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MCL coexpression mm9:926: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000014!1.15e-13!5;UBERON:0001003!1.15e-13!5;UBERON:0002097!1.15e-13!5;UBERON:0002199!1.15e-13!5;UBERON:0007029!1.15e-13!5;UBERON:0007376!1.15e-13!5;UBERON:0002416!1.15e-13!5;UBERON:0007383!1.15e-13!5;UBERON:0001135!4.75e-10!3;UBERON:0004237!4.75e-10!3;UBERON:0004695!4.75e-10!3;UBERON:0002111!4.75e-10!3;UBERON:0004178!4.75e-10!3;UBERON:0000947!1.27e-07!4;UBERON:0001637!1.27e-07!4;UBERON:0004573!1.27e-07!4;UBERON:0003509!1.27e-07!4;UBERON:0004571!1.27e-07!4;UBERON:0010191!1.27e-07!4;UBERON:0004572!1.27e-07!4;UBERON:0003102!5.37e-07!22
|ontology_enrichment_uberon=UBERON:0000014!1.15e-13!5;UBERON:0001003!1.15e-13!5;UBERON:0002097!1.15e-13!5;UBERON:0002199!1.15e-13!5;UBERON:0007029!1.15e-13!5;UBERON:0007376!1.15e-13!5;UBERON:0002416!1.15e-13!5;UBERON:0007383!1.15e-13!5;UBERON:0001135!4.75e-10!3;UBERON:0004237!4.75e-10!3;UBERON:0004695!4.75e-10!3;UBERON:0002111!4.75e-10!3;UBERON:0004178!4.75e-10!3;UBERON:0000947!1.27e-07!4;UBERON:0001637!1.27e-07!4;UBERON:0004573!1.27e-07!4;UBERON:0003509!1.27e-07!4;UBERON:0004571!1.27e-07!4;UBERON:0010191!1.27e-07!4;UBERON:0004572!1.27e-07!4;UBERON:0003102!5.37e-07!22
|tfbs_overrepresentation_for_novel_motifs=0.393008,0.84953,0.367606,0.434198,0.260188,0.448401,0.538088,0.991481,0.535519,0.170907,0.494602,0.526159,0.173454,0.550255,0.756943,0,0.742571,0.252772,0.483643,0.620214,0.332107,0.0622758,0.549359,1.32267,0.374936,0.577606,0.909128,0.469052,0.303071,0.376624,0.455168,0.843667,0.699026,0.136998,0.276324,0.60397,0.242032,0.522578,0.631914,0.570041,0.712303,0.460258,0.450632,0.761266,0.0824666,0.423266,0.662995,0.484612,1.06276,0.305876,0.725127,0.604356,0.732634,0.985264,1.00271,0.557354,0.844204,0.513517,0.447041,0.555328,0.823643,0.613749,0.192045,0.713876,0.568415,0.754324,1.139,1.48833,0.818971,1.34113,0.349355,0.178433,0.0665967,1.03623,0.140213,0.409836,0.42492,0.651651,0.806481,0.336166,0.179489,0.759925,0.612313,0.167672,0.920903,0.025519,0.540827,0.757533,0.667883,1.65055,1.20871,0.925879,0.856465,0.265734,0.218233,1.10739,0.1711,0.859272,0.663249,0.332938,0.242106,0.843387,0.967837,0.725721,0.724668,0.459825,0.784351,0.480639,0.340849,0.333829,1.00333,0.96962,0.337254,0.499714,1.21576,0.708441,0.0359654,0.437894,0.743872,0.670977,1.04163,0.692953,0.579418,0.650748,1.26989,0.810177,0.546178,0.849691,1.13749,0.740166,0.950857,1.09252,1.10792,0.570914,1.23736,0.479867,0.401212,0.461647,1.18819,2.01886,1.6187,1.14372,1.44306,0.854131,0.718197,0.460705,1.59948,1.9792,0.403515,0.261837,0.120154,0.0553085,0.986833,0.598134,0.569994,1.06851,1.47241,0.782826,0.39061,0.400939,1.1977,0.920047,0.810622,0.383936,0.714896,0.562634,0.240994,0.524587,0.0131724
}}
}}

Revision as of 19:07, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:98909393..98909430,+p@chr11:98909393..98909430
+
Mm9::chr17:64212390..64212429,+p@chr17:64212390..64212429
+
Mm9::chr19:7613621..7613623,+p@chr19:7613621..7613623
+
Mm9::chr1:40496487..40496494,+p3@Il1rl1
Mm9::chr1:40496612..40496633,+p1@Il1rl1
Mm9::chr3:151668462..151668472,-p@chr3:151668462..151668472
-
Mm9::chr5:99372782..99372792,-p6@Prkg2
Mm9::chr8:87160297..87160316,+p@chr8:87160297..87160316
+


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:0004692cGMP-dependent protein kinase activity0.00971838531944563
GO:0004690cyclic nucleotide-dependent protein kinase activity0.00971838531944563
GO:0004908interleukin-1 receptor activity0.00971838531944563
GO:0019966interleukin-1 binding0.00971838531944563
GO:0019002GMP binding0.00971838531944563
GO:0030553cGMP binding0.00971838531944563
GO:0005952cAMP-dependent protein kinase complex0.00971838531944563
GO:0008603cAMP-dependent protein kinase regulator activity0.0113371842039205
GO:0030551cyclic nucleotide binding0.0159529763788705
GO:0004907interleukin receptor activity0.0247194069537288
GO:0019965interleukin binding0.0247194069537288
GO:0019838growth factor binding0.0308310436698183
GO:0004896hematopoietin/interferon-class (D200-domain) cytokine receptor activity0.0313591463294665
GO:0019887protein kinase regulator activity0.0337087347741023
GO:0019955cytokine binding0.0337087347741023
GO:0019207kinase regulator activity0.0348969287172017
GO:0045087innate immune response0.0394855055171229



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>



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}}}