Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.11.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81056	0.436
27DAP/17DAP	1.42793	0.599
39DAP/27DAP	0.90732	0.583
41DAP/39DAP	1.1015	0.921
42DAP/41DAP	1.69786	0.196
43DAP/42DAP	1.28628	0.785
47DAP/43DAP	1.02441	0.889
52DAP/47DAP	1.04824	0.973
57DAP/52DAP	0.91621	0.768

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14455	0.04
17DAP/reference	0.85562	0.046
27DAP/reference	0.8475	0.085
39DAP/reference	1.16353	0.104
41DAP/reference	0.9708	0.434
42DAP/reference	1.51891	0.001
43DAP/reference	1.18039	0.008
47DAP/reference	1.12049	0.284
52DAP/reference	0.98275	0.53
57DAP/reference	1.08166	0.447

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95426	0.526
27DAP/17DAP	1.05873	0.863
39DAP/27DAP	1.15313	0.373
41DAP/39DAP	0.91655	0.781
42DAP/41DAP	1.04418	0.976
43DAP/42DAP	1.86618	0.014
47DAP/43DAP	0.95593	0.647
52DAP/47DAP	1.02114	0.933
57DAP/52DAP	0.8336	0.141
57DAP/7DAP	1.14539	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82257	0.157
17DAP/reference	0.98484	0.518
27DAP/reference	1.23331	0.014
39DAP/reference	1.02467	1
41DAP/reference	1.0293	0.918
42DAP/reference	0.94844	0.415
43DAP/reference	1.02183	0.483
47DAP/reference	1.17182	0.057
52DAP/reference	0.96541	0.363
57DAP/reference	0.85971	0.038

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99966	0.93
17DAP/reference	1.15156	0.045
27DAP/reference	1.24252	0.073
39DAP/reference	1.23811	0.071
41DAP/reference	1.30992	0.015
42DAP/reference	1.31272	0.015
43DAP/reference	1.59791	0.014
47DAP/reference	1.63035	0.011
52DAP/reference	1.20342	0.032
57DAP/reference	1.33519	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8716	0.147
17DAP/reference	1.11596	0.311
27DAP/reference	1.12497	0.085
39DAP/reference	1.10596	0.12
41DAP/reference	1.2439	0.08
42DAP/reference	1.27498	0.028
43DAP/reference	0.91282	0.334
47DAP/reference	1.07404	0.501
52DAP/reference	1.07714	0.443
57DAP/reference	1.41485	0.015

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.41625	0.966
26DAP/20DAP	0.82651	0.512
34DAP/26DAP	0.92202	0.675
51DAP/34DAP	1.03275	0.978
52DAP/51DAP	0.97106	1
53DAP/52DAP	1.09509	0.678
55DAP/53DAP	1.06937	0.733
57DAP/55DAP	1.40839	0.682
62DAP/57DAP	0.77595	0.088
68DAP/62DAP	0.96526	0.787
68DAP/14DAP	1.18151	0.714

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.65344	0.055

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.29183	0.076
Mature Green Tomato/Ripe Tomato	0.35181	0.018
Immature Eggplant/Mature Eggplant	1.65399	0.05
Ripe Pepper/Ripe Tomato	0.62514	0.293
Mature Eggplant/Ripe Tomato	0.20584	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.54756	0.877
1-1-2/M82	1.05324	1
12-2/M82	1.03972	1
12-4/M82	1.3301	1
1-3/M82	1.2374	0.248
2-1-1/M82	1.29352	0.375
2-1/M82	1.17483	0.345
2-6/M82	0.84676	1
3-2/M82	1.31724	0.84
4-1-1/M82	1.02122	1
4-1/M82	1.18669	1
4-3-2/M82	0.96406	0.698
4-3/M82	1.72669	1
5-3/M82	0.9886	1
6-2/M82	0.97806	1
6-3/M82	1.09265	1
7-1/M82	1.01732	1
7-2/M82	1.02012	0.385
9-3-2/M82	1.13336	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.88366	0.321
IL2-6/WTpooled	0.81878	1
IL7-5/WTpooled	0.86325	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.82546	0.581
IL1-4/WTpooled	0.86085	0.476
WT/WTpooled	0.94067	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	1.09503	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9125	1
DC3000/delta hrp 6h	1.20131	1
DC3000/delta hrp 12h	1.10578	1
DC3000/delta hrp 24h	0.8379	0.069

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.00486	1
DC3000 delta B/DC3000 delta AB	1.2271	0.42

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.8944	0.82
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99409	1
Var 0h	1.22776	0.339
Var 12h I row2-row1	1.22976	0.443
Var 12h NI row2-row1	0.95449	0.713
Var 36h I row2-row1	0.92492	1
Var 36h NI row2-row1	0.92713	0.645
Var 60h I row2-row1	1.56516	0.562
Var 60h NI row2-row1	1.11353	0.691
Time course 0hI-0hNI	1.06159	0.833
Time course 12hI-12hNI	0.95569	0.618
Time course 36hI-36hNI	0.83333	0.025
Time course 60hI-60hNI	0.75124	0.008

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)	0.99717	0.931
transgenic ySAMdc/azygous control (breaker)	0.91708	0.49
transgenic ySAMdc/azygous control (red)	1.09122	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98353	0.673

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06818	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.59028	0.084
Manapal/WT (break)	1.10664	1
Manapal/WT (red)	1.19913	0.413