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MCL coexpression mm9:1025: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0045198;establishment of epithelial cell polarity;0.0176214447361656;15227!GO:0030859;polarized epithelial cell differentiation;0.0176214447361656;15227!GO:0035089;establishment of apical/basal cell polarity;0.0176214447361656;15227!GO:0045197;establishment and/or maintenance of epithelial cell polarity;0.0176214447361656;15227!GO:0035088;establishment and/or maintenance of apical/basal cell polarity;0.0176214447361656;15227!GO:0001738;morphogenesis of a polarized epithelium;0.0176214447361656;15227!GO:0030010;establishment of cell polarity;0.0176214447361656;15227!GO:0048566;embryonic gut development;0.0176214447361656;15227!GO:0048565;gut development;0.0216849603820765;15227!GO:0007163;establishment and/or maintenance of cell polarity;0.0260176733532009;15227!GO:0001570;vasculogenesis;0.0285761028610465;15227!GO:0030855;epithelial cell differentiation;0.0308432971942609;15227!GO:0048568;embryonic organ development;0.0308432971942609;15227!GO:0007179;transforming growth factor beta receptor signaling pathway;0.0325006961650463;12160!GO:0048513;organ development;0.0325006961650463;15227,12160!GO:0051216;cartilage development;0.0325006961650463;12160!GO:0030198;extracellular matrix organization and biogenesis;0.0363153402358759;15227!GO:0030324;lung development;0.0370449151759794;15227!GO:0030323;respiratory tube development;0.0370449151759794;15227!GO:0048731;system development;0.0371793008965218;15227,12160!GO:0048869;cellular developmental process;0.0371793008965218;15227,12160!GO:0030154;cell differentiation;0.0371793008965218;15227,12160!GO:0007178;transmembrane receptor protein serine/threonine kinase signaling pathway;0.0371793008965218;12160!GO:0001503;ossification;0.0397919222532879;12160!GO:0031214;biomineral formation;0.0397919222532879;12160!GO:0043062;extracellular structure organization and biogenesis;0.0397919222532879;15227!GO:0048856;anatomical structure development;0.0397919222532879;15227,12160!GO:0046849;bone remodeling;0.0397919222532879;12160!GO:0048771;tissue remodeling;0.043510276184561;12160!GO:0002009;morphogenesis of an epithelium;0.043510276184561;15227!GO:0007275;multicellular organismal development;0.043510276184561;15227,12160!
}}
}}

Revision as of 12:50, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:51310245..51310270,-p1@Fam162b
Mm9::chr10:51310279..51310303,-p2@Fam162b
Mm9::chr11:8403889..8403913,-p@chr11:8403889..8403913
-
Mm9::chr8:123606985..123607053,-p1@1110050K14Rik
Mm9::chr8:123607738..123607759,+p@chr8:123607738..123607759
+
Mm9::chr8:123608252..123608268,+p1@Foxf1a
Mm9::chr9:75623162..75623185,+p1@Bmp5


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:0045198establishment of epithelial cell polarity0.0176214447361656
GO:0030859polarized epithelial cell differentiation0.0176214447361656
GO:0035089establishment of apical/basal cell polarity0.0176214447361656
GO:0045197establishment and/or maintenance of epithelial cell polarity0.0176214447361656
GO:0035088establishment and/or maintenance of apical/basal cell polarity0.0176214447361656
GO:0001738morphogenesis of a polarized epithelium0.0176214447361656
GO:0030010establishment of cell polarity0.0176214447361656
GO:0048566embryonic gut development0.0176214447361656
GO:0048565gut development0.0216849603820765
GO:0007163establishment and/or maintenance of cell polarity0.0260176733532009
GO:0001570vasculogenesis0.0285761028610465
GO:0030855epithelial cell differentiation0.0308432971942609
GO:0048568embryonic organ development0.0308432971942609
GO:0007179transforming growth factor beta receptor signaling pathway0.0325006961650463
GO:0048513organ development0.0325006961650463
GO:0051216cartilage development0.0325006961650463
GO:0030198extracellular matrix organization and biogenesis0.0363153402358759
GO:0030324lung development0.0370449151759794
GO:0030323respiratory tube development0.0370449151759794
GO:0048731system development0.0371793008965218
GO:0048869cellular developmental process0.0371793008965218
GO:0030154cell differentiation0.0371793008965218
GO:0007178transmembrane receptor protein serine/threonine kinase signaling pathway0.0371793008965218
GO:0001503ossification0.0397919222532879
GO:0031214biomineral formation0.0397919222532879
GO:0043062extracellular structure organization and biogenesis0.0397919222532879
GO:0048856anatomical structure development0.0397919222532879
GO:0046849bone remodeling0.0397919222532879
GO:0048771tissue remodeling0.043510276184561
GO:0002009morphogenesis of an epithelium0.043510276184561
GO:0007275multicellular organismal development0.043510276184561



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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