Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.2.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02534	0.713
27DAP/17DAP	0.97418	0.889
39DAP/27DAP	1.57934	0.173
41DAP/39DAP	0.85778	0.555
42DAP/41DAP	0.98948	1
43DAP/42DAP	0.96463	0.9
47DAP/43DAP	0.90101	0.625
52DAP/47DAP	1.21396	0.922
57DAP/52DAP	1.22982	0.892

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14199	0.154
17DAP/reference	0.93413	0.321
27DAP/reference	0.9251	0.314
39DAP/reference	1.04554	0.706
41DAP/reference	0.94793	0.542
42DAP/reference	1.12366	0.093
43DAP/reference	1.01521	0.899
47DAP/reference	1.06318	0.558
52DAP/reference	0.96913	0.475
57DAP/reference	1.01402	0.876

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08655	0.847
27DAP/17DAP	0.94116	0.821
39DAP/27DAP	1.2895	0.262
41DAP/39DAP	0.75361	0.361
42DAP/41DAP	1.0203	1
43DAP/42DAP	1.11279	0.788
47DAP/43DAP	0.91815	0.677
52DAP/47DAP	0.88787	0.677
57DAP/52DAP	1.04185	0.874
57DAP/7DAP	0.82698

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90023	0.246
17DAP/reference	1.02191	0.971
27DAP/reference	0.95068	0.264
39DAP/reference	1.05234	0.705
41DAP/reference	0.88524	0.086
42DAP/reference	1.12024	0.686
43DAP/reference	0.96127	0.403
47DAP/reference	0.91755	0.293
52DAP/reference	1.19963	0.105
57DAP/reference	0.70258	0.019

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13041	0.355
17DAP/reference	1.06126	0.739
27DAP/reference	0.94147	0.304
39DAP/reference	0.95496	0.416
41DAP/reference	0.9255	0.164
42DAP/reference	1.0567	0.777
43DAP/reference	1.05487	0.704
47DAP/reference	1.11817	0.353
52DAP/reference	0.87249	0.156
57DAP/reference	1.12613	0.552

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0526	0.444
17DAP/reference	1.06158	1
27DAP/reference	0.82647	0.063
39DAP/reference	0.81421	0.063
41DAP/reference	1.1039	0.57
42DAP/reference	1.18842	0.138
43DAP/reference	1.13634	0.59
47DAP/reference	0.86402	0.017
52DAP/reference	0.78439	0.102
57DAP/reference	0.98609	0.633

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0779	0.966
26DAP/20DAP	0.63825
34DAP/26DAP	1.16253
51DAP/34DAP	0.58369	0.056
52DAP/51DAP	1.26256	0.596
53DAP/52DAP	1.1065	0.91
55DAP/53DAP	0.97123	0.807
57DAP/55DAP	1.00231
62DAP/57DAP	0.88226	0.681
68DAP/62DAP	1.13857	0.872
68DAP/14DAP	1.23027	0.694

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.79328	0.186

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.66043	0.026
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.8247

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.25159	1
12-2/M82	N/A	N/A
12-4/M82	0.87743	0.33
1-3/M82	N/A	N/A
2-1-1/M82	0.55303
2-1/M82	N/A	N/A
2-6/M82	0.83634
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.8128	0.49
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.3045
7-2/M82	1.63439
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95533	1
IL2-6/WTpooled	1.90687	0.427
IL7-5/WTpooled	1.649	0.792
IL7-3/WTpooled	1.26227	1
IL12-4/WTpooled	1.20924	0.595
IL1-4/WTpooled	0.66571	0.699
WT/WTpooled	1.01657	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	0.89263	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08174	0.846
DC3000/delta hrp 6h	1.04062	0.95
DC3000/delta hrp 12h	1.12294	1
DC3000/delta hrp 24h	0.43922	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.17191
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.1672	1
Exp 60h	0.70329	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96135	1
Var 0h	0.54023	0.98
Var 12h I row2-row1	1.06342	0.795
Var 12h NI row2-row1	1.10484	0.34
Var 36h I row2-row1	0.88412	0.438
Var 36h NI row2-row1	0.91758	0.329
Var 60h I row2-row1	1.46319	0.562
Var 60h NI row2-row1	0.8507	0.458
Time course 0hI-0hNI	0.95942	0.687
Time course 12hI-12hNI	0.87787	0.181
Time course 36hI-36hNI	1.04277	0.975
Time course 60hI-60hNI	0.6013	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)	0.93313	0.348
transgenic ySAMdc/azygous control (breaker)	1.22604	0.248
transgenic ySAMdc/azygous control (red)	1.10301	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97472	0.231

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.55259	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.16948	0.307
Manapal/WT (break)	1.29035	0.183
Manapal/WT (red)	1.03654	1