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MCL coexpression mm9:786: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004121!1.52e-19!95;UBERON:0000924!1.52e-19!95;UBERON:0006601!1.52e-19!95;UBERON:0001016!5.19e-18!75;UBERON:0001017!1.05e-16!73;UBERON:0010371!2.04e-13!73;UBERON:0002346!3.13e-12!64;UBERON:0003075!3.13e-12!64;UBERON:0007284!3.13e-12!64;UBERON:0000010!1.16e-10!11;UBERON:0010314!6.02e-10!92;UBERON:0000073!1.12e-09!54;UBERON:0002410!2.62e-09!9;UBERON:0001049!1.46e-08!52;UBERON:0005068!1.46e-08!52;UBERON:0006241!1.46e-08!52;UBERON:0007135!1.46e-08!52;UBERON:0002021!7.31e-08!10;UBERON:0000411!7.31e-08!10;UBERON:0001950!7.31e-08!10
|ontology_enrichment_uberon=UBERON:0004121!1.52e-19!95;UBERON:0000924!1.52e-19!95;UBERON:0006601!1.52e-19!95;UBERON:0001016!5.19e-18!75;UBERON:0001017!1.05e-16!73;UBERON:0010371!2.04e-13!73;UBERON:0002346!3.13e-12!64;UBERON:0003075!3.13e-12!64;UBERON:0007284!3.13e-12!64;UBERON:0000010!1.16e-10!11;UBERON:0010314!6.02e-10!92;UBERON:0000073!1.12e-09!54;UBERON:0002410!2.62e-09!9;UBERON:0001049!1.46e-08!52;UBERON:0005068!1.46e-08!52;UBERON:0006241!1.46e-08!52;UBERON:0007135!1.46e-08!52;UBERON:0002021!7.31e-08!10;UBERON:0000411!7.31e-08!10;UBERON:0001950!7.31e-08!10
|tfbs_overrepresentation_for_novel_motifs=0.354643,0.706384,0.330161,1.02163,0.227651,0.40827,0.495658,0.146465,0.468136,0.133458,0.453212,0.484001,0.88117,0.507558,0.24249,0,0.696644,0.22065,0.134657,1.87915,0.296085,1.09871,0.50668,0.226287,0.337218,0.534339,0.801525,0.428336,0.268347,0.656973,0.414842,0.796599,0.218674,1.20742,0.242923,0.281474,0.210533,1.20775,0.559915,0.167387,0.224094,0.419787,0.163087,0.684206,1.14242,0.383899,0.618203,0.443479,0.573356,0.271021,0.679429,0.560572,0.0915709,0.937018,0.954342,0.514504,0.279148,0.471658,0.770972,0.512521,0.776777,1.39755,0.163832,0.668331,0.525334,0.708248,1.08987,1.43807,0.772155,1.29123,0.31262,0.151245,1.14319,0.987652,0.116281,0.107966,0.735293,0.607043,0.759798,3.11699,0.463363,0.713779,0.568383,0.436063,0.873141,0.0176817,0.231102,0.319367,1.50944,1.60001,1.15927,0.878077,0.809272,0.657661,1.05175,2.24639,0.14449,0.812053,0.618454,2.02396,0.210602,0.796322,0.919715,0.680015,0.678976,0.419366,0.737915,0.439611,0.30446,0.297733,0.348012,0.921485,0.301014,0.458194,1.16629,0.633313,0.265919,0.398075,0.697928,0.207304,0.993019,0.647706,0.536114,0.606154,1.22022,0.763454,0.503569,0.802564,1.08836,0.235546,0.90286,0.387557,1.05894,1.30862,1.18781,1.08745,0.362565,0.421136,1.13883,1.96797,1.5682,1.09456,0.547855,0.806961,0.672593,0.420221,1.50578,1.92834,0.364791,0.229209,1.10522,0.659481,0.938577,1.01208,0.526881,3.80513,0.561556,0.253271,0.352329,0.362302,1.1483,0.872292,0.763895,0.345891,0.669337,0.519673,0.602679,0.482466,0.976805
}}
}}

Revision as of 18:54, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:42825666..42825689,+p@chr11:42825666..42825689
+
Mm9::chr12:104480353..104480358,-p1@Prima1
Mm9::chr5:138397573..138397584,-p@chr5:138397573..138397584
-
Mm9::chr5:138404257..138404268,-p6@Gjc3
Mm9::chr5:138404270..138404284,-p3@Gjc3
Mm9::chr5:138404315..138404337,-p1@Gjc3
Mm9::chr6:54222760..54222771,+p10@Chn2
Mm9::chrX:71002383..71002400,+p2@Plxnb3
Mm9::chrX:71002408..71002450,+p1@Plxnb3


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:0043495protein anchor0.0173122226483318
GO:0019226transmission of nerve impulse0.0288442203433327
GO:0043209myelin sheath0.0288442203433327
GO:0007267cell-cell signaling0.0337350983427982
GO:0042135neurotransmitter catabolic process0.0337350983427982
GO:0030054cell junction0.0337350983427982
GO:0005243gap junction channel activity0.0345760995020743
GO:0022829wide pore channel activity0.0345760995020743
GO:0005922connexon complex0.0345760995020743
GO:0005921gap junction0.0385307930310905
GO:0042552myelination0.0385307930310905
GO:0007272ensheathment of neurons0.0385307930310905
GO:0008366axon ensheathment0.0385307930310905
GO:0042133neurotransmitter metabolic process0.0425773023168946
GO:0001508regulation of action potential0.0425773023168946
GO:0019992diacylglycerol binding0.0456610213962079
GO:0014704intercalated disc0.0456610213962079
GO:0019717synaptosome0.0498038493125529



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>cell_data<br>uberon_data<br><br>


Cell Type
Ontology termp-valuen
autonomic neuron2.62e-099
ectodermal cell8.13e-0844
neurectodermal cell8.13e-0844
neuron1.24e-0733
neuronal stem cell1.24e-0733
neuroblast1.24e-0733
electrically signaling cell1.24e-0733
neural cell3.03e-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)

{{{tfbs_overrepresentation_jaspar}}}