Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.19.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02285	0.997
27DAP/17DAP	1.32524	0.699
39DAP/27DAP	1.09415	0.8
41DAP/39DAP	1.17907	0.56
42DAP/41DAP	1.46723	0.619
43DAP/42DAP	0.97888	0.925
47DAP/43DAP	0.96909	0.876
52DAP/47DAP	1.06282	0.913
57DAP/52DAP	1.01509	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.4259	0.016
17DAP/reference	1.36372	0.012
27DAP/reference	1.19132	0.599
39DAP/reference	1.513	0.01
41DAP/reference	1.11537	0.667
42DAP/reference	1.21436	0.276
43DAP/reference	1.37432
47DAP/reference	1.31824	0.685
52DAP/reference	1.02363	0.636
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01954	0.858
27DAP/17DAP	1.01584	0.957
39DAP/27DAP	1.06775	0.505
41DAP/39DAP	0.97675	0.959
42DAP/41DAP	1.0319	0.727
43DAP/42DAP	0.9916	0.928
47DAP/43DAP	0.98533	0.923
52DAP/47DAP	1.03224	0.862
57DAP/52DAP	1.01965	0.957
57DAP/7DAP	1.12748	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86458	0.058
17DAP/reference	0.96093	0.22
27DAP/reference	0.92414	0.014
39DAP/reference	0.97507	0.17
41DAP/reference	0.95935	0.247
42DAP/reference	1.02065	0.889
43DAP/reference	0.9951	0.608
47DAP/reference	1.07444	0.504
52DAP/reference	0.90888	0.09
57DAP/reference	0.95656	0.074

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.078	0.597
17DAP/reference	1.21326	0.143
27DAP/reference	1.17658	0.38
39DAP/reference	1.12622	0.412
41DAP/reference	1.10184	0.587
42DAP/reference	1.42677	0.012
43DAP/reference	1.27834	0.038
47DAP/reference	1.26847	0.03
52DAP/reference	1.26376	0.017
57DAP/reference	1.38307	0.019

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91041	0.03
17DAP/reference	1.10761	0.563
27DAP/reference	1.02436	0.871
39DAP/reference	1.02536	0.858
41DAP/reference	0.97377	0.459
42DAP/reference	1.02597	0.692
43DAP/reference	1.15297	0.291
47DAP/reference	1.29996	0.053
52DAP/reference	0.98515	0.763
57DAP/reference	0.84939	0.083

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03694	1
26DAP/20DAP	0.91629	0.512
34DAP/26DAP	0.9627	0.909
51DAP/34DAP	0.98265	0.824
52DAP/51DAP	0.97246	1
53DAP/52DAP	1.07067	0.662
55DAP/53DAP	1.0868	0.429
57DAP/55DAP	1.05118	0.915
62DAP/57DAP	1.13881	0.8
68DAP/62DAP	0.74449	0.314
68DAP/14DAP	0.68079	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09345	0.028

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.03899	0.948
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.0666	0.224
Mature Eggplant/Ripe Tomato	0.11332	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06106	0.877
1-1-2/M82	1.00323	1
12-2/M82	1.01336	1
12-4/M82	1.04236	1
1-3/M82	0.96847	1
2-1-1/M82	1.16139	0.764
2-1/M82	1.0281
2-6/M82	0.99164	1
3-2/M82	1.28567	0.549
4-1-1/M82	1.04948	1
4-1/M82	1.43291	0.853
4-3-2/M82	0.89476	0.487
4-3/M82	1.13135	1
5-3/M82	0.9324	1
6-2/M82	0.94713	1
6-3/M82	0.98737	1
7-1/M82	1.01939
7-2/M82	1.09241	0.385
9-3-2/M82	0.96167	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.70217	0.277
IL2-6/WTpooled	0.68955	0.348
IL7-5/WTpooled	0.89264	1
IL7-3/WTpooled	1.30842	0.362
IL12-4/WTpooled	1.209	0.432
IL1-4/WTpooled	1.26059	1
WT/WTpooled	1.01989	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	0.76655	0.209

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96108	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.12371	1
DC3000/delta hrp 24h	1.07792	0.535

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.10531	0.102
DC3000 delta B/DC3000 delta AB	1.1128	0.353

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	1.11571	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00056	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.1144	0.348
Var 12h NI row2-row1	0.99023	1
Var 36h I row2-row1	0.9218	1
Var 36h NI row2-row1	1.05229	1
Var 60h I row2-row1	1.40688	1
Var 60h NI row2-row1	1.19913	0.904
Time course 0hI-0hNI	1.06685	0.852
Time course 12hI-12hNI	1.03943	0.81
Time course 36hI-36hNI	1.00274	0.89
Time course 60hI-60hNI	1.16965	0.037

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)	0.92305	0.454
transgenic ySAMdc/azygous control (breaker)	0.83665	0.49
transgenic ySAMdc/azygous control (red)	0.92888	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92604	0.214

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00349	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.07549	1