Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.13.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93867	0.617
27DAP/17DAP	0.99459	1
39DAP/27DAP	1.08449	0.838
41DAP/39DAP	1.04452	0.934
42DAP/41DAP	1.07816	0.898
43DAP/42DAP	1.01635	1
47DAP/43DAP	0.97004	0.876
52DAP/47DAP	1.07878	0.906
57DAP/52DAP	1.00277	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96047	0.476
17DAP/reference	0.92703	0.104
27DAP/reference	0.98527	0.538
39DAP/reference	0.96011	0.324
41DAP/reference	1.01301	0.91
42DAP/reference	1.0871	0.005
43DAP/reference	1.00499	0.982
47DAP/reference	1.10005	0.006
52DAP/reference	1.15401	0.121
57DAP/reference	1.17697	0.057

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01584	0.934
27DAP/17DAP	0.93472	0.58
39DAP/27DAP	0.99378	1
41DAP/39DAP	1.01982	0.887
42DAP/41DAP	1.00129	0.932
43DAP/42DAP	0.96375	0.618
47DAP/43DAP	1.00059	1
52DAP/47DAP	1.03978	0.856
57DAP/52DAP	1.03285	0.832
57DAP/7DAP	0.85215	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11551	0.325
17DAP/reference	1.17223	0.297
27DAP/reference	0.9459	0.248
39DAP/reference	1.21921	0.126
41DAP/reference	1.17056	0.46
42DAP/reference	1.47888	0.007
43DAP/reference	1.27907	0.034
47DAP/reference	0.94182	0.504
52DAP/reference	1.02596	1
57DAP/reference	0.93984	0.291

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99117	0.848
17DAP/reference	0.97327	0.499
27DAP/reference	1.02174	0.988
39DAP/reference	0.987	0.455
41DAP/reference	0.94788	0.262
42DAP/reference	1.15037	0.033
43DAP/reference	1.04954	0.641
47DAP/reference	1.08458	0.12
52DAP/reference	1.01161	0.938
57DAP/reference	0.99828	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31291	0.02
17DAP/reference	1.04632	0.627
27DAP/reference	1.31178	0.031
39DAP/reference	1.06924	0.211
41DAP/reference	0.95908	0.371
42DAP/reference	0.95058	0.445
43DAP/reference	0.86983	0.116
47DAP/reference	1.0117	1
52DAP/reference	1.00836	0.99
57DAP/reference	1.14479	0.187

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98722	1
26DAP/20DAP	1.13591	0.562
34DAP/26DAP	1.0962	1
51DAP/34DAP	0.98995	0.901
52DAP/51DAP	1.04191	0.722
53DAP/52DAP	N/A	N/A
55DAP/53DAP	1.00308	1
57DAP/55DAP	0.94846	0.867
62DAP/57DAP	0.94331
68DAP/62DAP	1.054	0.956
68DAP/14DAP	1.01665	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.08772	0.347

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.31122	0.666
Mature Green Tomato/Ripe Tomato	0.94177	0.522
Immature Eggplant/Mature Eggplant	1.11126	0.659
Ripe Pepper/Ripe Tomato	1.71378	1
Mature Eggplant/Ripe Tomato	1.68861	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9235	0.944
1-1-2/M82	0.97613	0.958
12-2/M82	0.84029	0.678
12-4/M82	0.93688	1
1-3/M82	0.98752	1
2-1-1/M82	0.85657	0.683
2-1/M82	1.02989	1
2-6/M82	0.99649	1
3-2/M82	0.97658	1
4-1-1/M82	1.06861	1
4-1/M82	0.88253	0.737
4-3-2/M82	0.93516	0.698
4-3/M82	1.00698	1
5-3/M82	0.97757	1
6-2/M82	1.00095	1
6-3/M82	0.99764	1
7-1/M82	0.99325	1
7-2/M82	0.95688	0.881
9-3-2/M82	0.79465	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.97652	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.19782	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.99363
IL1-4/WTpooled	0.83287	0.699
WT/WTpooled	1.39516	0.686

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	1.60506

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96274	1
DC3000/delta hrp 6h	1.19819	0.95
DC3000/delta hrp 12h	1.02805	1
DC3000/delta hrp 24h	1.20079	0.37

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.32823	0.208
DC3000 delta B/DC3000 delta AB	1.27509	0.17

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.05448	1
Exp 60h	1.37072	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03045	1
Var 0h	8.13943	0.936
Var 12h I row2-row1	1.1583	0.196
Var 12h NI row2-row1	0.9816	0.906
Var 36h I row2-row1	1.0762	1
Var 36h NI row2-row1	0.90265	0.584
Var 60h I row2-row1	1.02792	1
Var 60h NI row2-row1	1.07421	1
Time course 0hI-0hNI	0.96856	0.849
Time course 12hI-12hNI	0.98763	0.956
Time course 36hI-36hNI	0.96808	0.396
Time course 60hI-60hNI	1.20163	0.069

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)	0.94598	0.662
transgenic ySAMdc/azygous control (breaker)	1.94143	0.248
transgenic ySAMdc/azygous control (red)	1.60631	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99381	0.534

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.66025	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.52659	0.307
Manapal/WT (break)	0.80423	0.333
Manapal/WT (red)	1.06558	1