Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.18.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84272	0.357
27DAP/17DAP	0.74019	0.227
39DAP/27DAP	0.96036	0.682
41DAP/39DAP	0.90514	0.602
42DAP/41DAP	0.95421	1
43DAP/42DAP	0.71728	0.454
47DAP/43DAP	0.83942	0.496
52DAP/47DAP	1.11871	0.898
57DAP/52DAP	0.89487	0.867

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9001	0.162
17DAP/reference	1.01268	0.843
27DAP/reference	0.86812	0.048
39DAP/reference	0.96972	0.651
41DAP/reference	0.93465	0.341
42DAP/reference	0.81541	0.001
43DAP/reference	0.9687	0.611
47DAP/reference	0.92245	0.035
52DAP/reference	1.04863	0.73
57DAP/reference	1.00785	0.845

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93927	0.428
27DAP/17DAP	0.99451	0.943
39DAP/27DAP	1.22571	0.418
41DAP/39DAP	1.29978	0.837
42DAP/41DAP	1.05555	1
43DAP/42DAP	1.0829	0.699
47DAP/43DAP	1.03473	1
52DAP/47DAP	0.88012	0.389
57DAP/52DAP	0.88787	0.387
57DAP/7DAP	1.05491	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06004	0.576
17DAP/reference	1.07082	0.754
27DAP/reference	1.15057	0.246
39DAP/reference	1.1727	0.411
41DAP/reference	0.9787	0.512
42DAP/reference	1.35873	0.132
43DAP/reference	1.2276	0.009
47DAP/reference	1.13442	0.604
52DAP/reference	1.26397	0.071
57DAP/reference	1.28771	0.198

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8915	0.296
17DAP/reference	0.95827	0.447
27DAP/reference	0.88209	0.188
39DAP/reference	0.92204	0.257
41DAP/reference	0.74038	0.012
42DAP/reference	0.81249	0.021
43DAP/reference	0.8331	0.09
47DAP/reference	0.84596	0.017
52DAP/reference	0.95385	0.28
57DAP/reference	1.08312	0.538

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02769	0.963
17DAP/reference	0.94889	0.508
27DAP/reference	1.0701	0.552
39DAP/reference	1.22014	0.048
41DAP/reference	0.98097	0.618
42DAP/reference	1.50862	0.175
43DAP/reference	0.95949	0.545
47DAP/reference	0.92836	0.278
52DAP/reference	1.04785	0.979
57DAP/reference	0.90549	0.203

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9835	1
26DAP/20DAP	0.9716	1
34DAP/26DAP	1.74603	0.19
51DAP/34DAP	0.79987	0.546
52DAP/51DAP	1.18446	0.626
53DAP/52DAP	1.05095	0.806
55DAP/53DAP	1.18016	0.534
57DAP/55DAP	0.96892	0.823
62DAP/57DAP	1.09486	0.678
68DAP/62DAP	1.02653	0.885
68DAP/14DAP	1.49921	0.069

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00458	0.774

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.30173	0.067
Mature Green Tomato/Ripe Tomato	0.79633	0.086
Immature Eggplant/Mature Eggplant	2.88153	0.05
Ripe Pepper/Ripe Tomato	27.1716	0.256
Mature Eggplant/Ripe Tomato	1.34108

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.95671	1
12-2/M82	1.03628
12-4/M82	1.09058	1
1-3/M82	N/A	N/A
2-1-1/M82	1.07845
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	1.05347	1
4-3/M82	N/A	N/A
5-3/M82	1.04381	1
6-2/M82	N/A	N/A
6-3/M82	0.75477
7-1/M82	N/A	N/A
7-2/M82	0.61818
9-3-2/M82	1.15831

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.02543	1
IL2-6/WTpooled	0.92593	1
IL7-5/WTpooled	0.74934	1
IL7-3/WTpooled	1.43015	0.362
IL12-4/WTpooled	1.39902	0.523
IL1-4/WTpooled	1.08106	1
WT/WTpooled	1.05818	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	1.44044	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06185	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.96759	1
DC3000/delta hrp 24h	1.05816	0.779

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.48655
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07366	1
Exp 36h	4.25614	0.693
Exp 60h	1.52212	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03563	1
Var 0h	0.99948	0.98
Var 12h I row2-row1	1.63872	0.263
Var 12h NI row2-row1	1.11415	0.649
Var 36h I row2-row1	1.31837	0.309
Var 36h NI row2-row1	0.91209	0.706
Var 60h I row2-row1	5.62599	1
Var 60h NI row2-row1	0.62611	0.351
Time course 0hI-0hNI	1.17416	0.574
Time course 12hI-12hNI	2.57252	0.027
Time course 36hI-36hNI	3.19792	0.005
Time course 60hI-60hNI	1.75027	0.01

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)	0.96819	0.567
transgenic ySAMdc/azygous control (breaker)	1.16478	1
transgenic ySAMdc/azygous control (red)	1.10218	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9587	0.14

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98511	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.1554	0.14
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.49846	0.36