Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.17.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98029	0.779
27DAP/17DAP	1.62085	0.587
39DAP/27DAP	2.71302	0.315
41DAP/39DAP	1.25603	0.185
42DAP/41DAP	1.13126	0.962
43DAP/42DAP	1.1802	0.861
47DAP/43DAP	1.15062	0.52
52DAP/47DAP	1.16917	0.683
57DAP/52DAP	1.66124	0.427

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.64194	0.024
17DAP/reference	0.84417	0.008
27DAP/reference	0.81084	0.012
39DAP/reference	1.12278	0.639
41DAP/reference	0.97856	0.667
42DAP/reference	1.38849	0.001
43DAP/reference	1.164	0.018
47DAP/reference	2.12841	0.001
52DAP/reference	1.27547	0.069
57DAP/reference	1.32288	0.019

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85846	0.194
27DAP/17DAP	1.09064	0.817
39DAP/27DAP	1.27269	0.173
41DAP/39DAP	0.66712	0.013
42DAP/41DAP	1.01182	1
43DAP/42DAP	1.05704	0.585
47DAP/43DAP	1.11682	0.281
52DAP/47DAP	0.92797	0.778
57DAP/52DAP	1.20036	0.431
57DAP/7DAP	1.97443	0.22

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.59767	0.059
17DAP/reference	0.66211	0.014
27DAP/reference	0.78035	0.011
39DAP/reference	0.93002	0.264
41DAP/reference	1.34953	0.066
42DAP/reference	1.12595	0.308
43DAP/reference	0.89466	0.086
47DAP/reference	1.01812	1
52DAP/reference	1.05184	0.526
57DAP/reference	1.80396	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76414	0.012
17DAP/reference	0.78185	0.007
27DAP/reference	0.88299	0.129
39DAP/reference	0.84223	0.02
41DAP/reference	1.19136	0.065
42DAP/reference	1.10509	0.332
43DAP/reference	1.25754	0.039
47DAP/reference	2.57567	0.012
52DAP/reference	1.33845	0.006
57DAP/reference	1.78672	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.64827	0.032
17DAP/reference	0.78841	0.1
27DAP/reference	0.75073	0.041
39DAP/reference	1.10444	0.318
41DAP/reference	1.13704	0.286
42DAP/reference	1.06478	0.893
43DAP/reference	1.31354	0.077
47DAP/reference	1.93457	0.006
52DAP/reference	1.80957	0.09
57DAP/reference	1.54465	0.204

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98185	1
26DAP/20DAP	1.41204	0.106
34DAP/26DAP	1.13849	0.819
51DAP/34DAP	2.59947	0.029
52DAP/51DAP	0.72828	0.151
53DAP/52DAP	1.11388	0.58
55DAP/53DAP	0.7553	0.058
57DAP/55DAP	0.86681	0.344
62DAP/57DAP	1.52191	0.002
68DAP/62DAP	0.7184	0.245
68DAP/14DAP	1.0068	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07088	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.04823	0.036
Mature Green Tomato/Ripe Tomato	0.49779	0.031
Immature Eggplant/Mature Eggplant	31.0759	0.05
Ripe Pepper/Ripe Tomato	2.01751	0.258
Mature Eggplant/Ripe Tomato	0.3371	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00886	1
1-1-2/M82	1.49205	1
12-2/M82	0.88066	0.639
12-4/M82	1.17719	1
1-3/M82	1.55806	0.255
2-1-1/M82	0.91258	0.683
2-1/M82	1.04914	1
2-6/M82	1.03108	0.695
3-2/M82	1.05828	0.717
4-1-1/M82	1.17282	1
4-1/M82	1.95318	1
4-3-2/M82	1.19461	0.508
4-3/M82	0.95746	1
5-3/M82	0.95954	1
6-2/M82	0.99205	1
6-3/M82	1.00769	1
7-1/M82	0.88546	0.803
7-2/M82	1.5486	0.324
9-3-2/M82	1.77589	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	1.98403

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	1.69528	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01134	1
DC3000/delta hrp 6h	0.78404	0.915
DC3000/delta hrp 12h	1.10922	1
DC3000/delta hrp 24h	1.03671	0.743

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.95526	0.841
DC3000 delta B/DC3000 delta AB	1.95788	0.081

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.24449	1
Exp 36h	1.21992	1
Exp 60h	1.2142	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97501	1
Var 0h	0.9043	0.214
Var 12h I row2-row1	0.94615	0.856
Var 12h NI row2-row1	1.42215	0.649
Var 36h I row2-row1	1.11636	1
Var 36h NI row2-row1	0.73158	0.584
Var 60h I row2-row1	0.63391	0.285
Var 60h NI row2-row1	0.66032	0.292
Time course 0hI-0hNI	1.1227	0.344
Time course 12hI-12hNI	1.34304	0.204
Time course 36hI-36hNI	3.3846	0.005
Time course 60hI-60hNI	15.482	0.008

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)	0.63842	0.315
transgenic ySAMdc/azygous control (breaker)	0.97912	1
transgenic ySAMdc/azygous control (red)	1.17687	0.92

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	1.14662	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	6.06494	0.088
Manapal/WT (break)	2.94484	0.381
Manapal/WT (red)	1.34515	0.222