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MCL coexpression mm9:210: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0003350!5.45e-16!9;UBERON:0004808!5.45e-16!9;UBERON:0001277!5.45e-16!9;UBERON:0000485!6.23e-13!11;UBERON:0001242!8.20e-11!13;UBERON:0000060!8.20e-11!13;UBERON:0001262!8.20e-11!13;UBERON:0004786!8.20e-11!13;UBERON:0000344!2.94e-09!15;UBERON:0002384!3.64e-08!46
|ontology_enrichment_uberon=UBERON:0003350!5.45e-16!9;UBERON:0004808!5.45e-16!9;UBERON:0001277!5.45e-16!9;UBERON:0000485!6.23e-13!11;UBERON:0001242!8.20e-11!13;UBERON:0000060!8.20e-11!13;UBERON:0001262!8.20e-11!13;UBERON:0004786!8.20e-11!13;UBERON:0000344!2.94e-09!15;UBERON:0002384!3.64e-08!46
|tfbs_overrepresentation_for_novel_motifs=0.265401,0.195464,1.03458,0.144193,0.195431,0.157279,0.0718138,0.0661182,0.42176,0.518723,0.447974,0.237602,0.0256018,0.265233,0.225204,0,0.176334,0.527154,0.492321,0.346427,0.578036,0.367278,0.264183,0.346887,0.236835,0.298017,0.0998,0.705582,0.482078,0.406379,0.373023,0.241883,0.0808269,0.140896,0.623839,0.1246,0.300023,0.503895,0.247039,0.0934258,0.188547,0.680187,0.304947,0.0375952,0.633443,0.0333208,0.812691,0.428539,0.204696,0.286874,0.497135,0.678642,0.372939,0.345318,0.358841,0.2736,0.788966,0.837773,1.30871,0.271202,0.646878,1.15519,0.469608,0.480792,0.599924,0.540314,0.469298,0.779659,0.639531,0.645209,0.385974,0.595585,1.10312,0.385253,0.0350744,0.216072,1.4891,0.39364,0.21687,0.180201,0.601779,1.65333,0.696443,0.986569,0.296819,0.293951,0.092357,0.569541,0.41582,0.932016,1.31029,0.300486,0.699119,0.0955531,0.595299,0.0421883,0.375569,0.25267,0.409447,0.00367388,0.300223,0.678177,0.331962,0.498003,0.496465,0.043853,0.202468,0.188857,0.365753,0.177001,0.769313,0.333321,0.595581,0.796092,0.534653,0.535089,0.374803,0.341748,0.177127,0.157424,0.389556,0.14722,0.30024,0.124234,0.581865,0.219311,1.40488,0.246028,0.468027,0.591365,0.319105,0.137799,0.443426,0.605306,0.553389,0.0620373,0.115854,0.385005,1.2728,1.28785,0.901817,0.473251,0.0949151,0.69537,0.161761,0.383255,0.819982,1.24909,0.282602,0.56382,0.101942,0.1375,0.915958,0.772179,0.603323,1.05804,0.680878,0.118702,0.261535,0.516289,0.519098,0.29619,0.626457,0.250896,0.936375,0.587532,0.0232209,0.066474,0.917317
}}
}}

Revision as of 17:59, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:109223249..109223256,+p@chr11:109223249..109223256
+
Mm9::chr11:109223375..109223389,+p@chr11:109223375..109223389
+
Mm9::chr11:46250533..46250552,+p4@Med7
Mm9::chr11:69224327..69224356,+p@chr11:69224327..69224356
+
Mm9::chr11:93856714..93856728,+p@chr11:93856714..93856728
+
Mm9::chr12:105452722..105452742,+p2@Serpina3f
p2@Serpina3g
Mm9::chr12:105452748..105452759,+p1@Serpina3f
p1@Serpina3g
Mm9::chr12:86815252..86815257,+p11@Fos
Mm9::chr12:88177893..88177896,+p@chr12:88177893..88177896
+
Mm9::chr13:53097230..53097239,+p@chr13:53097230..53097239
+
Mm9::chr13:83713633..83713642,+p@chr13:83713633..83713642
+
Mm9::chr13:8994837..8994857,+p@chr13:8994837..8994857
+
Mm9::chr17:29232354..29232361,-p@chr17:29232354..29232361
-
Mm9::chr17:29626175..29626182,+p@chr17:29626175..29626182
+
Mm9::chr17:35188211..35188241,-p@chr17:35188211..35188241
-
Mm9::chr19:46379320..46379329,+p9@Nfkb2
Mm9::chr1:132934560..132934561,-p@chr1:132934560..132934561
-
Mm9::chr1:187027697..187027717,-p@chr1:187027697..187027717
-
Mm9::chr1:193007123..193007139,-p1@Atf3
Mm9::chr1:66863031..66863035,+p@chr1:66863031..66863035
+
Mm9::chr1:74342572..74342575,+p@chr1:74342572..74342575
+
Mm9::chr2:11457337..11457348,+p@chr2:11457337..11457348
+
Mm9::chr2:155651874..155651887,+p@chr2:155651874..155651887
+
Mm9::chr2:167209562..167209573,+p@chr2:167209562..167209573
+
Mm9::chr2:167209584..167209596,+p@chr2:167209584..167209596
+
Mm9::chr2:167246951..167246967,-p@chr2:167246951..167246967
-
Mm9::chr3:65762631..65762643,+p@chr3:65762631..65762643
+
Mm9::chr4:129178014..129178028,-p@chr4:129178014..129178028
-
Mm9::chr5:148672261..148672270,+p3@Pomp
Mm9::chr5:92777897..92777912,-p1@Cxcl10
Mm9::chr6:108609658..108609661,+p@chr6:108609658..108609661
+
Mm9::chr6:134742411..134742424,-p4@Dusp16
Mm9::chr6:37682625..37682629,+p@chr6:37682625..37682629
+
Mm9::chr6:53523649..53523653,+p@chr6:53523649..53523653
+
Mm9::chr7:19895040..19895049,-p5@Fosb
Mm9::chr7:20408246..20408265,+p@chr7:20408246..20408265
+
Mm9::chr7:29166897..29166918,-p@chr7:29166897..29166918
-
Mm9::chr7:29166951..29166962,-p@chr7:29166951..29166962
-
Mm9::chr7:29964591..29964598,+p@chr7:29964591..29964598
+
Mm9::chr8:35013053..35013058,-p@chr8:35013053..35013058
-
Mm9::chr8:86716164..86716184,+p@chr8:86716164..86716184
+
Mm9::chr9:32310107..32310119,-p@chr9:32310107..32310119
-
Mm9::chr9:40129323..40129336,+p@chr9:40129323..40129336
+
Mm9::chr9:44318264..44318273,-p@chr9:44318264..44318273
-


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:0006955immune response0.00826053774179675
GO:0002376immune system process0.0201741699337101
GO:0005634nucleus0.0240180846587962
GO:0005667transcription factor complex0.0240180846587962
GO:0002266follicular dendritic cell activation0.0240180846587962
GO:0002268follicular dendritic cell differentiation0.0240180846587962
GO:0004867serine-type endopeptidase inhibitor activity0.0240180846587962
GO:0044451nucleoplasm part0.0316694213930111
GO:0005654nucleoplasm0.0316694213930111
GO:0004866endopeptidase inhibitor activity0.0316694213930111
GO:0030414protease inhibitor activity0.0316694213930111
GO:0031981nuclear lumen0.0370814706951127
GO:0002467germinal center formation0.0370814706951127
GO:0048536spleen development0.0370814706951127
GO:0046983protein dimerization activity0.0370814706951127
GO:0004857enzyme inhibitor activity0.0370814706951127
GO:0000188inactivation of MAPK activity0.0370814706951127
GO:0031974membrane-enclosed lumen0.0370814706951127
GO:0043233organelle lumen0.0370814706951127
GO:0043234protein complex0.0370814706951127
GO:0003700transcription factor activity0.0440768544957696
GO:0006355regulation of transcription, DNA-dependent0.0479074026411149
GO:0006351transcription, DNA-dependent0.0479074026411149
GO:0032774RNA biosynthetic process0.0479074026411149
GO:0043407negative regulation of MAP kinase activity0.0479074026411149
GO:0048535lymph node development0.0479074026411149
GO:0006094gluconeogenesis0.0479074026411149
GO:0045449regulation of transcription0.0479074026411149
GO:0043231intracellular membrane-bound organelle0.0479074026411149
GO:0043227membrane-bound organelle0.0479074026411149
GO:0019219regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0479074026411149
GO:0044428nuclear part0.0479074026411149
GO:0006350transcription0.0479074026411149
GO:0006090pyruvate metabolic process0.0479074026411149
GO:0032991macromolecular complex0.0485576093868489
GO:0019319hexose biosynthetic process0.0485576093868489
GO:0010468regulation of gene expression0.0485576093868489
GO:0046165alcohol biosynthetic process0.0485576093868489
GO:0046364monosaccharide biosynthetic process0.0485576093868489
GO:0005515protein binding0.0485576093868489



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}}}

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