Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.10.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98217	0.83
27DAP/17DAP	0.90392	0.833
39DAP/27DAP	1.02357	1
41DAP/39DAP	1.27973	0.321
42DAP/41DAP	1.02889	1
43DAP/42DAP	0.82051	0.583
47DAP/43DAP	0.84825	0.499
52DAP/47DAP	1.41823	0.52
57DAP/52DAP	0.94058	0.768

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32035	0.028
17DAP/reference	1.05615	0.427
27DAP/reference	0.97593	0.642
39DAP/reference	0.91957	0.424
41DAP/reference	1.08576	0.287
42DAP/reference	1.14425	0.011
43DAP/reference	1.06589	0.34
47DAP/reference	1.12189	0.055
52DAP/reference	1.38405	0.008
57DAP/reference	1.0331	0.405

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97893	0.75
27DAP/17DAP	1.00906	0.98
39DAP/27DAP	1.00136	1
41DAP/39DAP	0.99681	1
42DAP/41DAP	1.03727	0.687
43DAP/42DAP	1.01244	0.554
47DAP/43DAP	0.97244	0.734
52DAP/47DAP	1.00402	1
57DAP/52DAP	1.03915	0.793
57DAP/7DAP	1.0807

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05852	0.332
17DAP/reference	1.10045	0.01
27DAP/reference	1.0288	0.453
39DAP/reference	0.99822	1
41DAP/reference	1.08771	0.26
42DAP/reference	1.04522	0.233
43DAP/reference	1.13473	0.035
47DAP/reference	0.96514	0.383
52DAP/reference	0.95266	0.179
57DAP/reference	1.14801	0.022

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0659	0.337
17DAP/reference	1.25166	0.061
27DAP/reference	1.12354	0.352
39DAP/reference	1.18564	0.263
41DAP/reference	1.22207	0.248
42DAP/reference	1.16802	0.19
43DAP/reference	1.34421	0.082
47DAP/reference	1.10061	0.197
52DAP/reference	1.23541	0.021
57DAP/reference	1.1223	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10535	0.106
17DAP/reference	0.97159	0.433
27DAP/reference	0.98726	0.594
39DAP/reference	1.02424	0.342
41DAP/reference	1.05084	0.486
42DAP/reference	1.1197	0.251
43DAP/reference	1.1763	0.128
47DAP/reference	1.01452	1
52DAP/reference	0.94885	0.385
57DAP/reference	1.12304	0.175

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99922	1
26DAP/20DAP	1.06806	0.713
34DAP/26DAP	0.97395	0.954
51DAP/34DAP	0.99907	0.993
52DAP/51DAP	1.05324	0.626
53DAP/52DAP	1.30699
55DAP/53DAP	1.04993
57DAP/55DAP	0.88813	0.475
62DAP/57DAP	0.99267	1
68DAP/62DAP	1.13044	0.885
68DAP/14DAP	1.05537	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01302	0.954

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.78577	0.238
Mature Green Tomato/Ripe Tomato	0.76005	0.017
Immature Eggplant/Mature Eggplant	1.14454	0.259
Ripe Pepper/Ripe Tomato	0.6403	0.293
Mature Eggplant/Ripe Tomato	1.17519	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95357	0.944
1-1-2/M82	0.9094	1
12-2/M82	0.93524	0.955
12-4/M82	0.98588	1
1-3/M82	0.96176	0.501
2-1-1/M82	0.94398	1
2-1/M82	1.09509	1
2-6/M82	0.88711	1
3-2/M82	0.98109
4-1-1/M82	1.04982	1
4-1/M82	0.65854	1
4-3-2/M82	0.84108	0.487
4-3/M82	1.17036	1
5-3/M82	1.01431	1
6-2/M82	0.92542	1
6-3/M82	0.99028	1
7-1/M82	1.01907	0.992
7-2/M82	0.93123	0.599
9-3-2/M82	0.94139	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.09956	0.277
IL2-6/WTpooled	1.01926	0.788
IL7-5/WTpooled	0.9906	1
IL7-3/WTpooled	1.12098	0.362
IL12-4/WTpooled	1.1541	0.695
IL1-4/WTpooled	0.97821	1
WT/WTpooled	0.92767	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	1.30581	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03752	0.823
DC3000/delta hrp 6h	1.1023	1
DC3000/delta hrp 12h	0.98574	1
DC3000/delta hrp 24h	1.02644	0.743

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.16105	0.042
DC3000 delta B/DC3000 delta AB	1.18088	0.196

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06227	1
Exp 36h	1.19816	1
Exp 60h	1.14577	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01404	1
Var 0h	0.96438	1
Var 12h I row2-row1	1.26561	0.19
Var 12h NI row2-row1	1.13696	0.649
Var 36h I row2-row1	1.02444	1
Var 36h NI row2-row1	0.82514	0.478
Var 60h I row2-row1	1.14641	1
Var 60h NI row2-row1	1.0534	1
Time course 0hI-0hNI	1.05961	0.867
Time course 12hI-12hNI	1.07934	0.654
Time course 36hI-36hNI	1.1633	0.028
Time course 60hI-60hNI	2.07668	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)	0.99659	0.931
transgenic ySAMdc/azygous control (breaker)	0.93875	0.251
transgenic ySAMdc/azygous control (red)	1.11935	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96857	0.128

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93192	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97718	1
Manapal/WT (break)	0.96483	0.333
Manapal/WT (red)	0.97201	0.607