Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.19.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.62553	0.121
27DAP/17DAP	1.74901	0.263
39DAP/27DAP	4.0479	0.02
41DAP/39DAP	1.15355	0.649
42DAP/41DAP	1.07205	0.978
43DAP/42DAP	1.50167	0.453
47DAP/43DAP	1.52918	0.228
52DAP/47DAP	1.03417	0.993
57DAP/52DAP	2.30237	0.55

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.52006	0.024
17DAP/reference	0.53592	0.007
27DAP/reference	0.64069	0.013
39DAP/reference	1.86536	0.343
41DAP/reference	1.28516	0.145
42DAP/reference	2.15507	0.001
43DAP/reference	1.71998	0.007
47DAP/reference	4.63857	0.001
52DAP/reference	2.32597	0.008
57DAP/reference	2.43296	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21623	1
27DAP/17DAP	1.25422	0.632
39DAP/27DAP	2.95768	0.043
41DAP/39DAP	0.49616	0.016
42DAP/41DAP	1.34246	0.301
43DAP/42DAP	1.53263	0.014
47DAP/43DAP	1.49874	0.017
52DAP/47DAP	1.04983	0.907
57DAP/52DAP	1.56358	0.552
57DAP/7DAP	2.44065	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.53804	0.058
17DAP/reference	0.53526	0.013
27DAP/reference	0.74221	0.024
39DAP/reference	1.18508	0.57
41DAP/reference	1.6871	0.009
42DAP/reference	1.68995	0.021
43DAP/reference	1.21214	0.364
47DAP/reference	1.0749	0.525
52DAP/reference	1.70928	0.034
57DAP/reference	3.0588	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.69145	0.056
17DAP/reference	0.7333	0.031
27DAP/reference	0.96354	0.501
39DAP/reference	1.10086	0.935
41DAP/reference	1.476	0.013
42DAP/reference	1.66258	0.016
43DAP/reference	1.49717	0.065
47DAP/reference	5.15294	0.008
52DAP/reference	1.64089	0.006
57DAP/reference	2.39631	0.116

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.4895	0.019
17DAP/reference	0.74663	0.221
27DAP/reference	0.77026	0.038
39DAP/reference	1.32665	0.087
41DAP/reference	1.24029	0.069
42DAP/reference	1.95445	0.029
43DAP/reference	2.32126	0.022
47DAP/reference	2.72498	0.005
52DAP/reference	2.77635	0.03
57DAP/reference	2.31072	0.052

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.58892	0.007
26DAP/20DAP	1.55269	0.162
34DAP/26DAP	1.019	1
51DAP/34DAP	3.99309	0.025
52DAP/51DAP	0.72921	0.151
53DAP/52DAP	1.58682	0.082
55DAP/53DAP	0.43638	0.016
57DAP/55DAP	0.86649	0.468
62DAP/57DAP	2.31559	0.003
68DAP/62DAP	0.89307	0.7
68DAP/14DAP	1.33313	0.279

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95078	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.04567	0.036
Mature Green Tomato/Ripe Tomato	0.31458	0.017
Immature Eggplant/Mature Eggplant	33.0327	0.043
Ripe Pepper/Ripe Tomato	3.01181	0.258
Mature Eggplant/Ripe Tomato	0.52138	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.83907	0.944
1-1-2/M82	1.86041	1
12-2/M82	0.59525
12-4/M82	0.90566	1
1-3/M82	3.37889
2-1-1/M82	1.32
2-1/M82	1.02204	1
2-6/M82	1.52857	0.329
3-2/M82	1.14896	0.549
4-1-1/M82	2.83607	0.977
4-1/M82	2.11817	0.466
4-3-2/M82	1.59462	0.284
4-3/M82	1.60034	0.268
5-3/M82	0.39366	0.395
6-2/M82	0.62568
6-3/M82	0.75098
7-1/M82	0.69607
7-2/M82	2.54963
9-3-2/M82	2.07573	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.10439	0.493
IL2-6/WTpooled	0.78774	0.473
IL7-5/WTpooled	1.23595	0.792
IL7-3/WTpooled	2.63662	1
IL12-4/WTpooled	1.45337	0.531
IL1-4/WTpooled	1.37732	0.417
WT/WTpooled	1.03087	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	1.43144	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.87381	0.941
DC3000/delta hrp 6h	0.98484	0.95
DC3000/delta hrp 12h	1.11511	1
DC3000/delta hrp 24h	0.89499	0.464

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.44097
DC3000 delta B/DC3000 delta AB	5.58392	0.042

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.23734	1
Exp 36h	1.20282	1
Exp 60h	1.18727	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98047	1
Var 0h	0.91214	1
Var 12h I row2-row1	0.95816	0.948
Var 12h NI row2-row1	2.27967	0.34
Var 36h I row2-row1	1.15056	0.908
Var 36h NI row2-row1	0.73616	0.61
Var 60h I row2-row1	0.51584	0.285
Var 60h NI row2-row1	0.56904	0.301
Time course 0hI-0hNI	1.1208	0.764
Time course 12hI-12hNI	1.9049	0.011
Time course 36hI-36hNI	3.98119	0.005
Time course 60hI-60hNI	24.3057	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)	0.5749	0.309
transgenic ySAMdc/azygous control (breaker)	0.74616	0.15
transgenic ySAMdc/azygous control (red)	1.4576	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.2043	0.185

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.84499	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	4.75072	0.096
Manapal/WT (break)	5.46627	0.14
Manapal/WT (red)	2.52631	0.15