Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.4.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76884	0.169
27DAP/17DAP	0.99572	0.952
39DAP/27DAP	1.23434	0.408
41DAP/39DAP	0.95587	0.824
42DAP/41DAP	1.01019	1
43DAP/42DAP	0.92271	0.788
47DAP/43DAP	1.0129	0.934
52DAP/47DAP	0.98401	0.786
57DAP/52DAP	1.01599	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04052	0.421
17DAP/reference	1.0592	0.27
27DAP/reference	1.01305	0.996
39DAP/reference	1.0224	0.581
41DAP/reference	1.0053	1
42DAP/reference	0.8765	0.005
43DAP/reference	1.00371	1
47DAP/reference	0.95201	0.127
52DAP/reference	1.02269	0.991
57DAP/reference	1.02879	0.744

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.68957	0.048
27DAP/17DAP	0.85139	0.218
39DAP/27DAP	1.1102	0.422
41DAP/39DAP	0.78323	0.08
42DAP/41DAP	1.02522	1
43DAP/42DAP	1.00419	0.991
47DAP/43DAP	0.98586	0.93
52DAP/47DAP	1.0682	0.9
57DAP/52DAP	1.0865	0.726
57DAP/7DAP	0.87078	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34619	0.03
17DAP/reference	1.19845	0.102
27DAP/reference	1.20142	0.008
39DAP/reference	1.12278	0.062
41DAP/reference	1.18335	0.101
42DAP/reference	1.23231	0.013
43DAP/reference	1.01407	0.873
47DAP/reference	1.02808	1
52DAP/reference	1.24909	0.041
57DAP/reference	1.13001	0.288

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13396	0.33
17DAP/reference	0.81578	0.052
27DAP/reference	0.923	0.181
39DAP/reference	0.99563	0.642
41DAP/reference	0.99827	0.615
42DAP/reference	0.75084	0.013
43DAP/reference	0.97976	0.646
47DAP/reference	0.83908	0.016
52DAP/reference	1.02999	0.882
57DAP/reference	1.16653	0.353

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.37678	0.024
17DAP/reference	0.95482	0.55
27DAP/reference	0.92237	0.14
39DAP/reference	1.07064	0.483
41DAP/reference	1.11456	0.174
42DAP/reference	0.98773	0.816
43DAP/reference	0.95737	0.468
47DAP/reference	0.85168	0.049
52DAP/reference	0.94316	0.493
57DAP/reference	0.77578	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05188	0.966
26DAP/20DAP	1.81548	0.196
34DAP/26DAP	0.94037	0.927
51DAP/34DAP	0.95325	0.779
52DAP/51DAP	1.06794	0.606
53DAP/52DAP	1.024	0.978
55DAP/53DAP	0.96664	0.784
57DAP/55DAP	1.04091	1
62DAP/57DAP	0.97671	0.871
68DAP/62DAP	1.00422	0.914
68DAP/14DAP	1.25352	0.558

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86609	0.122

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.16507
Mature Green Tomato/Ripe Tomato	1.74955	0.752
Immature Eggplant/Mature Eggplant	0.24666	0.062
Ripe Pepper/Ripe Tomato	1.38364
Mature Eggplant/Ripe Tomato	4.50266	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89892	0.736
1-1-2/M82	0.85082	0.958
12-2/M82	1.06505	1
12-4/M82	0.97397	1
1-3/M82	0.93209	0.501
2-1-1/M82	1.06884	0.764
2-1/M82	1.02364
2-6/M82	1.03876	0.695
3-2/M82	1.05169
4-1-1/M82	0.91677	1
4-1/M82	1.1985
4-3-2/M82	1.13889
4-3/M82	0.88451	1
5-3/M82	0.94671	1
6-2/M82	1.1305	1
6-3/M82	0.96668	1
7-1/M82	1.08728	0.87
7-2/M82	1.03488	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.61413	0.321
IL2-6/WTpooled	1.18763	0.456
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.7185	0.418
IL12-4/WTpooled	0.72508	0.478
IL1-4/WTpooled	1.03663	1
WT/WTpooled	1.0752	0.999

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	0.86394	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96035	1
DC3000/delta hrp 6h	1.00331	0.95
DC3000/delta hrp 12h	1.15796	1
DC3000/delta hrp 24h	0.96675	0.782

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	1.06178	0.687

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.79206	1
Exp 36h	1.04671	1
Exp 60h	1.00823	1

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	1.08339	0.98
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
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	0.63836
Time course 36hI-36hNI	N/A	N/A
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)	1.28851	0.213
transgenic ySAMdc/azygous control (breaker)	0.73112	0.251
transgenic ySAMdc/azygous control (red)	0.89787	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01203	0.656

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04818	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.19889	0.096
Manapal/WT (break)	1.14697	1
Manapal/WT (red)	1.28334	0.222