Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.18.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.022	0.867
27DAP/17DAP	1.04189	1
39DAP/27DAP	1.04113	1
41DAP/39DAP	1.68397	0.398
42DAP/41DAP	1.27329	0.85
43DAP/42DAP	0.96536	0.912
47DAP/43DAP	1.07494	0.884
52DAP/47DAP	1.60786	0.374
57DAP/52DAP	0.70928	0.462

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12114	0.35
17DAP/reference	0.90576	0.194
27DAP/reference	0.96444	0.595
39DAP/reference	0.8761	0.062
41DAP/reference	0.86971	0.085
42DAP/reference	0.94253	0.182
43DAP/reference	1.01347	0.924
47DAP/reference	0.8923	0.09
52DAP/reference	0.96925	0.427
57DAP/reference	1.06055	0.662

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95616	0.716
27DAP/17DAP	1.70536	0.798
39DAP/27DAP	1.09232	0.663
41DAP/39DAP	0.95057	0.934
42DAP/41DAP	0.93223	0.69
43DAP/42DAP	1.26584	0.066
47DAP/43DAP	1.15927	0.901
52DAP/47DAP	0.88487	0.655
57DAP/52DAP	1.18113	0.431
57DAP/7DAP	0.89777	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18069	0.078
17DAP/reference	1.09575	0.525
27DAP/reference	0.97523	0.462
39DAP/reference	1.12776	0.252
41DAP/reference	1.14487	0.177
42DAP/reference	1.14685	0.1
43DAP/reference	1.10872	0.212
47DAP/reference	1.11271	0.43
52DAP/reference	1.21766	0.121
57DAP/reference	1.65059	0.076

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94484	0.386
17DAP/reference	0.7344	0.007
27DAP/reference	1.01158	0.663
39DAP/reference	0.85333	0.081
41DAP/reference	1.06656	0.766
42DAP/reference	0.86463	0.081
43DAP/reference	0.77884	0.08
47DAP/reference	0.92723	0.097
52DAP/reference	0.97499	0.5
57DAP/reference	0.89525	0.099

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89163	0.197
17DAP/reference	0.98071	0.658
27DAP/reference	0.94621	0.337
39DAP/reference	1.05745	0.483
41DAP/reference	1.13008	0.205
42DAP/reference	1.05482	0.789
43DAP/reference	1.05587	0.858
47DAP/reference	0.94199	0.24
52DAP/reference	1.09255	0.813
57DAP/reference	1.11202	0.347

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.19543	0.966
26DAP/20DAP	1.10556	0.826
34DAP/26DAP	0.90011	0.596
51DAP/34DAP	1.203	0.377
52DAP/51DAP	0.77576	1
53DAP/52DAP	1.12785	0.783
55DAP/53DAP	1.24092	0.629
57DAP/55DAP	1.05713	1
62DAP/57DAP	1.06439	0.833
68DAP/62DAP	0.94386	0.769
68DAP/14DAP	0.87381	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.55759	0.031

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.84162	0.312
Mature Green Tomato/Ripe Tomato	0.28249	0.018
Immature Eggplant/Mature Eggplant	1.21856	0.417
Ripe Pepper/Ripe Tomato	1.39793
Mature Eggplant/Ripe Tomato	1.45278	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.76985	1
12-2/M82	N/A	N/A
12-4/M82	0.70656	0.619
1-3/M82	N/A	N/A
2-1-1/M82	0.96197
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.80111
4-1-1/M82	N/A	N/A
4-1/M82	1.02758
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.1038	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.16347
9-3-2/M82	1.01645

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.41212
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.4448
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.92576	0.415
WT/WTpooled	N/A	N/A

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	1.1265	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.77858	1
DC3000/delta hrp 6h	0.82881	0.95
DC3000/delta hrp 12h	1.10299	1
DC3000/delta hrp 24h	1.35995	0.143

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03179	1
Exp 36h	1.0261	1
Exp 60h	1.14512	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.09735	1
Var 0h	1.07113	0.936
Var 12h I row2-row1	1.12934	0.613
Var 12h NI row2-row1	1.1051	0.649
Var 36h I row2-row1	0.91704	1
Var 36h NI row2-row1	1.15847	1
Var 60h I row2-row1	1.11035	1
Var 60h NI row2-row1	0.91309	0.932
Time course 0hI-0hNI	0.94722	0.725
Time course 12hI-12hNI	1.11493	0.63
Time course 36hI-36hNI	1.55879	0.006
Time course 60hI-60hNI	2.21454	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)	1.077	0.571
transgenic ySAMdc/azygous control (breaker)	0.8721	0.49
transgenic ySAMdc/azygous control (red)	0.9258	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05	0.125

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.79707	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98792	1
Manapal/WT (break)	0.95209	1
Manapal/WT (red)	0.98266	0.229