Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.18.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03436	0.951
27DAP/17DAP	1.33575	0.752
39DAP/27DAP	1.23838	0.603
41DAP/39DAP	1.23017	0.339
42DAP/41DAP	2.39452	0.049
43DAP/42DAP	1.32504	0.867
47DAP/43DAP	1.02341	0.92
52DAP/47DAP	0.90522	0.695
57DAP/52DAP	1.06387	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92363	0.246
17DAP/reference	1.08815	0.086
27DAP/reference	0.95082	0.359
39DAP/reference	0.99859	0.991
41DAP/reference	1.12148	0.043
42DAP/reference	1.01805	0.688
43DAP/reference	1.05773	0.569
47DAP/reference	1.02177	0.72
52DAP/reference	0.84621	0.105
57DAP/reference	0.8093	0.04

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22303	0.365
27DAP/17DAP	1.07808	0.798
39DAP/27DAP	1.357	0.103
41DAP/39DAP	0.75299	0.093
42DAP/41DAP	1.31701	0.55
43DAP/42DAP	3.73023	0.013
47DAP/43DAP	1.04957	0.788
52DAP/47DAP	1.16347	0.676
57DAP/52DAP	1.02821	0.913
57DAP/7DAP	1.50183	0.204

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87827	0.122
17DAP/reference	0.71735	0.021
27DAP/reference	0.7804	0.02
39DAP/reference	0.91639	0.198
41DAP/reference	0.89021	0.111
42DAP/reference	0.76512	0.029
43DAP/reference	0.72833	0.032
47DAP/reference	0.85788	0.101
52DAP/reference	0.73931	0.026
57DAP/reference	0.77744	0.042

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0503	0.776
17DAP/reference	1.0162	0.979
27DAP/reference	0.92554	0.327
39DAP/reference	0.81549	0.058
41DAP/reference	0.73807	0.007
42DAP/reference	0.91729	0.169
43DAP/reference	1.01655	1
47DAP/reference	0.87852	0.038
52DAP/reference	0.87173	0.078
57DAP/reference	1.00015	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81711	0.054
17DAP/reference	0.89734	0.167
27DAP/reference	0.80019	0.041
39DAP/reference	0.73107	0.009
41DAP/reference	0.92109	0.331
42DAP/reference	0.8266	0.059
43DAP/reference	0.91997	0.131
47DAP/reference	1.01273	1
52DAP/reference	0.83596	0.289
57DAP/reference	0.87486	0.109

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11571	0.966
26DAP/20DAP	1.04721	1
34DAP/26DAP	1.17499	1
51DAP/34DAP	1.28494	0.785
52DAP/51DAP	1.08785	0.848
53DAP/52DAP	0.95161	0.876
55DAP/53DAP	0.93411	0.709
57DAP/55DAP	0.87009	0.612
62DAP/57DAP	1.35276	1
68DAP/62DAP	0.67852	0.29
68DAP/14DAP	0.78603	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.75487	0.105

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.26715	0.068
Mature Green Tomato/Ripe Tomato	0.20721	0.017
Immature Eggplant/Mature Eggplant	1.0982	0.554
Ripe Pepper/Ripe Tomato	1.06618	1
Mature Eggplant/Ripe Tomato	0.15601	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.57492	0.742
1-1-2/M82	1.12256	1
12-2/M82	0.90849
12-4/M82	1.25736	1
1-3/M82	1.48711	0.248
2-1-1/M82	1.02027	1
2-1/M82	1.52244
2-6/M82	0.69078	1
3-2/M82	1.66502	0.84
4-1-1/M82	0.95302	1
4-1/M82	1.31612	1
4-3-2/M82	0.93276	1
4-3/M82	1.54269	1
5-3/M82	0.94946	1
6-2/M82	1.08838	1
6-3/M82	1.0996	1
7-1/M82	1.10984	1
7-2/M82	1.12094	1
9-3-2/M82	1.03466	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.29491
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.88702
IL1-4/WTpooled	1.22424	1
WT/WTpooled	1.05281	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	0.91725	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01947	0.921
DC3000/delta hrp 6h	0.92495	0.95
DC3000/delta hrp 12h	0.97606	1
DC3000/delta hrp 24h	0.81971	0.198

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.84924	0.042
DC3000 delta B/DC3000 delta AB	0.81918	0.157

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03942	1
Exp 36h	0.89579	0.82
Exp 60h	0.9224	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00473	1
Var 0h	1.0372	1
Var 12h I row2-row1	0.92809	0.627
Var 12h NI row2-row1	1.18349	0.649
Var 36h I row2-row1	0.88938	1
Var 36h NI row2-row1	1.19758	1
Var 60h I row2-row1	0.82921	0.832
Var 60h NI row2-row1	1.04308	1
Time course 0hI-0hNI	1.07728	0.799
Time course 12hI-12hNI	0.92506	0.337
Time course 36hI-36hNI	0.93323	0.265
Time course 60hI-60hNI	0.74621	0.026

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)	1.17249	0.245
transgenic ySAMdc/azygous control (breaker)	1.05903	1
transgenic ySAMdc/azygous control (red)	1.07943	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00001	0.967

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8475	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.69826	0.087
Manapal/WT (break)	0.99334	1
Manapal/WT (red)	1.19352	0.413