01464	0.979
52DAP/47DAP	1.16038	0.724
57DAP/52DAP	0.97947	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03788	0.928
17DAP/reference	1.00838	0.696
27DAP/reference	1.01315	0.759
39DAP/reference	0.974	0.651
41DAP/reference	1.03073	0.312
42DAP/reference	0.85907	0.003
43DAP/reference	1.00128	0.942
47DAP/reference	0.91768	0.046
52DAP/reference	0.85711	0.058
57DAP/reference	0.96336	0.435

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99299	0.826
27DAP/17DAP	0.98033	0.821
39DAP/27DAP	0.97433	0.673
41DAP/39DAP	1.02882	0.753
42DAP/41DAP	0.96167	0.603
43DAP/42DAP	0.99745	1
47DAP/43DAP	0.99093	0.954
52DAP/47DAP	0.9895	0.93
57DAP/52DAP	0.97331	0.637
57DAP/7DAP	1.10777	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9998	1
17DAP/reference	0.95038	0.039
27DAP/reference	0.94456	0.058
39DAP/reference	1.03177	0.46
41DAP/reference	0.99617	0.709
42DAP/reference	0.98525	0.458
43DAP/reference	0.94015	0.241
47DAP/reference	0.90743	0.222
52DAP/reference	0.86567	0.179
57DAP/reference	0.94889	0.232

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0488	0.456
17DAP/reference	1.02666	0.874
27DAP/reference	0.98237	0.554
39DAP/reference	0.89005	0.122
41DAP/reference	0.87349	0.076
42DAP/reference	0.88662	0.021
43DAP/reference	1.10307	0.152
47DAP/reference	0.96079	0.178
52DAP/reference	0.95189	0.22
57DAP/reference	0.98931	0.72

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01686	0.723
17DAP/reference	1.07359	0.467
27DAP/reference	0.96951	0.397
39DAP/reference	1.111	0.075
41DAP/reference	0.95781	0.264
42DAP/reference	0.81154	0.071
43DAP/reference	0.89605	0.106
47DAP/reference	0.95035	0.269
52DAP/reference	1.0384	0.714
57DAP/reference	0.79905	0.031

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97549	1
26DAP/20DAP	0.98786	1
34DAP/26DAP	1.00118	1
51DAP/34DAP	0.94692	0.618
52DAP/51DAP	0.97198	1
53DAP/52DAP	1.04342	0.868
55DAP/53DAP	0.97113	0.725
57DAP/55DAP	1.31427	0.745
62DAP/57DAP	0.98535	0.871
68DAP/62DAP	1.01981	1
68DAP/14DAP	1.05142	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0678	0.172

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.99324	0.886
Mature Green Tomato/Ripe Tomato	1.17133	0.478
Immature Eggplant/Mature Eggplant	1.11541	0.334
Ripe Pepper/Ripe Tomato	0.95569	1
Mature Eggplant/Ripe Tomato	1.76301	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0503	1
1-1-2/M82	0.97157	1
12-2/M82	0.9727	0.955
12-4/M82	1.04334	1
1-3/M82	0.90487	0.441
2-1-1/M82	1.02679	1
2-1/M82	1.29747	1
2-6/M82	1.00299	1
3-2/M82	0.99248	1
4-1-1/M82	1.00877	1
4-1/M82	1.02652	1
4-3-2/M82	1.08249	0.508
4-3/M82	1.00761	1
5-3/M82	1.04779	0.467
6-2/M82	1.01734	1
6-3/M82	1.01648	1
7-1/M82	0.99305	1
7-2/M82	1.0607	1
9-3-2/M82	0.98414	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.84074
IL2-6/WTpooled	1.52641	0.395
IL7-5/WTpooled	1.14363
IL7-3/WTpooled	1.13917	1
IL12-4/WTpooled	0.82256	1
IL1-4/WTpooled	1.64714	1
WT/WTpooled	1.09892	0.855

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	1.08561	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03307	0.692
DC3000/delta hrp 6h	0.92578	0.95
DC3000/delta hrp 12h	1.07037	1
DC3000/delta hrp 24h	1.0352	0.655

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.99949	1
DC3000 delta B/DC3000 delta AB	1.07223	0.433

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.84834	1
Exp 36h	1.2119	1
Exp 60h	1.13024	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99138	1
Var 0h	0.91823	0.933
Var 12h I row2-row1	1.12999	0.406
Var 12h NI row2-row1	0.96081	0.906
Var 36h I row2-row1	1.13527	0.908
Var 36h NI row2-row1	0.91501	0.645
Var 60h I row2-row1	1.18678	0.562
Var 60h NI row2-row1	1.09818	0.904
Time course 0hI-0hNI	1.0023	1
Time course 12hI-12hNI	1.02031	0.82
Time course 36hI-36hNI	1.07021	0.166
Time course 60hI-60hNI	1.12758	0.037

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)	0.94706	0.485
transgenic ySAMdc/azygous control (breaker)	1.54748	0.178
transgenic ySAMdc/azygous control (red)	1.14181	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99225	0.5

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93018	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03844	1
Manapal/WT (break)	0.98458	1
Manapal/WT (red)	0.96374	0.728