Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.7.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99949	0.919
27DAP/17DAP	1.05786	1
39DAP/27DAP	1.31622	0.38
41DAP/39DAP	0.77572	0.26
42DAP/41DAP	1.00712	1
43DAP/42DAP	0.93802	0.867
47DAP/43DAP	1.11602	0.555
52DAP/47DAP	0.99066	0.81
57DAP/52DAP	1.11517	0.853

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.39207	0.097
17DAP/reference	1.26973	0.02
27DAP/reference	1.17461	0.118
39DAP/reference	1.30511	0.018
41DAP/reference	1.50354	0.014
42DAP/reference	1.20661	0.037
43DAP/reference	1.14176	0.382
47DAP/reference	0.97446	0.392
52DAP/reference	1.14497	0.242
57DAP/reference	0.80063	0.028

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81675	0.07
27DAP/17DAP	0.92685	0.508
39DAP/27DAP	1.10305	0.347
41DAP/39DAP	0.98268	0.986
42DAP/41DAP	1.06092	0.904
43DAP/42DAP	1.01202	1
47DAP/43DAP	1.00161	0.985
52DAP/47DAP	1.10127	0.724
57DAP/52DAP	1.06805	0.777
57DAP/7DAP	0.6566	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12809	0.268
17DAP/reference	1.04841	1
27DAP/reference	1.01868	0.571
39DAP/reference	0.93274	0.146
41DAP/reference	0.93652	0.341
42DAP/reference	1.05753	0.534
43DAP/reference	0.99797	0.727
47DAP/reference	1.14518	0.229
52DAP/reference	1.17066	0.401
57DAP/reference	1.05913	0.799

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32777	0.097
17DAP/reference	1.72304	0.007
27DAP/reference	1.55774	0.02
39DAP/reference	1.33546	0.013
41DAP/reference	1.35252	0.039
42DAP/reference	1.18739	0.509
43DAP/reference	1.40543	0.293
47DAP/reference	1.10875	0.366
52DAP/reference	1.50612	0.014
57DAP/reference	1.58311	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05443	0.804
17DAP/reference	1.02601	0.924
27DAP/reference	0.91116	0.397
39DAP/reference	1.01441	0.819
41DAP/reference	1.09508	0.455
42DAP/reference	0.98017	0.671
43DAP/reference	1.12245	0.439
47DAP/reference	1.01736	1
52DAP/reference	1.13361	0.534
57DAP/reference	0.93623	0.366

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.78139	0.787
26DAP/20DAP	1.0246	1
34DAP/26DAP	1.05931	1
51DAP/34DAP	0.90774	0.436
52DAP/51DAP	1.33401	0.048
53DAP/52DAP	1.01957	1
55DAP/53DAP	1.09057	0.584
57DAP/55DAP	1.10936	0.764
62DAP/57DAP	0.8913	0.871
68DAP/62DAP	1.04464	0.939
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.5233	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.44046	0.058
Mature Green Tomato/Ripe Tomato	1.02222	0.898
Immature Eggplant/Mature Eggplant	1.03188	0.633
Ripe Pepper/Ripe Tomato	1.01962	1
Mature Eggplant/Ripe Tomato	1.27446	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.85958	0.907
1-1-2/M82	1.08581	1
12-2/M82	0.6687	0.862
12-4/M82	1.16749	1
1-3/M82	N/A	N/A
2-1-1/M82	0.98747	1
2-1/M82	0.90105	0.322
2-6/M82	1.04566	0.695
3-2/M82	1.78412
4-1-1/M82	1.83365	0.977
4-1/M82	0.898
4-3-2/M82	0.96158
4-3/M82	1.40966	1
5-3/M82	1.20403	1
6-2/M82	1.57632	0.253
6-3/M82	0.95489	1
7-1/M82	1.09564	1
7-2/M82	1.25941	1
9-3-2/M82	N/A	N/A

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	N/A	N/A

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	0.85443	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02003	1
DC3000/delta hrp 6h	1.05577	1
DC3000/delta hrp 12h	1.16878	1
DC3000/delta hrp 24h	1.224	0.264

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.6563	0.025
DC3000 delta B/DC3000 delta AB	0.57236	0.02

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	0.9696	1
Var 0h	0.47346	1
Var 12h I row2-row1	0.78302	0.338
Var 12h NI row2-row1	0.88559	0.367
Var 36h I row2-row1	1.08189	1
Var 36h NI row2-row1	1.02318	1
Var 60h I row2-row1	1.00721	1
Var 60h NI row2-row1	1.28998	0.904
Time course 0hI-0hNI	0.98906	1
Time course 12hI-12hNI	0.9205	0.298
Time course 36hI-36hNI	0.70689	0.023
Time course 60hI-60hNI	0.21817	0.005

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)	1.11929	0.321
transgenic ySAMdc/azygous control (breaker)	1.28738	1
transgenic ySAMdc/azygous control (red)	1.00157	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.89426	0.227

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.44571	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.69634	0.172
Manapal/WT (break)	0.83791	1
Manapal/WT (red)	1.00332	1