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MCL coexpression mm9:293: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.11292479074727,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.444280944590509,0.578840833214305,0,0,0,1.04115866175534,1.00321780165023,0,0,0,0.322458878535173,0.509048236990906,0.453184684220731,0,0,0,0.403405550646212,0.327466262382121,0.428261292319165,0.562490009537864,0.667798391655551,0.0742309351586685,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.20018311764962,0.409716169880713,0,0,0,0,0.410222224266801,0.451786805560604,0.0514050548005424,0.229245865416417,0.445605479897055,0.407611812723932,0.716685534038647,0,0,0,0,0,0,0,0,0.0142930472775233,0,0.0194494484574599,0.278997246791556,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.288576182241383,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.441128239896992,0.801599926265882,0,0,0,0,0,0,0,0,0,0,0,0.223185139893633,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.46393441831215,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.762942003876902,0.670487236271907,0.763904320548157,0.563803311380308,0.398759335856302,0.399810008829701,0.480735069848811,0.278900414858752,0.280187789078248,0.308675506925909,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0269518943326477,0.0242538736058389,0,0,0,0,0,0,0,0,0,0,0.0204343929761501,0,0,0,0,0,0.020400916685161,0,0,0,0,0,0,0.0760168881589905,0.158492393421442,0.197393481413369
|gostat_on_MCL_coexpression=GO:0006342;chromatin silencing;0.00655901656221973;64383,13435!GO:0031507;heterochromatin formation;0.00655901656221973;64383,13435!GO:0045814;negative regulation of gene expression, epigenetic;0.00655901656221973;64383,13435!GO:0016458;gene silencing;0.0163581245209923;64383,13435!GO:0006338;chromatin remodeling;0.0247222116908219;64383,13435!GO:0040029;regulation of gene expression, epigenetic;0.0278597844445692;64383,13435!GO:0003830;beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity;0.0378020051498384;17309!
|gostat_on_MCL_coexpression=GO:0006342;chromatin silencing;0.00655901656221973;64383,13435!GO:0031507;heterochromatin formation;0.00655901656221973;64383,13435!GO:0045814;negative regulation of gene expression, epigenetic;0.00655901656221973;64383,13435!GO:0016458;gene silencing;0.0163581245209923;64383,13435!GO:0006338;chromatin remodeling;0.0247222116908219;64383,13435!GO:0040029;regulation of gene expression, epigenetic;0.0278597844445692;64383,13435!GO:0003830;beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity;0.0378020051498384;17309!
}}
}}

Revision as of 12:39, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:39139854..39139880,+p3@Fyn
Mm9::chr11:100437196..100437214,+p3@Cnp
Mm9::chr11:58996296..58996303,-p3@Gjc2
Mm9::chr11:70420158..70420172,+p5@Mink1
Mm9::chr11:78138175..78138191,+p9@Aldoc
Mm9::chr11:8522555..8522588,-p@chr11:8522555..8522588
-
Mm9::chr12:3806003..3806031,+p11@Dnmt3a
Mm9::chr12:86865781..86865791,+p@chr12:86865781..86865791
+
Mm9::chr13:51844144..51844190,-p4@Sema4d
Mm9::chr14:70928312..70928353,+p@chr14:70928312..70928353
+
Mm9::chr15:80003618..80003634,+p@chr15:80003618..80003634
+
Mm9::chr18:32109225..32109242,-p1@Gpr17
Mm9::chr18:32114761..32114783,+p@chr18:32114761..32114783
+
Mm9::chr1:134603826..134603860,-p2@Nfasc
Mm9::chr1:134603881..134603894,-p3@Nfasc
Mm9::chr1:134603916..134603928,-p4@Nfasc
Mm9::chr2:152777263..152777276,-p2@Dusp15
Mm9::chr2:29701822..29701836,-p@chr2:29701822..29701836
-
Mm9::chr2:29701996..29702014,-p@chr2:29701996..29702014
-
Mm9::chr3:87804765..87804788,-p7@Bcan
Mm9::chr3:87804816..87804827,-p@chr3:87804816..87804827
-
Mm9::chr5:125583272..125583283,-p@chr5:125583272..125583283
-
Mm9::chr7:29075714..29075740,-p@chr7:29075714..29075740
-
Mm9::chr7:29346063..29346073,-p@chr7:29346063..29346073
-
Mm9::chr7:29346120..29346131,-p@chr7:29346120..29346131
-
Mm9::chr7:29551856..29551868,+p2@Sirt2
Mm9::chr7:29569372..29569384,+p5@Sirt2
Mm9::chr9:120084593..120084603,+p@chr9:120084593..120084603
+


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:0006342chromatin silencing0.00655901656221973
GO:0031507heterochromatin formation0.00655901656221973
GO:0045814negative regulation of gene expression, epigenetic0.00655901656221973
GO:0016458gene silencing0.0163581245209923
GO:0006338chromatin remodeling0.0247222116908219
GO:0040029regulation of gene expression, epigenetic0.0278597844445692
GO:0003830beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity0.0378020051498384



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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