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MCL coexpression mm9:1250: Difference between revisions

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{{MCL_coexpression_mm9
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dehydrogenase activity;0.0190549152086506;17449!GO:0006108;malate metabolic process;0.0190549152086506;17449!GO:0035058;sensory cilium biogenesis;0.0190549152086506;59030!GO:0009296;flagellum biogenesis;0.0190549152086506;59030!GO:0050910;detection of mechanical stimulus during sensory perception of sound;0.0190549152086506;59030!GO:0043064;flagellum organization and biogenesis;0.0190549152086506;59030!GO:0016615;malate dehydrogenase activity;0.0190549152086506;17449!GO:0035176;social behavior;0.0190549152086506;59030!GO:0043648;dicarboxylic acid metabolic process;0.0190549152086506;17449!GO:0045494;photoreceptor cell maintenance;0.0190549152086506;59030!GO:0050974;detection of mechanical stimulus during sensory perception;0.0190549152086506;59030!GO:0050982;detection of mechanical stimulus;0.0204115057637613;59030!GO:0042384;cilium biogenesis;0.0204115057637613;59030!GO:0006100;tricarboxylic acid cycle intermediate metabolic process;0.0204115057637613;17449!GO:0009612;response to mechanical stimulus;0.0215884707863897;59030!GO:0051705;behavioral interaction between organisms;0.0260537194172215;59030!GO:0006099;tricarboxylic acid cycle;0.0260537194172215;17449!GO:0046356;acetyl-CoA catabolic process;0.0260537194172215;17449!GO:0009060;aerobic respiration;0.0260537194172215;17449!GO:0009109;coenzyme catabolic process;0.0271929747010297;17449!GO:0045333;cellular respiration;0.0271929747010297;17449!GO:0051187;cofactor catabolic process;0.027684356969329;17449!GO:0006084;acetyl-CoA metabolic process;0.0281326476356857;17449!GO:0007286;spermatid development;0.0313072361893202;59030!GO:0009582;detection of abiotic stimulus;0.0313072361893202;59030!GO:0048515;spermatid differentiation;0.0313072361893202;59030!GO:0006096;glycolysis;0.0313072361893202;17449!GO:0030031;cell projection biogenesis;0.0313072361893202;59030!GO:0009581;detection of external stimulus;0.0313072361893202;59030!GO:0006007;glucose catabolic 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|gostat_on_MCL_coexpression=GO:0030060;L-malate dehydrogenase activity;0.0190549152086506;17449!GO:0006108;malate metabolic process;0.0190549152086506;17449!GO:0035058;sensory cilium biogenesis;0.0190549152086506;59030!GO:0009296;flagellum biogenesis;0.0190549152086506;59030!GO:0050910;detection of mechanical stimulus during sensory perception of sound;0.0190549152086506;59030!GO:0043064;flagellum organization and biogenesis;0.0190549152086506;59030!GO:0016615;malate dehydrogenase activity;0.0190549152086506;17449!GO:0035176;social behavior;0.0190549152086506;59030!GO:0043648;dicarboxylic acid metabolic process;0.0190549152086506;17449!GO:0045494;photoreceptor cell maintenance;0.0190549152086506;59030!GO:0050974;detection of mechanical stimulus during sensory perception;0.0190549152086506;59030!GO:0050982;detection of mechanical stimulus;0.0204115057637613;59030!GO:0042384;cilium biogenesis;0.0204115057637613;59030!GO:0006100;tricarboxylic acid cycle intermediate metabolic process;0.0204115057637613;17449!GO:0009612;response to mechanical stimulus;0.0215884707863897;59030!GO:0051705;behavioral interaction between organisms;0.0260537194172215;59030!GO:0006099;tricarboxylic acid cycle;0.0260537194172215;17449!GO:0046356;acetyl-CoA catabolic process;0.0260537194172215;17449!GO:0009060;aerobic respiration;0.0260537194172215;17449!GO:0009109;coenzyme catabolic process;0.0271929747010297;17449!GO:0045333;cellular respiration;0.0271929747010297;17449!GO:0051187;cofactor catabolic process;0.027684356969329;17449!GO:0006084;acetyl-CoA metabolic process;0.0281326476356857;17449!GO:0007286;spermatid development;0.0313072361893202;59030!GO:0009582;detection of abiotic stimulus;0.0313072361893202;59030!GO:0048515;spermatid differentiation;0.0313072361893202;59030!GO:0006096;glycolysis;0.0313072361893202;17449!GO:0030031;cell projection biogenesis;0.0313072361893202;59030!GO:0009581;detection of external stimulus;0.0313072361893202;59030!GO:0006007;glucose catabolic process;0.0313072361893202;17449!GO:0046365;monosaccharide catabolic process;0.0313072361893202;17449!GO:0019320;hexose catabolic process;0.0313072361893202;17449!GO:0050906;detection of stimulus during sensory perception;0.0313072361893202;59030!GO:0046164;alcohol catabolic process;0.0313072361893202;17449!GO:0044275;cellular carbohydrate catabolic process;0.0348288268246058;17449!GO:0015980;energy derivation by oxidation of organic compounds;0.0348288268246058;17449!GO:0051606;detection of stimulus;0.0354220185997714;59030!GO:0016052;carbohydrate catabolic process;0.0359834968058255;17449!GO:0007605;sensory perception of sound;0.0447508290867581;59030!GO:0006006;glucose metabolic process;0.0448690181277649;17449!GO:0050954;sensory perception of mechanical stimulus;0.0448690181277649;59030!GO:0007601;visual perception;0.0478074123073098;59030!GO:0016616;oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor;0.0478074123073098;17449!GO:0050953;sensory perception of light stimulus;0.0478074123073098;59030!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000481!1.98e-08!230;UBERON:0000160!2.63e-08!31;UBERON:0003914!5.84e-07!47;UBERON:0007100!5.91e-07!18;UBERON:0000948!5.91e-07!18;UBERON:0005498!5.91e-07!18;UBERON:0004140!5.91e-07!18;UBERON:0009881!5.91e-07!18;UBERON:0004141!5.91e-07!18;UBERON:0003084!5.91e-07!18;UBERON:0007005!5.91e-07!18;UBERON:0004139!5.91e-07!18;UBERON:0004291!5.91e-07!18;UBERON:0000344!7.23e-07!15;UBERON:0003103!8.30e-07!43
|tfbs_overrepresentation_for_novel_motifs=0.491922,1.73744,0.464605,0.535892,0.346849,0.550971,0.645383,0.247459,0.257202,1.00112,0.599767,0.632897,0.692139,0.6581,0.364314,0,0.856992,0.89822,1.22315,0.86893,0.426133,0.35122,0.657163,0.91309,0.472505,1.64218,1.1909,0.572827,0.394364,0.534301,0.558142,0.960397,0.336199,0.204204,0.364821,0.607065,0.326478,0.629145,0.303703,0.27383,0.342638,1.38433,0.0995018,1.7087,1.02402,0.524258,0.77511,0.589246,0.0835644,0.397446,0.839084,0.714419,0.174327,1.10437,1.12205,0.66551,0.406788,0.619643,0.614918,0.663395,0.939962,0.724164,0.269393,0.827522,0.677043,2.0186,1.2599,1.61148,0.935192,1.46355,0.444872,0.253541,0.366795,1.156,0.599223,0.57254,0.204132,0.763395,0.922432,1.92862,0.254777,0.874787,0.722675,0.240896,2.36544,0.198949,0.0610418,0.181203,0.780154,1.77427,1.33021,1.04409,0.973447,0.35304,0.810643,0.281222,0.244935,0.976308,0.775372,0.938145,0.326561,0.960112,1.08669,0.839694,0.838613,1.38336,0.8998,0.585058,0.435642,0.428007,0.484547,2.46589,0.431734,0.605144,1.33732,0.340765,0.247162,0.53982,0.858327,0.322606,2.61375,0.805995,0.688501,0.762461,1.39185,0.926209,0.65384,0.966541,1.25836,0.356163,1.06946,0.52828,1.2285,0.679647,1.35909,0.106956,0.500709,0.564999,2.91285,2.14327,1.74232,1.26465,0.700956,0.971067,0.831964,0.564002,0.778321,2.10357,0.503174,0.348692,0.540361,1.10885,1.10596,0.287383,0.678689,1.18867,0.71546,0.376898,0.48935,0.500417,1.31911,1.03816,0.926663,0.482185,0.82857,0.671017,0.325308,0.63125,0.895201
}}

Latest revision as of 16:37, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:75398601..75398617,+p2@Chchd10
Mm9::chr11:21471777..21471783,-p3@Mdh1
Mm9::chr11:21471789..21471800,-p2@Mdh1
Mm9::chr11:21471801..21471830,-p1@Mdh1
Mm9::chr2:136716867..136716922,-p1@Mkks
Mm9::chr4:49610103..49610140,-p4@2810432L12Rik


Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

GO IDGO nameFDR corrected p-value
GO:0030060L-malate dehydrogenase activity0.0190549152086506
GO:0006108malate metabolic process0.0190549152086506
GO:0035058sensory cilium biogenesis0.0190549152086506
GO:0009296flagellum biogenesis0.0190549152086506
GO:0050910detection of mechanical stimulus during sensory perception of sound0.0190549152086506
GO:0043064flagellum organization and biogenesis0.0190549152086506
GO:0016615malate dehydrogenase activity0.0190549152086506
GO:0035176social behavior0.0190549152086506
GO:0043648dicarboxylic acid metabolic process0.0190549152086506
GO:0045494photoreceptor cell maintenance0.0190549152086506
GO:0050974detection of mechanical stimulus during sensory perception0.0190549152086506
GO:0050982detection of mechanical stimulus0.0204115057637613
GO:0042384cilium biogenesis0.0204115057637613
GO:0006100tricarboxylic acid cycle intermediate metabolic process0.0204115057637613
GO:0009612response to mechanical stimulus0.0215884707863897
GO:0051705behavioral interaction between organisms0.0260537194172215
GO:0006099tricarboxylic acid cycle0.0260537194172215
GO:0046356acetyl-CoA catabolic process0.0260537194172215
GO:0009060aerobic respiration0.0260537194172215
GO:0009109coenzyme catabolic process0.0271929747010297
GO:0045333cellular respiration0.0271929747010297
GO:0051187cofactor catabolic process0.027684356969329
GO:0006084acetyl-CoA metabolic process0.0281326476356857
GO:0007286spermatid development0.0313072361893202
GO:0009582detection of abiotic stimulus0.0313072361893202
GO:0048515spermatid differentiation0.0313072361893202
GO:0006096glycolysis0.0313072361893202
GO:0030031cell projection biogenesis0.0313072361893202
GO:0009581detection of external stimulus0.0313072361893202
GO:0006007glucose catabolic process0.0313072361893202
GO:0046365monosaccharide catabolic process0.0313072361893202
GO:0019320hexose catabolic process0.0313072361893202
GO:0050906detection of stimulus during sensory perception0.0313072361893202
GO:0046164alcohol catabolic process0.0313072361893202
GO:0044275cellular carbohydrate catabolic process0.0348288268246058
GO:0015980energy derivation by oxidation of organic compounds0.0348288268246058
GO:0051606detection of stimulus0.0354220185997714
GO:0016052carbohydrate catabolic process0.0359834968058255
GO:0007605sensory perception of sound0.0447508290867581
GO:0006006glucose metabolic process0.0448690181277649
GO:0050954sensory perception of mechanical stimulus0.0448690181277649
GO:0007601visual perception0.0478074123073098
GO:0016616oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor0.0478074123073098
GO:0050953sensory perception of light stimulus0.0478074123073098



Relative expression of the co-expression cluster over median <br>Analyst:




Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
multi-tissue structure1.98e-08230
intestine2.63e-0831
epithelial tube5.84e-0747
primary circulatory organ5.91e-0718
heart5.91e-0718
primitive heart tube5.91e-0718
primary heart field5.91e-0718
anterior lateral plate mesoderm5.91e-0718
heart tube5.91e-0718
heart primordium5.91e-0718
cardiac mesoderm5.91e-0718
cardiogenic plate5.91e-0718
heart rudiment5.91e-0718
mucosa7.23e-0715
compound organ8.30e-0743


TFBS overrepresentation<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

Novel motifs




JASPAR motifs


Motifs-log10(p-value)
MA0003.10.135108
MA0004.10.536396
MA0006.10.945134
MA0007.10.52077
MA0009.10.987341
MA0014.10.304529
MA0017.10.387481
MA0019.10.800946
MA0024.10.942716
MA0025.11.22395
MA0027.12.64231
MA0028.11.72321
MA0029.10.920529
MA0030.10.927235
MA0031.10.890871
MA0038.11.64201
MA0040.11.00009
MA0041.10.457338
MA0042.10.443591
MA0043.11.08567
MA0046.11.02391
MA0048.10.486223
MA0050.10.57678
MA0051.10.695779
MA0052.11.00829
MA0055.10.212634
MA0056.10
MA0057.10.457693
MA0058.10.436487
MA0059.10.449345
MA0060.10.275911
MA0061.10.827788
MA0063.10
MA0066.10.675169
MA0067.11.33603
MA0068.10.153907
MA0069.11.00864
MA0070.10.998765
MA0071.10.575909
MA0072.10.990133
MA0073.10.00638767
MA0074.10.638014
MA0076.11.85013
MA0077.10.968053
MA0078.10.729877
MA0081.11.19271
MA0083.11.08487
MA0084.11.66561
MA0087.11.04109
MA0088.10.358337
MA0089.10
MA0090.12.16326
MA0091.10.55008
MA0092.10.501022
MA0093.10.379257
MA0095.10
MA0098.10
MA0100.10.626021
MA0101.11.16089
MA0103.11.03097
MA0105.11.72386
MA0106.10.737893
MA0107.10.392331
MA0108.20.824407
MA0109.10
MA0111.10.515457
MA0113.10.708789
MA0114.11.49046
MA0115.11.08851
MA0116.10.359483
MA0117.11.05576
MA0119.10.459301
MA0122.11.07591
MA0124.11.28237
MA0125.11.20757
MA0130.10
MA0131.10.796279
MA0132.10
MA0133.10
MA0135.11.1226
MA0136.10.658622
MA0139.12.74529
MA0140.10.625902
MA0141.11.07584
MA0142.10.876028
MA0143.10.725672
MA0144.11.502
MA0145.10.119202
MA0146.13.00399
MA0147.10.320675
MA0148.10.553294
MA0149.10.464445
MA0062.20.591842
MA0035.20.630778
MA0039.21.05907
MA0138.20.788113
MA0002.20.246463
MA0137.21.88035
MA0104.20.261255
MA0047.20.685741
MA0112.20.37938
MA0065.20.763394
MA0150.10.520653
MA0151.10
MA0152.10.685852
MA0153.11.13945
MA0154.10.159217
MA0155.10.414701
MA0156.10.406559
MA0157.10.843181
MA0158.10
MA0159.10.331229
MA0160.11.36931
MA0161.10
MA0162.10.397553
MA0163.10.163321
MA0164.10.658997
MA0080.20.393257
MA0018.20.669032
MA0099.20.781628
MA0079.20.221916
MA0102.21.7182
MA0258.10.290587
MA0259.10.309517
MA0442.10
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