Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.13.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20843	0.272
27DAP/17DAP	2.59718	0.066
39DAP/27DAP	0.47641	0.255
41DAP/39DAP	1.19232	0.321
42DAP/41DAP	0.92667	1
43DAP/42DAP	0.90544	0.841
47DAP/43DAP	0.97784	0.868
52DAP/47DAP	1.08931	0.819
57DAP/52DAP	1.04038	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01431	0.872
17DAP/reference	1.00502	0.764
27DAP/reference	1.02685	0.405
39DAP/reference	1.03241	0.277
41DAP/reference	1.02902	0.287
42DAP/reference	0.94915	0.011
43DAP/reference	1.02885	0.471
47DAP/reference	0.92515	0.005
52DAP/reference	0.98246	0.461
57DAP/reference	0.94733	0.176

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99178	0.801
27DAP/17DAP	1.06439	0.639
39DAP/27DAP	1.00221	1
41DAP/39DAP	1.04182	0.735
42DAP/41DAP	1.00722	0.999
43DAP/42DAP	0.99358	0.928
47DAP/43DAP	1.00128	1
52DAP/47DAP	0.99806	0.975
57DAP/52DAP	1.02029	0.899
57DAP/7DAP	1.0335	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8793	0.104
17DAP/reference	0.97466	0.389
27DAP/reference	0.93948	0.094
39DAP/reference	1.05434	0.069
41DAP/reference	1.01603	0.723
42DAP/reference	0.94961	0.248
43DAP/reference	1.02387	0.483
47DAP/reference	0.87894	0.079
52DAP/reference	0.91999	0.083
57DAP/reference	0.90304	0.024

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03353	0.589
17DAP/reference	1.0501	0.147
27DAP/reference	0.97836	0.501
39DAP/reference	0.93856	0.087
41DAP/reference	0.98113	0.493
42DAP/reference	1.08595	0.39
43DAP/reference	1.02062	0.977
47DAP/reference	1.06869	0.098
52DAP/reference	1.01521	0.838
57DAP/reference	0.99983	0.916

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92245	0.049
17DAP/reference	0.99319	0.81
27DAP/reference	1.07005	0.164
39DAP/reference	1.00969	0.836
41DAP/reference	0.9754	0.56
42DAP/reference	0.90741	0.22
43DAP/reference	0.9533	0.294
47DAP/reference	0.88228	0.145
52DAP/reference	0.92061	0.289
57DAP/reference	0.70925	0.038

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05502	0.631
26DAP/20DAP	1.00052	1
34DAP/26DAP	0.96258	0.763
51DAP/34DAP	0.9273	0.209
52DAP/51DAP	0.98441	1
53DAP/52DAP	0.96511	0.817
55DAP/53DAP	0.95855	0.735
57DAP/55DAP	0.90551	0.647
62DAP/57DAP	1.1712	0.767
68DAP/62DAP	1.02074	0.95
68DAP/14DAP	1.1826	0.403

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9523	0.304

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.72277	0.166
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.26395

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98542	0.961
1-1-2/M82	0.93117	0.958
12-2/M82	0.96726	0.955
12-4/M82	0.92271	1
1-3/M82	0.92239	0.378
2-1-1/M82	1.30275	0.403
2-1/M82	1.27599
2-6/M82	1.14016	0.505
3-2/M82	1.01714
4-1-1/M82	1.00855	1
4-1/M82	0.99443	1
4-3-2/M82	0.89101	1
4-3/M82	1.0293	1
5-3/M82	0.99502	1
6-2/M82	1.00942	1
6-3/M82	0.98348	1
7-1/M82	1.10944
7-2/M82	1.03314	0.324
9-3-2/M82	0.94899	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.11805	1
IL2-6/WTpooled	0.88507	0.473
IL7-5/WTpooled	0.83911
IL7-3/WTpooled	1.36149	0.362
IL12-4/WTpooled	1.12072	0.695
IL1-4/WTpooled	1.09966	0.426
WT/WTpooled	0.98818	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04954	0.875
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.03712	1
DC3000/delta hrp 24h	1.06221	0.62

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11528	0.063
DC3000 delta B/DC3000 delta AB	1.08148	0.415

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00968	1
Var 0h	0.95018	1
Var 12h I row2-row1	1.14976	0.283
Var 12h NI row2-row1	0.87426	0.494
Var 36h I row2-row1	0.95025	1
Var 36h NI row2-row1	0.84319	0.584
Var 60h I row2-row1	1.26698	0.562
Var 60h NI row2-row1	1.20648	0.904
Time course 0hI-0hNI	1.07257	0.852
Time course 12hI-12hNI	1.05978	0.756
Time course 36hI-36hNI	0.98757	0.632
Time course 60hI-60hNI	1.24306	0.015

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)	1.8355	0.863
transgenic ySAMdc/azygous control (breaker)	2.62645	1
transgenic ySAMdc/azygous control (red)	1.49162	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99959	0.967

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00854	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.99496	0.307
Manapal/WT (break)	0.97573	1
Manapal/WT (red)	1.04847	1