Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.19.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93591	0.61
27DAP/17DAP	1.3773	0.799
39DAP/27DAP	0.92677	0.608
41DAP/39DAP	1.24059	0.387
42DAP/41DAP	1.29816	0.644
43DAP/42DAP	1.94652	0.034
47DAP/43DAP	0.85826	0.55
52DAP/47DAP	1.26724	0.619
57DAP/52DAP	0.76176	0.756

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06853	0.788
17DAP/reference	1.06356	0.508
27DAP/reference	1.13974	0.894
39DAP/reference	0.98996	0.941
41DAP/reference	1.67258
42DAP/reference	1.4314	0.108
43DAP/reference	1.37814
47DAP/reference	1.83421	0.042
52DAP/reference	1.16203	0.73
57DAP/reference	0.61937

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02391	0.947
27DAP/17DAP	0.99877	0.969
39DAP/27DAP	1.22689	0.1
41DAP/39DAP	0.96504	0.98
42DAP/41DAP	1.00286	0.887
43DAP/42DAP	1.16982	0.072
47DAP/43DAP	0.96634	0.877
52DAP/47DAP	1.08857	0.666
57DAP/52DAP	1.14755	0.376
57DAP/7DAP	1.07068	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83342	0.071
17DAP/reference	0.72036	0.013
27DAP/reference	0.72005	0.01
39DAP/reference	0.72461	0.011
41DAP/reference	0.7325	0.02
42DAP/reference	0.73149	0.011
43DAP/reference	0.76233	0.018
47DAP/reference	0.97902	0.671
52DAP/reference	0.67784	0.012
57DAP/reference	0.70797	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94332	0.564
17DAP/reference	1.05109	0.508
27DAP/reference	1.10328	0.81
39DAP/reference	1.25642	0.141
41DAP/reference	1.32017	0.109
42DAP/reference	1.15783	0.153
43DAP/reference	1.18575	0.182
47DAP/reference	1.30175	0.011
52DAP/reference	1.30492	0.016
57DAP/reference	0.99694	0.834

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78268	0.037
17DAP/reference	0.96018	0.571
27DAP/reference	0.71908	0.036
39DAP/reference	0.77264	0.033
41DAP/reference	0.80077	0.043
42DAP/reference	0.9503	0.552
43DAP/reference	1.1532	0.531
47DAP/reference	1.91999	0.005
52DAP/reference	0.96187	0.582
57DAP/reference	1.33085	0.385

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.4764
26DAP/20DAP	0.86593	0.512
34DAP/26DAP	1.06386	1
51DAP/34DAP	1.01867	1
52DAP/51DAP	1.36624	0.085
53DAP/52DAP	1.01188	0.961
55DAP/53DAP	1.16974	0.247
57DAP/55DAP	1.24046	0.898
62DAP/57DAP	0.8397	0.466
68DAP/62DAP	0.98981	0.863
68DAP/14DAP	1.40514	0.676

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.77143	0.046

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.27439	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.62191	0.224
Mature Eggplant/Ripe Tomato	0.33248	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.89921	0.591
1-1-2/M82	1.48179	0.977
12-2/M82	0.84901	0.862
12-4/M82	1.15243	1
1-3/M82	1.3048	1
2-1-1/M82	1.0967	1
2-1/M82	0.95316
2-6/M82	1.52117	0.329
3-2/M82	0.76508
4-1-1/M82	1.2613	1
4-1/M82	1.09505	1
4-3-2/M82	0.92744
4-3/M82	1.07824	1
5-3/M82	0.91642	1
6-2/M82	0.74808	0.458
6-3/M82	N/A	N/A
7-1/M82	0.5632
7-2/M82	1.09893	0.385
9-3-2/M82	1.46504	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.27576
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.78755
IL12-4/WTpooled	1.61131
IL1-4/WTpooled	0.83229
WT/WTpooled	1.04431	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	0.89423	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00694	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.16705	1
DC3000/delta hrp 24h	0.8712	0.216

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.78252	0.027
DC3000 delta B/DC3000 delta AB	0.78001	0.041

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
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	0.98384	1
Var 0h	1.05334	0.98
Var 12h I row2-row1	0.8128	0.338
Var 12h NI row2-row1	0.90877	0.494
Var 36h I row2-row1	0.84565	1
Var 36h NI row2-row1	1.21987	0.276
Var 60h I row2-row1	1.90314	0.562
Var 60h NI row2-row1	1.17393	0.904
Time course 0hI-0hNI	1.09339	0.63
Time course 12hI-12hNI	0.9689	0.806
Time course 36hI-36hNI	0.80545	0.03
Time course 60hI-60hNI	0.20229	0.006

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)	0.89868	0.567
transgenic ySAMdc/azygous control (breaker)	1.08087	1
transgenic ySAMdc/azygous control (red)	1.00842	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92156	0.196

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.27658	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81611	1
Manapal/WT (break)	0.75081	0.333
Manapal/WT (red)	1.82848	0.15