Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.11.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1543	0.523
27DAP/17DAP	0.98288	0.982
39DAP/27DAP	1.03689	1
41DAP/39DAP	1.86102	0.27
42DAP/41DAP	0.94526	1
43DAP/42DAP	0.97109	0.912
47DAP/43DAP	1.00906	0.949
52DAP/47DAP	1.24151	0.608
57DAP/52DAP	0.98543	0.974

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01989	1
17DAP/reference	1.01688	0.585
27DAP/reference	1.03515	0.405
39DAP/reference	1.15342	0.117
41DAP/reference	1.08611	0.079
42DAP/reference	0.9545	0.134
43DAP/reference	1.03416	0.596
47DAP/reference	0.96858	0.137
52DAP/reference	1.01711	1
57DAP/reference	0.92089	0.235

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98023	0.716
27DAP/17DAP	1.01673	0.967
39DAP/27DAP	1.05945	0.558
41DAP/39DAP	1.01558	1
42DAP/41DAP	1.02171	0.961
43DAP/42DAP	0.98286	0.854
47DAP/43DAP	1.00166	1
52DAP/47DAP	1.00259	1
57DAP/52DAP	1.05283	0.659
57DAP/7DAP	1.10543	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95841	0.27
17DAP/reference	0.91201	0.012
27DAP/reference	0.87388	0.011
39DAP/reference	0.99343	0.552
41DAP/reference	1.01633	0.836
42DAP/reference	1.02564	0.534
43DAP/reference	1.01724	0.603
47DAP/reference	0.89204	0.168
52DAP/reference	0.95834	0.137
57DAP/reference	0.96339	0.118

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95736	0.475
17DAP/reference	0.98559	0.576
27DAP/reference	0.85302	0.111
39DAP/reference	0.89885	0.221
41DAP/reference	0.94457	0.299
42DAP/reference	1.00775	0.723
43DAP/reference	0.97756	0.552
47DAP/reference	1.09535	0.321
52DAP/reference	0.94657	0.143
57DAP/reference	0.98748	0.68

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87834	0.077
17DAP/reference	0.94816	0.348
27DAP/reference	0.93554	0.081
39DAP/reference	0.92612	0.054
41DAP/reference	0.86424	0.086
42DAP/reference	0.84371	0.028
43DAP/reference	0.88524	0.084
47DAP/reference	0.9634	0.465
52DAP/reference	0.87588	0.153
57DAP/reference	0.66939	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00674	1
26DAP/20DAP	0.98299	1
34DAP/26DAP	1.0376	0.819
51DAP/34DAP	0.94096	0.667
52DAP/51DAP	1.01859	0.77
53DAP/52DAP	1.06228	0.768
55DAP/53DAP	0.98555	0.864
57DAP/55DAP	1.0481	0.87
62DAP/57DAP	1.01142	1
68DAP/62DAP	1.12901	0.722
68DAP/14DAP	1.01453	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95349	0.399

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.77542	0.226
Immature Eggplant/Mature Eggplant	1.25751	0.363
Ripe Pepper/Ripe Tomato	5.0788
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03307	1
1-1-2/M82	1.00947	1
12-2/M82	1.07957	1
12-4/M82	0.95613	1
1-3/M82	0.89934	0.378
2-1-1/M82	1.00893
2-1/M82	1.41601
2-6/M82	1.01213	1
3-2/M82	1.11963
4-1-1/M82	0.96731	1
4-1/M82	0.84287	1
4-3-2/M82	0.90043	0.487
4-3/M82	0.96184	1
5-3/M82	0.94993	1
6-2/M82	0.99869	1
6-3/M82	0.97687	1
7-1/M82	0.90075	0.803
7-2/M82	0.99322	1
9-3-2/M82	0.99195	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.97843	1
IL2-6/WTpooled	1.09194	0.531
IL7-5/WTpooled	1.1089	1
IL7-3/WTpooled	0.95111	1
IL12-4/WTpooled	1.03797	0.695
IL1-4/WTpooled	1.01674	1
WT/WTpooled	0.984	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	0.95517

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99413	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.11326	1
DC3000/delta hrp 24h	1.06329	0.483

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.20192	0.042
DC3000 delta B/DC3000 delta AB	1.11611	0.318

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	0.99701	1
Var 0h	1.48315	0.594
Var 12h I row2-row1	1.17125	0.228
Var 12h NI row2-row1	0.96169	0.82
Var 36h I row2-row1	0.98398	1
Var 36h NI row2-row1	0.96465	0.706
Var 60h I row2-row1	1.41356	0.562
Var 60h NI row2-row1	1.2139	0.904
Time course 0hI-0hNI	1.07185	0.852
Time course 12hI-12hNI	1.0452	0.773
Time course 36hI-36hNI	0.9569	0.25
Time course 60hI-60hNI	1.31001	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)	1.06209	0.541
transgenic ySAMdc/azygous control (breaker)	0.78975	0.131
transgenic ySAMdc/azygous control (red)	1.07097	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98196	0.214

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.51207	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.12768	0.172
Manapal/WT (break)	0.91677	1
Manapal/WT (red)	0.70119	0.274