Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.20.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77968	0.232
27DAP/17DAP	2.0723	0.479
39DAP/27DAP	1.93556	0.894
41DAP/39DAP	1.03665	1
42DAP/41DAP	0.65504	1
43DAP/42DAP	0.93463	0.877
47DAP/43DAP	1.41619	0.502
52DAP/47DAP	0.96413	0.865
57DAP/52DAP	1.13666	0.956

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01917	0.824
17DAP/reference	1.1052	0.457
27DAP/reference	1.15032	0.539
39DAP/reference	1.04169	0.691
41DAP/reference	1.01336	0.963
42DAP/reference	0.98835	0.469
43DAP/reference	1.01918	0.928
47DAP/reference	0.96855	0.366
52DAP/reference	0.85224	0.036
57DAP/reference	0.8226	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95493	0.679
27DAP/17DAP	0.83021	0.39
39DAP/27DAP	0.99687	0.925
41DAP/39DAP	0.97151	0.959
42DAP/41DAP	1.11278	0.763
43DAP/42DAP	1.09505	0.585
47DAP/43DAP	0.99646	0.989
52DAP/47DAP	0.8348	0.46
57DAP/52DAP	0.97758	0.756
57DAP/7DAP	1.21011	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28573	0.072
17DAP/reference	0.9952	0.599
27DAP/reference	0.98388	0.53
39DAP/reference	0.90861	0.23
41DAP/reference	0.89889	0.259
42DAP/reference	1.01509	0.675
43DAP/reference	0.98833	0.527
47DAP/reference	0.93949	0.293
52DAP/reference	1.05085	0.636
57DAP/reference	1.06506	0.966

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00075	0.884
17DAP/reference	1.07734	0.338
27DAP/reference	1.14538	0.692
39DAP/reference	1.31972	0.67
41DAP/reference	0.81289	0.105
42DAP/reference	0.84588	0.108
43DAP/reference	1.20563	0.569
47DAP/reference	0.95172	0.368
52DAP/reference	0.95535	0.156
57DAP/reference	1.17328	0.449

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05569	0.532
17DAP/reference	1.07764	0.522
27DAP/reference	0.85756	0.065
39DAP/reference	1.09442	0.39
41DAP/reference	0.90664	0.237
42DAP/reference	1.00262	1
43DAP/reference	1.00304	0.858
47DAP/reference	0.97566	0.525
52DAP/reference	0.91178	0.472
57DAP/reference	0.7954	0.059

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.232	0.966
26DAP/20DAP	0.84117	0.512
34DAP/26DAP	0.85401	0.826
51DAP/34DAP	0.97049	0.785
52DAP/51DAP	1.16526	0.565
53DAP/52DAP	0.93584	0.83
55DAP/53DAP	1.31112	0.547
57DAP/55DAP	1.96631	0.71
62DAP/57DAP	0.94924	0.871
68DAP/62DAP	1.0189	0.939
68DAP/14DAP	0.8083	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.81162	0.186

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.45511	0.087
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.16986
Ripe Pepper/Ripe Tomato	1.40888	1
Mature Eggplant/Ripe Tomato	0.83616	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94883	0.944
1-1-2/M82	0.98458	1
12-2/M82	0.9369	0.955
12-4/M82	0.94286	0.619
1-3/M82	1.0047	1
2-1-1/M82	0.8301	0.465
2-1/M82	1.39693	1
2-6/M82	0.94802	1
3-2/M82	N/A	N/A
4-1-1/M82	0.97022	1
4-1/M82	0.9361
4-3-2/M82	0.80791
4-3/M82	0.91706	0.72
5-3/M82	0.96486	1
6-2/M82	0.98128	1
6-3/M82	1.07648	1
7-1/M82	1.03847	1
7-2/M82	0.93615	0.881
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.07307	0.493
IL2-6/WTpooled	0.85359	0.348
IL7-5/WTpooled	0.96293	1
IL7-3/WTpooled	1.14325	1
IL12-4/WTpooled	0.96721	0.581
IL1-4/WTpooled	1.02819	1
WT/WTpooled	0.96615	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	0.97188	1
DC3000/delta hrp 6h	0.96781	0.95
DC3000/delta hrp 12h	1.06005	1
DC3000/delta hrp 24h	1.00398

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.49016
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	1.05114	1
Exp 36h	1.23275	0.489
Exp 60h	1.51692	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95127	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.04638	1
Var 12h NI row2-row1	0.85461	0.906
Var 36h I row2-row1	1.06854	0.908
Var 36h NI row2-row1	1.63613	1
Var 60h I row2-row1	0.97569	1
Var 60h NI row2-row1	2.70657	1
Time course 0hI-0hNI	0.91836	0.725
Time course 12hI-12hNI	1.06003	1
Time course 36hI-36hNI	0.94653	0.476
Time course 60hI-60hNI	1.0478	1

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)	1.16839	0.312
transgenic ySAMdc/azygous control (breaker)	1.10033	0.248
transgenic ySAMdc/azygous control (red)	1.08297	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95096	0.122

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97136	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.4304	0.14
Manapal/WT (break)	1.10603	1
Manapal/WT (red)	1.0633	1