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MCL coexpression mm9:244: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=
|ontology_enrichment_uberon=
|tfbs_overrepresentation_for_novel_motifs=0.0508136,0.714824,0.162779,0.0666574,0.596158,0.539901,0.115611,0.158461,0.511402,0.0323879,0.311617,0.353689,0.0227086,0.122119,0.0810557,0,0.242789,1.1969,0.87688,0.531374,0.30361,0.450742,0.121635,0.179733,0.385766,0.425821,0.386136,0.585756,0.25179,0.0668555,0.261652,0.317094,0.0632527,0.704421,0.0813985,0.336858,0.01186,0.348826,1.34653,0.00589464,0.581928,0.267928,0.101264,0.0824796,0.061901,0.223571,0.189134,0.298674,0.396409,1.13031,0.230631,0.152832,0.224074,0.430267,0.44481,0.125986,1.17536,0.102941,0.768045,0.124877,0.301892,0.158445,0.815195,0.222903,0.132112,0.251098,0.562061,0.88291,0.298379,0.744997,0.0364155,0.168686,0.00101326,0.473077,0.0119716,0.170406,1.92679,0.181883,0.289046,0.568547,0.170798,0.25509,0.476703,0.668266,0.37768,2.25117e-06,0.0913171,0.388434,0.561427,1.03797,0.624114,0.381683,0.326924,0.921664,0.0435786,0.878177,0.154303,0.329091,1.05607,0.301946,0.311947,0.849786,0.415858,0.231041,0.230314,0.0775753,0.272737,0.087018,0.319852,0.0319054,0.182167,0.417326,0.313137,0.096109,0.630454,2.04084,0.00256004,0.240758,0.243704,0.515697,0.477668,0.208777,0.138324,0.18131,1.62743,1.444,0.38126,0.32171,0.560724,1.29861,1.03789,0.849872,0.534808,0.416208,0.649958,8.51851,0.439142,0.26965,0.605717,1.39723,1.00731,0.566216,0.145218,0.86826,0.641177,1.43375,0.191141,1.35822,0.774625,0.0708744,0.0270604,5.22166e-05,0.431571,0.40564,1.9297,0.500669,0.466374,0.224997,0.18698,0.0536966,0.61423,0.376993,3.06662,0.179819,0.223599,0.804679,0.309198,2.33909,0.0326711
}}
}}

Revision as of 18:02, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:127934445..127934460,-p@chr10:127934445..127934460
-
Mm9::chr11:11736215..11736234,-p6@Ddc
Mm9::chr11:66891795..66891809,+p1@Myh3
Mm9::chr11:67090670..67090685,+p3@Myh8
Mm9::chr11:78860985..78860998,-p@chr11:78860985..78860998
-
Mm9::chr11:85553408..85553419,+p@chr11:85553408..85553419
+
Mm9::chr11:85553433..85553449,+p@chr11:85553433..85553449
+
Mm9::chr11:85553450..85553467,+p@chr11:85553450..85553467
+
Mm9::chr14:61748215..61748225,+p@chr14:61748215..61748225
+
Mm9::chr16:87553762..87553775,+p3@ORF63
Mm9::chr17:57144287..57144315,-p@chr17:57144287..57144315
-
Mm9::chr18:14490364..14490376,+p@chr18:14490364..14490376
+
Mm9::chr18:9282716..9282737,-p1@Gjd4
Mm9::chr1:195024087..195024100,-p4@Traf3ip3
Mm9::chr1:20659960..20659965,+p@chr1:20659960..20659965
+
Mm9::chr1:89087199..89087215,+p1@Chrnd
Mm9::chr2:26927636..26927690,-p1@Tmem8c
Mm9::chr2:26927695..26927706,-p3@Tmem8c
Mm9::chr2:26927723..26927736,-p2@Tmem8c
Mm9::chr2:32231819..32231835,+p@chr2:32231819..32231835
+
Mm9::chr4:57509423..57509468,-p@chr4:57509423..57509468
-
Mm9::chr7:149850690..149850736,-p@chr7:149850690..149850736
-
Mm9::chr7:149851034..149851062,+p1@ENSMUST00000124393
Mm9::chr7:149851708..149851725,+p@chr7:149851708..149851725
+
Mm9::chr7:52895254..52895267,+p3@Mamstr
Mm9::chr7:56627564..56627586,+p@chr7:56627564..56627586
+
Mm9::chr7:56627587..56627609,+p@chr7:56627587..56627609
+
Mm9::chr7:56627610..56627621,+p@chr7:56627610..56627621
+
Mm9::chr7:97763588..97763602,+p@chr7:97763588..97763602
+
Mm9::chr8:15060314..15060346,+p4@Myom2
Mm9::chrX:109058005..109058019,+p@chrX:109058005..109058019
+
Mm9::chrX:22843877..22843932,-p4@Klhl13
Mm9::chrX:46817103..46817150,+p3@Arhgap36
Mm9::chrX:47132360..47132371,-p@chrX:47132360..47132371
-


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:0032982myosin filament9.76695101994067e-07
GO:0005863striated muscle thick filament9.76695101994067e-07
GO:0005859muscle myosin complex9.76695101994067e-07
GO:0016460myosin II complex1.12649264147249e-06
GO:0006941striated muscle contraction5.86459433916485e-06
GO:0016459myosin complex3.89099431944124e-05
GO:0030017sarcomere5.20620022734386e-05
GO:0044449contractile fiber part5.2126216070485e-05
GO:0030016myofibril5.81250692676225e-05
GO:0043292contractile fiber5.81250692676225e-05
GO:0003012muscle system process6.07654751973719e-05
GO:0006936muscle contraction6.07654751973719e-05
GO:0015629actin cytoskeleton0.000671897870755431
GO:0043234protein complex0.00211056088786752
GO:0004058aromatic-L-amino-acid decarboxylase activity0.00426596541207838
GO:0032991macromolecular complex0.00552955323598374
GO:0044430cytoskeletal part0.00993483187520388
GO:0042166acetylcholine binding0.0248561824957541
GO:0008307structural constituent of muscle0.0269067972055477
GO:0005892nicotinic acetylcholine-gated receptor-channel complex0.0304186392640424
GO:0042423catecholamine biosynthetic process0.0304186392640424
GO:0003779actin binding0.0308597819321685
GO:0005856cytoskeleton0.0309000988926995
GO:0004889nicotinic acetylcholine-activated cation-selective channel activity0.0372342674965943
GO:0043176amine binding0.0382907622951478
GO:0022829wide pore channel activity0.0410022296813245
GO:0005243gap junction channel activity0.0410022296813245
GO:0005922connexon complex0.0410022296813245
GO:0008092cytoskeletal protein binding0.0437506936400608
GO:0042401biogenic amine biosynthetic process0.0473077587822354
GO:0022803passive transmembrane transporter activity0.0473077587822354
GO:0015267channel activity0.0473077587822354
GO:0030054cell junction0.0473077587822354
GO:0016831carboxy-lyase activity0.0473077587822354
GO:0005921gap junction0.0473077587822354
GO:0042398amino acid derivative biosynthetic process0.0485726485829697
GO:0018958phenol metabolic process0.0485726485829697
GO:0006584catecholamine metabolic process0.0485726485829697



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><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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