Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.6.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.32938	0.867
27DAP/17DAP	1.55835	0.881
39DAP/27DAP	2.16486	0.927
41DAP/39DAP	1.33702	0.837
42DAP/41DAP	0.96613	1
43DAP/42DAP	2.35126	0.962
47DAP/43DAP	2.08804	0.733
52DAP/47DAP	1.60689	0.787
57DAP/52DAP	1.84255	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93845	0.211
17DAP/reference	0.99039	0.819
27DAP/reference	0.95559	0.24
39DAP/reference	1.01313	0.842
41DAP/reference	0.98023	0.667
42DAP/reference	0.95648	0.169
43DAP/reference	1.12476	0.047
47DAP/reference	1.13964	0.027
52DAP/reference	1.12163	0.079
57DAP/reference	1.02182	0.704

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95154	0.613
27DAP/17DAP	0.96324	0.782
39DAP/27DAP	1.03477	0.626
41DAP/39DAP	1.04987	0.883
42DAP/41DAP	0.99152	0.853
43DAP/42DAP	1.19136	0.017
47DAP/43DAP	1.00663	1
52DAP/47DAP	0.99564	0.969
57DAP/52DAP	0.94974	0.558
57DAP/7DAP	1.01957	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13216	0.274
17DAP/reference	1.03776	1
27DAP/reference	1.02694	1
39DAP/reference	0.95459	0.411
41DAP/reference	1.07931	0.56
42DAP/reference	1.07684	0.889
43DAP/reference	1.13076	0.256
47DAP/reference	0.85825	0.168
52DAP/reference	1.1295	0.941
57DAP/reference	1.18904	0.031

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99072	0.831
17DAP/reference	0.89306	0.063
27DAP/reference	1.04391	1
39DAP/reference	1.0504	0.806
41DAP/reference	0.99974	0.666
42DAP/reference	0.86977	0.028
43DAP/reference	0.98632	0.706
47DAP/reference	0.90481	0.021
52DAP/reference	1.02857	0.629
57DAP/reference	1.06782	0.538

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06169	1
17DAP/reference	0.8793	0.112
27DAP/reference	1.2154	0.903
39DAP/reference	0.94044	0.591
41DAP/reference	1.09354	1
42DAP/reference	0.85478	0.22
43DAP/reference	1.04672	0.923
47DAP/reference	1.56953	0.005
52DAP/reference	1.80342	0.03
57DAP/reference	1.34751	0.141

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89272	0.733
26DAP/20DAP	0.87216	0.317
34DAP/26DAP	0.92378	0.712
51DAP/34DAP	0.99107	0.917
52DAP/51DAP	1.00661	0.915
53DAP/52DAP	1.04181	0.662
55DAP/53DAP	0.99237	0.894
57DAP/55DAP	0.94045	0.718
62DAP/57DAP	0.8856	0.466
68DAP/62DAP	0.89538	0.641
68DAP/14DAP	1.09305	0.785

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.88383	0.137

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.31817	0.073
Mature Green Tomato/Ripe Tomato	0.80187	0.317
Immature Eggplant/Mature Eggplant	1.18467
Ripe Pepper/Ripe Tomato	0.53357	0.224
Mature Eggplant/Ripe Tomato	0.4081	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.78494	0.944
1-1-2/M82	1.03837	1
12-2/M82	0.52322	0.862
12-4/M82	1.10927	0.611
1-3/M82	0.90883	1
2-1-1/M82	1.39851
2-1/M82	N/A	N/A
2-6/M82	0.99113	1
3-2/M82	1.05419
4-1-1/M82	0.43538	1
4-1/M82	0.46142	0.737
4-3-2/M82	0.74009	0.487
4-3/M82	0.8425	1
5-3/M82	1.08755	1
6-2/M82	N/A	N/A
6-3/M82	0.94204	1
7-1/M82	1.52416
7-2/M82	1.01346	1
9-3-2/M82	0.26898

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.4018
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.90996	0.71
IL1-4/WTpooled	1.08777	1
WT/WTpooled	0.92129	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	2.58026	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0429	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.11952	1
DC3000/delta hrp 24h	1.22829	0.567

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.00823	1
DC3000 delta B/DC3000 delta AB	1.02299	0.687

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	0.9706	1
Var 0h	0.85044	0.933
Var 12h I row2-row1	1.18625	0.22
Var 12h NI row2-row1	0.94887	0.713
Var 36h I row2-row1	0.88933	1
Var 36h NI row2-row1	0.98622	0.852
Var 60h I row2-row1	1.26927	1
Var 60h NI row2-row1	1.17624	0.904
Time course 0hI-0hNI	1.08208	0.833
Time course 12hI-12hNI	1.0945	0.44
Time course 36hI-36hNI	1.47907	0.006
Time course 60hI-60hNI	1.76409	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)	1.18482	0.511
transgenic ySAMdc/azygous control (breaker)	0.71149	0.131
transgenic ySAMdc/azygous control (red)	1.2379	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01437	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05728	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.58695	0.084
Manapal/WT (break)	1.28712	1
Manapal/WT (red)	1.201	0.222