Personal tools

MCL coexpression mm9:488

From FANTOM5_SSTAR

Revision as of 11:09, 11 October 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


Phase1 CAGE Peaks

 Short description
Mm9::chr11:28630472..28630482,+p@chr11:28630472..28630482
+
Mm9::chr14:61104032..61104041,+p@chr14:61104032..61104041
+
Mm9::chr1:24237646..24237669,+p@chr1:24237646..24237669
+
Mm9::chr3:128897563..128897574,+p@chr3:128897563..128897574
+
Mm9::chr5:35735487..35735491,+p@chr5:35735487..35735491
+
Mm9::chr6:70906450..70906454,+p1@Foxi3
Mm9::chr6:83660844..83660859,-p1@Vax2os1
Mm9::chr6:97891135..97891147,+p@chr6:97891135..97891147
+
Mm9::chr6:97891166..97891186,+p@chr6:97891166..97891186
+
Mm9::chr6:97891189..97891203,+p@chr6:97891189..97891203
+
Mm9::chr6:97891221..97891223,+p@chr6:97891221..97891223
+
Mm9::chr7:94641837..94641850,-p@chr7:94641837..94641850
-
Mm9::chr8:122025598..122025626,-p1@Slc38a8
Mm9::chr8:122025661..122025666,-p2@Slc38a8
Mm9::chr9:57976869..57976875,+p21@Stra6


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:0004503monophenol monooxygenase activity0.0101895474352689
GO:0016716oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, another compound as one donor, and incorporation of one atom of oxygen0.0101895474352689
GO:0006583melanin biosynthetic process from tyrosine0.0203701635264731
GO:0006582melanin metabolic process0.0203701635264731
GO:0042438melanin biosynthetic process0.0203701635264731
GO:0006570tyrosine metabolic process0.022064049524218
GO:0009072aromatic amino acid family metabolic process0.0330725015878092
GO:0046148pigment biosynthetic process0.0330725015878092
GO:0042440pigment metabolic process0.0350415925669434
GO:0030141secretory granule0.0386439563197676
GO:0019748secondary metabolic process0.0397424554979222
GO:0005507copper ion binding0.0457224475371469
GO:0046982protein heterodimerization activity0.0468793886931207



Relative expression of the co-expression cluster over median <br>Analyst:



"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.

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}}}