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MCL coexpression mm9:434: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0.00422339641551128,0,0,0,0,0.0103238257679997,0,0.341363976287082,0.848652167053604,0.771980817066659,0.249240838045291,0.235010375921817,0.193311068417774,0.101149235361393,0,0,0,0.168259719722084,0.105247439647798,0.266885070731364,0,0.0126636094651504,0.0437097647968178,0,0,0,0,0.0565538964722575,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.768319519736331,0.671456006153394,0.582505786775458,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0317017435824471,0.0316393102377815,0.110544086345426,0,0,0,0,0,0,0,0,0,0.0155334618542009,0,0,0,0,0,0,0,0.181236227563129,0,0,0,0.0330482552284861,0,0,0,0,0,0,0,0,0,0,0,0,0,0.267700880978238,0.204093579732844,0.178482233814886,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0061234876654026,0,0.00154250009447637,0.0994554632344034,0.0515461968557577,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0333670692513987,0,0.00849251115403907,0,0,0,0,0,0,0,0,0.0412303048251358,0,0,0.0198434557559176,0,0,0,0,0,0,0,0,0,0,0,0.0609790671339316,0.0957659280544121,0,0,0,0,0.0668404256357739,0.0140953512806991,0,0.00924066284364929,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0583582894605203,0,0.083442441818608,0,0,0.00358815740051649,0,0,0,0,0,0,0,0,0,0,0,0.372880246776418,0.340376032847516,0.293909973384914,0,0,0,0,0,0,0,0.00936619759894336,0,0,0,0,0,0,0,0,0.0107240863946166,0,0,0.0256102654131538,0,0,0,0,0,0,0,0.0462408736206342,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0730404042754446,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0044451;nucleoplasm part;0.0220916838479725;13619,21815,12916!GO:0005654;nucleoplasm;0.0220916838479725;13619,21815,12916!GO:0008432;JUN kinase binding;0.0220916838479725;21815!GO:0031981;nuclear lumen;0.0220916838479725;13619,21815,12916!GO:0031974;membrane-enclosed lumen;0.0220916838479725;13619,21815,12916!GO:0043233;organelle lumen;0.0220916838479725;13619,21815,12916!GO:0007283;spermatogenesis;0.0233882010690361;14312,12916!GO:0048232;male gamete generation;0.0233882010690361;14312,12916!GO:0005634;nucleus;0.0277644688566074;20482,14312,13619,21815,12916!GO:0044428;nuclear part;0.0277644688566074;13619,21815,12916!GO:0007276;gamete generation;0.0277644688566074;14312,12916!GO:0019953;sexual reproduction;0.03423568125556;14312,12916!GO:0001739;sex chromatin;0.03423568125556;13619!GO:0000803;sex chromosome;0.0344347483300447;13619!GO:0003724;RNA helicase activity;0.0346065965449581;13209!GO:0003676;nucleic acid binding;0.0403273692115077;13619,21815,12916,13209!GO:0005667;transcription factor complex;0.0436719040086291;21815,12916!GO:0000003;reproduction;0.0436719040086291;14312,12916!GO:0005720;nuclear heterochromatin;0.0436719040086291;13619!GO:0043565;sequence-specific DNA binding;0.0436719040086291;21815,12916!
|gostat_on_MCL_coexpression=GO:0044451;nucleoplasm part;0.0220916838479725;13619,21815,12916!GO:0005654;nucleoplasm;0.0220916838479725;13619,21815,12916!GO:0008432;JUN kinase binding;0.0220916838479725;21815!GO:0031981;nuclear lumen;0.0220916838479725;13619,21815,12916!GO:0031974;membrane-enclosed lumen;0.0220916838479725;13619,21815,12916!GO:0043233;organelle lumen;0.0220916838479725;13619,21815,12916!GO:0007283;spermatogenesis;0.0233882010690361;14312,12916!GO:0048232;male gamete generation;0.0233882010690361;14312,12916!GO:0005634;nucleus;0.0277644688566074;20482,14312,13619,21815,12916!GO:0044428;nuclear part;0.0277644688566074;13619,21815,12916!GO:0007276;gamete generation;0.0277644688566074;14312,12916!GO:0019953;sexual reproduction;0.03423568125556;14312,12916!GO:0001739;sex chromatin;0.03423568125556;13619!GO:0000803;sex chromosome;0.0344347483300447;13619!GO:0003724;RNA helicase activity;0.0346065965449581;13209!GO:0003676;nucleic acid binding;0.0403273692115077;13619,21815,12916,13209!GO:0005667;transcription factor complex;0.0436719040086291;21815,12916!GO:0000003;reproduction;0.0436719040086291;14312,12916!GO:0005720;nuclear heterochromatin;0.0436719040086291;13619!GO:0043565;sequence-specific DNA binding;0.0436719040086291;21815,12916!
}}
}}

Revision as of 12:41, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:13589556..13589587,-p@chr10:13589556..13589587
-
Mm9::chr11:23646730..23646750,-p@chr11:23646730..23646750
-
Mm9::chr11:23648455..23648462,-p@chr11:23648455..23648462
-
Mm9::chr17:34256262..34256285,-p@chr17:34256262..34256285
-
Mm9::chr17:71200529..71200556,-p1@Tgif1
Mm9::chr17:71200558..71200572,-p4@Tgif1
Mm9::chr17:71200676..71200704,+p@chr17:71200676..71200704
+
Mm9::chr17:71201050..71201078,-p9@Tgif1
Mm9::chr18:3281015..3281028,-p18@Crem
Mm9::chr18:3281725..3281740,-p3@Crem
Mm9::chr18:3281750..3281776,-p2@Crem
Mm9::chr1:173848007..173848014,+p@chr1:173848007..173848014
+
Mm9::chr3:21852105..21852114,+p@chr3:21852105..21852114
+
Mm9::chr3:30993641..30993651,+p7@Skil
Mm9::chr4:32337706..32337718,-p@chr4:32337706..32337718
-
Mm9::chr6:122290517..122290528,-p15@Phc1
Mm9::chr9:44413016..44413033,+p3@Ddx6


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:0044451nucleoplasm part0.0220916838479725
GO:0005654nucleoplasm0.0220916838479725
GO:0008432JUN kinase binding0.0220916838479725
GO:0031981nuclear lumen0.0220916838479725
GO:0031974membrane-enclosed lumen0.0220916838479725
GO:0043233organelle lumen0.0220916838479725
GO:0007283spermatogenesis0.0233882010690361
GO:0048232male gamete generation0.0233882010690361
GO:0005634nucleus0.0277644688566074
GO:0044428nuclear part0.0277644688566074
GO:0007276gamete generation0.0277644688566074
GO:0019953sexual reproduction0.03423568125556
GO:0001739sex chromatin0.03423568125556
GO:0000803sex chromosome0.0344347483300447
GO:0003724RNA helicase activity0.0346065965449581
GO:0003676nucleic acid binding0.0403273692115077
GO:0005667transcription factor complex0.0436719040086291
GO:0000003reproduction0.0436719040086291
GO:0005720nuclear heterochromatin0.0436719040086291
GO:0043565sequence-specific DNA binding0.0436719040086291



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>disease_data<br>

Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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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