Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.17.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14639	0.63
27DAP/17DAP	1.18961	0.847
39DAP/27DAP	0.99231	0.782
41DAP/39DAP	1.0384	0.85
42DAP/41DAP	1.71203	0.203
43DAP/42DAP	0.88573	0.787
47DAP/43DAP	1.23148	0.369
52DAP/47DAP	1.02919	0.942
57DAP/52DAP	1.55633	0.843

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21862	0.366
17DAP/reference	0.85868	0.278
27DAP/reference	1.32129	0.056
39DAP/reference	1.22476	0.249
41DAP/reference	1.42586	0.014
42DAP/reference	1.25726	0.012
43DAP/reference	1.10511	0.518
47DAP/reference	1.03331	0.646
52DAP/reference	1.23826	0.476
57DAP/reference	0.99893	0.736

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.42623	0.151
27DAP/17DAP	1.09912	0.9
39DAP/27DAP	1.05618	0.654
41DAP/39DAP	1.02095	0.914
42DAP/41DAP	0.76703	0.009
43DAP/42DAP	1.01398	1
47DAP/43DAP	1.01158	0.973
52DAP/47DAP	1.14929	0.779
57DAP/52DAP	1.32576	0.298
57DAP/7DAP	1.13791	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96	0.495
17DAP/reference	0.83194	0.039
27DAP/reference	1.02168	1
39DAP/reference	0.72626	0.011
41DAP/reference	0.78953	0.067
42DAP/reference	0.95088	0.304
43DAP/reference	0.7396	0.011
47DAP/reference	1.11265	0.318
52DAP/reference	0.84661	0.016
57DAP/reference	0.81221	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97246	0.706
17DAP/reference	0.89159	0.287
27DAP/reference	1.18193	0.692
39DAP/reference	1.10578	1
41DAP/reference	1.01306	0.545
42DAP/reference	1.26214	0.037
43DAP/reference	1.39905	0.185
47DAP/reference	1.14908	0.301
52DAP/reference	1.42464	0.027
57DAP/reference	0.91283	0.259

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82593	0.034
17DAP/reference	0.98292	0.658
27DAP/reference	0.80529	0.052
39DAP/reference	0.92397	0.222
41DAP/reference	1.0859	0.867
42DAP/reference	1.20253	0.692
43DAP/reference	1.02489	0.767
47DAP/reference	1.30523	0.14
52DAP/reference	0.74638	0.089
57DAP/reference	1.53633	0.124

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04264	1
26DAP/20DAP	1.23937	0.256
34DAP/26DAP	0.96211	0.944
51DAP/34DAP	1.28391	0.597
52DAP/51DAP	0.96008	1
53DAP/52DAP	0.9929	0.951
55DAP/53DAP	1.10495	0.981
57DAP/55DAP	1.12812	0.543
62DAP/57DAP	0.94441	0.871
68DAP/62DAP	0.90638	0.722
68DAP/14DAP	1.53939

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.1559	0.246

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.85472	0.377
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.07837
Mature Eggplant/Ripe Tomato	0.79715	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99156	1
1-1-2/M82	1.09383	1
12-2/M82	0.84542	0.955
12-4/M82	0.79726
1-3/M82	1.72448
2-1-1/M82	1.20859	0.284
2-1/M82	0.88059	0.519
2-6/M82	1.09248	1
3-2/M82	1.20494	0.717
4-1-1/M82	1.27497
4-1/M82	0.8445
4-3-2/M82	1.22217	0.241
4-3/M82	1.16591	1
5-3/M82	0.9947	1
6-2/M82	1.13176	0.235
6-3/M82	0.65597
7-1/M82	0.96195	1
7-2/M82	1.21994	0.291
9-3-2/M82	1.17401	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.67826	0.243
IL2-6/WTpooled	1.11282	1
IL7-5/WTpooled	0.57191	1
IL7-3/WTpooled	0.87961	1
IL12-4/WTpooled	1.12122	0.52
IL1-4/WTpooled	0.80168	0.562
WT/WTpooled	1.06555	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	1.00656	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03311	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.96772	0.794

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
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	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	1.01789	1
Var 0h	1.43536	0.98
Var 12h I row2-row1	1.12061	0.406
Var 12h NI row2-row1	0.9147	0.82
Var 36h I row2-row1	1.02381	1
Var 36h NI row2-row1	1.07189	1
Var 60h I row2-row1	1.05913	1
Var 60h NI row2-row1	0.91718	0.866
Time course 0hI-0hNI	1.06324	0.719
Time course 12hI-12hNI	0.976	0.841
Time course 36hI-36hNI	0.89742	0.104
Time course 60hI-60hNI	0.87242	0.047

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.14425	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.90408	0.299
Manapal/WT (red)	1.04755	1