Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.18.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11794	0.863
27DAP/17DAP	1.23317	0.798
39DAP/27DAP	0.98784	0.769
41DAP/39DAP	1.32287	0.268
42DAP/41DAP	1.08789	0.992
43DAP/42DAP	1.1116	0.999
47DAP/43DAP	1.1804	0.576
52DAP/47DAP	0.96514	0.856
57DAP/52DAP	1.00038	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93158	0.3
17DAP/reference	1.05142	0.201
27DAP/reference	1.00597	1
39DAP/reference	0.99528	0.941
41DAP/reference	0.97999	0.542
42DAP/reference	0.96145	0.211
43DAP/reference	0.94089	0.18
47DAP/reference	0.92982	0.083
52DAP/reference	0.85343	0.118
57DAP/reference	0.82695	0.047

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.52023	0.719
27DAP/17DAP	0.91965	0.821
39DAP/27DAP	1.22395	0.77
41DAP/39DAP	1.05513	1
42DAP/41DAP	1.11227	0.935
43DAP/42DAP	1.25311	0.446
47DAP/43DAP	1.10431	0.93
52DAP/47DAP	0.85034	0.538
57DAP/52DAP	1.21496	0.589
57DAP/7DAP	1.59154	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25863	0.218
17DAP/reference	1.10952	0.477
27DAP/reference	1.11963	0.8
39DAP/reference	1.03931	1
41DAP/reference	1.33517	0.069
42DAP/reference	1.33013	0.059
43DAP/reference	1.37624	0.105
47DAP/reference	1.03273	1
52DAP/reference	1.36253	0.212
57DAP/reference	1.53782	0.053

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98118	0.736
17DAP/reference	0.97144	0.269
27DAP/reference	0.84808	0.108
39DAP/reference	0.95017	0.322
41DAP/reference	0.99967	0.683
42DAP/reference	0.84459	0.028
43DAP/reference	1.08768	0.526
47DAP/reference	0.96016	0.188
52DAP/reference	1.11536	0.667
57DAP/reference	1.05645	0.353

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24436	0.311
17DAP/reference	1.04747	0.876
27DAP/reference	1.5737	0.227
39DAP/reference	1.33952	0.019
41DAP/reference	1.35682	0.265
42DAP/reference	1.10525	0.529
43DAP/reference	1.0743	1
47DAP/reference	0.97129	0.421
52DAP/reference	1.16635	0.42
57DAP/reference	1.11353	1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16857	0.407
26DAP/20DAP	1.0071	1
34DAP/26DAP	1.02895	1
51DAP/34DAP	1.26172	0.087
52DAP/51DAP	1.42339	0.197
53DAP/52DAP	0.90872	0.663
55DAP/53DAP	0.87149	0.515
57DAP/55DAP	1.04741	0.997
62DAP/57DAP	1.03988	0.935
68DAP/62DAP	0.92227	0.7
68DAP/14DAP	0.89728	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.15627	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.98893	0.089
Mature Green Tomato/Ripe Tomato	0.78928	0.182
Immature Eggplant/Mature Eggplant	0.52727	0.058
Ripe Pepper/Ripe Tomato	1.56907	1
Mature Eggplant/Ripe Tomato	1.35997	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.8527	1
12-2/M82	N/A	N/A
12-4/M82	0.81586	0.619
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.96988
4-1-1/M82	N/A	N/A
4-1/M82	0.92329	1
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.77383
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.82701
9-3-2/M82	0.70788	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.91381	1
IL2-6/WTpooled	1.03231	0.788
IL7-5/WTpooled	0.97712	1
IL7-3/WTpooled	0.91277	1
IL12-4/WTpooled	0.96681	0.71
IL1-4/WTpooled	1.10904	1
WT/WTpooled	1.02405	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	0.96627	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97573	1
DC3000/delta hrp 6h	1.13885	1
DC3000/delta hrp 12h	1.11356	1
DC3000/delta hrp 24h	1.14574	0.71

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	0.96735	1
Exp 36h	1.18633	1
Exp 60h	1.13518	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97502	1
Var 0h	0.99301	1
Var 12h I row2-row1	1.71662	0.654
Var 12h NI row2-row1	1.3057
Var 36h I row2-row1	1.12775	0.908
Var 36h NI row2-row1	0.91867
Var 60h I row2-row1	0.9755	0.952
Var 60h NI row2-row1	0.77894	1
Time course 0hI-0hNI	1.21122	0.833
Time course 12hI-12hNI	0.98461	0.889
Time course 36hI-36hNI	0.96396	0.54
Time course 60hI-60hNI	2.00345	0.187

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)	1.01427	0.798
transgenic ySAMdc/azygous control (breaker)	0.68127	0.139
transgenic ySAMdc/azygous control (red)	1.45978	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96745	0.237

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8376	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91551	1
Manapal/WT (break)	0.72386	0.333
Manapal/WT (red)	1.07454	0.413