Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.16.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.64037	0.162
27DAP/17DAP	0.89538	0.754
39DAP/27DAP	0.87959	0.447
41DAP/39DAP	0.80918	0.328
42DAP/41DAP	1.3444	0.772
43DAP/42DAP	1.06271	0.948
47DAP/43DAP	0.82215	0.467
52DAP/47DAP	1.11893	0.844
57DAP/52DAP	1.21344	0.688

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20758	0.218
17DAP/reference	0.9868	0.819
27DAP/reference	0.91604	0.223
39DAP/reference	1.04484	0.445
41DAP/reference	1.06384	0.122
42DAP/reference	0.95963	0.211
43DAP/reference	1.02082	0.928
47DAP/reference	0.86066	0.005
52DAP/reference	0.8326	0.033
57DAP/reference	0.86285	0.03

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.68151	0.17
27DAP/17DAP	0.90995	0.748
39DAP/27DAP	1.14014	0.685
41DAP/39DAP	1.59015	0.827
42DAP/41DAP	0.91551	0.595
43DAP/42DAP	1.83498	0.513
47DAP/43DAP	1.05121	0.989
52DAP/47DAP	1.93898	0.078
57DAP/52DAP	0.686	0.282
57DAP/7DAP	1.43191	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88696	0.246
17DAP/reference	0.91374	0.072
27DAP/reference	0.97516	0.43
39DAP/reference	0.91273	0.109
41DAP/reference	0.97304	0.489
42DAP/reference	0.96487	0.415
43DAP/reference	0.97416	0.44
47DAP/reference	0.88223	0.128
52DAP/reference	0.84736	0.024
57DAP/reference	1.02066	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09514	0.172
17DAP/reference	1.1252	0.531
27DAP/reference	0.94135	0.393
39DAP/reference	0.97981	0.509
41DAP/reference	1.02579	1
42DAP/reference	0.82919	0.098
43DAP/reference	1.49463	0.242
47DAP/reference	0.97303	0.41
52DAP/reference	1.04836	0.988
57DAP/reference	1.14194	0.724

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87987	0.147
17DAP/reference	0.96427	0.537
27DAP/reference	0.96519	0.397
39DAP/reference	0.96896	0.504
41DAP/reference	1.02883	1
42DAP/reference	0.9955	0.816
43DAP/reference	0.87547	0.064
47DAP/reference	1.04166	0.585
52DAP/reference	0.86249	0.166
57DAP/reference	0.82579	0.067

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92291	1
26DAP/20DAP	0.9328	1
34DAP/26DAP	1.68728	0.819
51DAP/34DAP	0.90645	0.513
52DAP/51DAP	1.07949	0.925
53DAP/52DAP	1.03249	1
55DAP/53DAP	1.08185	0.893
57DAP/55DAP	0.80126	0.337
62DAP/57DAP	0.96896	0.871
68DAP/62DAP	0.70695	0.211
68DAP/14DAP	1.06588	0.87

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.31317	0.558

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.15787	0.752
Immature Eggplant/Mature Eggplant	0.2397
Ripe Pepper/Ripe Tomato	0.25856
Mature Eggplant/Ripe Tomato	0.16917	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.22376
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.08347
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.62092	0.508
4-3/M82	N/A	N/A
5-3/M82	0.87573	1
6-2/M82	1.02564
6-3/M82	1.02779
7-1/M82	N/A	N/A
7-2/M82	0.7843	0.796
9-3-2/M82	1.18262

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.96878	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.13861	1
IL12-4/WTpooled	1.06629	0.695
IL1-4/WTpooled	0.8642
WT/WTpooled	0.95396	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	1.55609	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91135	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.11262	1
DC3000/delta hrp 24h	0.99997	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	2.06117

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	1.70202	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9396	1
Var 0h	0.88402	0.933
Var 12h I row2-row1	1.35137	0.198
Var 12h NI row2-row1	0.93746	0.546
Var 36h I row2-row1	0.83338	0.575
Var 36h NI row2-row1	1.0198	1
Var 60h I row2-row1	0.65535	0.582
Var 60h NI row2-row1	0.86153	0.932
Time course 0hI-0hNI	0.99244	1
Time course 12hI-12hNI	1.9216	0.004
Time course 36hI-36hNI	1.56731	0.011
Time course 60hI-60hNI	1.90198	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)	2.60471	0.212
transgenic ySAMdc/azygous control (breaker)	0.30621	0.139
transgenic ySAMdc/azygous control (red)	1.14173	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9886	0.588

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.76413	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.69527	1
Manapal/WT (break)	0.95891	1
Manapal/WT (red)	0.52256	0.187