Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.2.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98298	0.839
27DAP/17DAP	0.95908	0.952
39DAP/27DAP	0.79338	0.361
41DAP/39DAP	1.29363	0.511
42DAP/41DAP	0.89912	1
43DAP/42DAP	0.95671	0.867
47DAP/43DAP	1.01951	0.889
52DAP/47DAP	1.299	0.608
57DAP/52DAP	0.9594	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03649	0.638
17DAP/reference	0.97433	0.474
27DAP/reference	0.97786	0.525
39DAP/reference	0.96581	0.467
41DAP/reference	1.01876	0.808
42DAP/reference	0.9632	0.124
43DAP/reference	0.94542	0.464
47DAP/reference	1.01308	0.817
52DAP/reference	0.97917	0.515
57DAP/reference	1.05446	0.202

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9875	0.782
27DAP/17DAP	1.00291	1
39DAP/27DAP	1.00769	0.854
41DAP/39DAP	1.0061	0.921
42DAP/41DAP	1.01591	0.976
43DAP/42DAP	1.02183	0.513
47DAP/43DAP	0.99076	0.939
52DAP/47DAP	1.00354	1
57DAP/52DAP	0.9969	0.892
57DAP/7DAP	1.03528	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91438	0.129
17DAP/reference	0.94315	0.031
27DAP/reference	0.90064	0.016
39DAP/reference	0.94316	0.064
41DAP/reference	0.98114	0.412
42DAP/reference	0.98699	0.531
43DAP/reference	0.94726	0.279
47DAP/reference	0.87911	0.044
52DAP/reference	0.93458	0.196
57DAP/reference	0.97939	0.494

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03034	0.65
17DAP/reference	0.99886	0.851
27DAP/reference	1.05442	0.48
39DAP/reference	0.99878	0.722
41DAP/reference	0.95824	0.291
42DAP/reference	0.93616	0.05
43DAP/reference	0.95616	0.385
47DAP/reference	0.92352	0.056
52DAP/reference	0.99751	0.713
57DAP/reference	0.99489	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90756	0.112
17DAP/reference	0.96169	0.462
27DAP/reference	0.91724	0.038
39DAP/reference	0.9145	0.022
41DAP/reference	0.99402	0.754
42DAP/reference	0.8964	0.134
43DAP/reference	0.99244	0.738
47DAP/reference	0.94947	0.103
52DAP/reference	0.90155	0.376
57DAP/reference	1.00826	0.933

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99539	1
26DAP/20DAP	0.93897	1
34DAP/26DAP	1.01486	1
51DAP/34DAP	1.02615	0.869
52DAP/51DAP	0.98073	1
53DAP/52DAP	0.89369	0.505
55DAP/53DAP	0.98195	0.82
57DAP/55DAP	1.01815	0.975
62DAP/57DAP	0.94167	0.994
68DAP/62DAP	1.03387	0.919
68DAP/14DAP	1.32851	0.103

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93688	0.443

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.40567	0.068
Mature Green Tomato/Ripe Tomato	1.2214	0.363
Immature Eggplant/Mature Eggplant	1.23888	0.123
Ripe Pepper/Ripe Tomato	0.78612	0.293
Mature Eggplant/Ripe Tomato	1.3523	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.88073	0.605
1-1-2/M82	1.00176	1
12-2/M82	0.96321	0.955
12-4/M82	0.98685	1
1-3/M82	1.0142	1
2-1-1/M82	0.98066	1
2-1/M82	1.10019	1
2-6/M82	0.87988	1
3-2/M82	1.02768	0.84
4-1-1/M82	1.05	1
4-1/M82	1.10624	1
4-3-2/M82	0.83604	0.487
4-3/M82	0.91734	0.72
5-3/M82	0.99568	1
6-2/M82	1.05343	1
6-3/M82	1.0095	1
7-1/M82	0.98063	1
7-2/M82	0.99124	1
9-3-2/M82	0.87232	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.90499	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.32405	0.362
IL12-4/WTpooled	0.9524	1
IL1-4/WTpooled	1.1139
WT/WTpooled	0.9112	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	1.21107	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0565	0.724
DC3000/delta hrp 6h	0.97845	0.95
DC3000/delta hrp 12h	1.00806	1
DC3000/delta hrp 24h	1.06972	0.483

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.03493	0.408
DC3000 delta B/DC3000 delta AB	1.17552	0.2

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98244	1
Exp 36h	0.75056	0.471
Exp 60h	0.71042	0.251

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01258	1
Var 0h	0.80168	1
Var 12h I row2-row1	1.10911	0.443
Var 12h NI row2-row1	1.16527	1
Var 36h I row2-row1	0.78547	0.805
Var 36h NI row2-row1	0.89937	0.706
Var 60h I row2-row1	1.09674	1
Var 60h NI row2-row1	1.0377	1
Time course 0hI-0hNI	1.03673	0.852
Time course 12hI-12hNI	0.98908	0.956
Time course 36hI-36hNI	1.04236	0.355
Time course 60hI-60hNI	1.16188	0.022

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)	1.02903	0.397
transgenic ySAMdc/azygous control (breaker)	1.68121	0.178
transgenic ySAMdc/azygous control (red)	1.22332	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98585	0.201

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.95248	0.228

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.31566	0.105
Manapal/WT (break)	1.30984	0.14
Manapal/WT (red)	1.18423	0.222