Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.14.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04195	0.927
27DAP/17DAP	1.00088	1
39DAP/27DAP	1.23501	0.681
41DAP/39DAP	1.42976	0.27
42DAP/41DAP	0.93648	1
43DAP/42DAP	0.81371	0.572
47DAP/43DAP	0.97265	0.696
52DAP/47DAP	1.39212	0.43
57DAP/52DAP	0.82443	0.777

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94888	0.293
17DAP/reference	1.06125	0.201
27DAP/reference	0.98019	0.642
39DAP/reference	0.99275	0.855
41DAP/reference	1.10023	0.054
42DAP/reference	0.98941	0.469
43DAP/reference	1.10558	0.057
47DAP/reference	0.9576	0.258
52DAP/reference	0.94659	0.215
57DAP/reference	0.93572	0.078

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03834	0.947
27DAP/17DAP	0.96027	0.878
39DAP/27DAP	1.00604	0.977
41DAP/39DAP	0.95757	0.945
42DAP/41DAP	1.0388	0.904
43DAP/42DAP	1.02337	0.699
47DAP/43DAP	1.09802	0.456
52DAP/47DAP	1.00945	0.93
57DAP/52DAP	0.91991	0.537
57DAP/7DAP	1.06871	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93268	0.129
17DAP/reference	0.88728	0.011
27DAP/reference	0.94094	0.026
39DAP/reference	0.87125	0.016
41DAP/reference	0.79436	0.036
42DAP/reference	0.8059	0.011
43DAP/reference	1.64446	0.788
47DAP/reference	0.87938	0.293
52DAP/reference	0.81326	0.033
57DAP/reference	0.79026	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12864	0.304
17DAP/reference	1.08206	0.415
27DAP/reference	0.97201	0.519
39DAP/reference	0.83163	0.129
41DAP/reference	0.96225	0.364
42DAP/reference	0.89372	0.237
43DAP/reference	1.3175	0.024
47DAP/reference	0.99412	0.66
52DAP/reference	0.96859	0.433
57DAP/reference	1.40258	0.127

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93491	0.05
17DAP/reference	1.04165	0.578
27DAP/reference	0.94796	0.23
39DAP/reference	0.92463	0.058
41DAP/reference	0.91046	0.058
42DAP/reference	0.90833	0.287
43DAP/reference	0.83714	0.056
47DAP/reference	1.00179	0.687
52DAP/reference	1.05046	0.705
57DAP/reference	0.73358	0.052

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01377	1
26DAP/20DAP	0.93585	1
34DAP/26DAP	1.36738	0.819
51DAP/34DAP	0.85147	0.504
52DAP/51DAP	1.16735	0.186
53DAP/52DAP	1.12982	0.643
55DAP/53DAP	1.19133	0.065
57DAP/55DAP	0.82575	0.398
62DAP/57DAP	1.07451	1
68DAP/62DAP	0.92315	0.722
68DAP/14DAP	0.75303	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.20806	0.246

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.09919	0.113
Mature Green Tomato/Ripe Tomato	0.81393	0.256
Immature Eggplant/Mature Eggplant	0.79806	0.081
Ripe Pepper/Ripe Tomato	1.49809	1
Mature Eggplant/Ripe Tomato	1.75043	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9518	0.616
1-1-2/M82	0.92144
12-2/M82	1.12772	0.61
12-4/M82	1.08849	1
1-3/M82	0.81163	0.378
2-1-1/M82	1.9131
2-1/M82	N/A	N/A
2-6/M82	1.02119	1
3-2/M82	1.06803
4-1-1/M82	1.15705	1
4-1/M82	1.52625
4-3-2/M82	0.98613
4-3/M82	0.80829
5-3/M82	0.94461	0.395
6-2/M82	N/A	N/A
6-3/M82	1.03243
7-1/M82	0.90478
7-2/M82	1.08355
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.61159	0.277
IL2-6/WTpooled	1.21555	0.584
IL7-5/WTpooled	0.61781
IL7-3/WTpooled	0.97683	1
IL12-4/WTpooled	0.99237	1
IL1-4/WTpooled	1.04774	1
WT/WTpooled	1.00052	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	0.93253	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98407	1
DC3000/delta hrp 6h	0.92414	0.95
DC3000/delta hrp 12h	1.02924	1
DC3000/delta hrp 24h	0.91278	0.403

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	1.25624	0.479

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09809	1
Exp 36h	0.63198	0.661
Exp 60h	1.08005	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.12989
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	1.0608	0.161
Var 36h I row2-row1	0.97316
Var 36h NI row2-row1	0.88667
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	1.12741
Time course 60hI-60hNI	N/A	N/A

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)	0.94721	0.32
transgenic ySAMdc/azygous control (breaker)	1.17071	0.178
transgenic ySAMdc/azygous control (red)	1.00163	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01028	0.656

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.17817	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98075	1
Manapal/WT (break)	1.2826	1
Manapal/WT (red)	0.98972	0.863