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MCL coexpression mm9:3171: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.833182157289936,0.627175361273284,0.231008947931991,0.127893569522672,0.0333321253665857,0.972611742268638,0.661267014639728,0,0,0.0106897513843695,0.119078361648301,0.149632666139897,0.153628809860867,0.0354470656487682,0.0786677159214676,0.100783889465809,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.689643313234248,1.23285584551451,0.920610194705098,0.337751283747623,0.226095853111613,0.592516742194489,0,0,0,0,0,0,0,0,0,0,0.953227176495255,0.988489338339128,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0317017435824471,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.487350953621439,0,0,0,0,0,0.0482820047261801,0,0,0.0586534975690397,0,0,0,0,0,0,0,0,0.13336176105449,0.204093579732844,0.276344963129511,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.180325425270187,0.108620321524749,0,0.0117148390951421,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.079479943783859,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0849828766602549,0,0,0,0,0,0,0.0294389011296462,0,0,0,0,0,0,0,0,0,0.016771990203214,0,0,0,0,0,0.0219694433443352,0,0,0.0152721857219308,0,0.191523550257637,0,0,0,0,0,0,0,0,0.086880916817156,0,0.0659019793256198,0.128841727545421,0.198271062479628,0,0,0,0.10582914506561,0,0,0,0.0977676536600382,0,0,0,0,0,0,0,0,0,0,0.0576433181427177,0,0,0,0,0.0179824310150462,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0662835200988411,0,0,0,0,0,0,0.226208870161549,0,0,0.138850957170371,0.055643654597214,0.0894734883806707,0.1834399662015,0.185095168672227,0.105986777695408,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0508196513012492,0,0.0801664161057822,0.0811390825906054,0.0530480122014902,0.0715236385554987,0.145309149361067,0.235824448272561,0.112396870443577,0.0417740847988257,0.163531334068437,0.114770581611834,0.111388092060353,0.0764305931706906,0.230771051730937,0,0.0870662137566218,0,0.0673999378519914,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0351544734889112,0.0684580848992459,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0709519923534245,0,0,0,0,0,0,0,0,0,0.0408018333703219,0,0,0,0,0,0,0,0,0
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.833182157289936,0.627175361273284,0.231008947931991,0.127893569522672,0.0333321253665857,0.972611742268638,0.661267014639728,0,0,0.0106897513843695,0.119078361648301,0.149632666139897,0.153628809860867,0.0354470656487682,0.0786677159214676,0.100783889465809,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.689643313234248,1.23285584551451,0.920610194705098,0.337751283747623,0.226095853111613,0.592516742194489,0,0,0,0,0,0,0,0,0,0,0.953227176495255,0.988489338339128,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0317017435824471,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.487350953621439,0,0,0,0,0,0.0482820047261801,0,0,0.0586534975690397,0,0,0,0,0,0,0,0,0.13336176105449,0.204093579732844,0.276344963129511,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.180325425270187,0.108620321524749,0,0.0117148390951421,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.079479943783859,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0849828766602549,0,0,0,0,0,0,0.0294389011296462,0,0,0,0,0,0,0,0,0,0.016771990203214,0,0,0,0,0,0.0219694433443352,0,0,0.0152721857219308,0,0.191523550257637,0,0,0,0,0,0,0,0,0.086880916817156,0,0.0659019793256198,0.128841727545421,0.198271062479628,0,0,0,0.10582914506561,0,0,0,0.0977676536600382,0,0,0,0,0,0,0,0,0,0,0.0576433181427177,0,0,0,0,0.0179824310150462,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0662835200988411,0,0,0,0,0,0,0.226208870161549,0,0,0.138850957170371,0.055643654597214,0.0894734883806707,0.1834399662015,0.185095168672227,0.105986777695408,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0508196513012492,0,0.0801664161057822,0.0811390825906054,0.0530480122014902,0.0715236385554987,0.145309149361067,0.235824448272561,0.112396870443577,0.0417740847988257,0.163531334068437,0.114770581611834,0.111388092060353,0.0764305931706906,0.230771051730937,0,0.0870662137566218,0,0.0673999378519914,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0351544734889112,0.0684580848992459,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0709519923534245,0,0,0,0,0,0,0,0,0,0.0408018333703219,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000084!2.27e-14!11;CL:0000827!2.27e-14!11;CL:0000838!6.67e-13!12;CL:0000791!1.21e-12!9;CL:0000789!1.21e-12!9;CL:0002420!1.21e-12!9;CL:0002419!1.21e-12!9;CL:0000790!1.21e-12!9;CL:0000988!1.42e-12!32;CL:0002032!1.42e-12!32;CL:0000037!1.42e-12!32;CL:0000566!1.42e-12!32;CL:0000837!1.42e-12!32;CL:0000542!1.16e-11!13;CL:0000051!1.16e-11!13;CL:0000624!3.25e-11!8;CL:0002031!4.43e-09!25;CL:0002242!6.78e-09!16;CL:0000893!1.86e-08!6;CL:0002489!1.86e-08!6;CL:0000898!1.86e-08!6;CL:0000809!1.86e-08!6;CL:0000810!1.86e-08!6;CL:0000895!1.86e-08!6;CL:0000808!1.86e-08!6;CL:0000894!1.86e-08!6;CL:0000806!1.86e-08!6;CL:0000807!1.86e-08!6;CL:0000805!1.86e-08!6;CL:0002425!1.86e-08!6;CL:0002436!1.86e-08!6;CL:0002427!1.86e-08!6;CL:0002428!1.86e-08!6;CL:0002429!1.86e-08!6;CL:0002433!1.86e-08!6;CL:0002431!1.86e-08!6;CL:0002432!1.86e-08!6;CL:0000738!3.40e-08!17;CL:0002087!3.40e-08!17;CL:0002320!5.33e-07!46;CL:0000134!5.33e-07!46
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004177!2.34e-18!29;UBERON:0005057!2.34e-18!29;UBERON:0002390!5.86e-17!45;UBERON:0003061!5.86e-17!45;UBERON:0002193!6.42e-17!48;UBERON:0002405!6.42e-17!48;UBERON:0002370!2.85e-16!23;UBERON:0000974!2.85e-16!23;UBERON:0004807!2.85e-16!23;UBERON:0005058!2.85e-16!23;UBERON:0003351!2.85e-16!23;UBERON:0009113!2.85e-16!23;UBERON:0003295!2.85e-16!23;UBERON:0009722!2.85e-16!23;UBERON:0005562!2.85e-16!23;UBERON:0007690!2.85e-16!23;UBERON:0006562!2.36e-15!24;UBERON:0003408!2.36e-15!24;UBERON:0001557!2.36e-15!24;UBERON:0001042!2.36e-15!24;UBERON:0008814!2.36e-15!24;UBERON:0009145!2.36e-15!24;UBERON:0000077!5.22e-14!35;UBERON:0000072!5.15e-13!27;UBERON:0000065!2.77e-12!41;UBERON:0001004!7.95e-12!42;UBERON:0000063!8.35e-09!35;UBERON:0007811!2.04e-08!36;UBERON:0001041!4.41e-07!80;UBERON:0002384!5.33e-07!46
}}
}}

Revision as of 19:38, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr19:11593078..11593101,+p2@Ms4a6b
Mm9::chr2:33764191..33764206,+p@chr2:33764191..33764206
+
Mm9::chr8:35279878..35279900,+p@chr8:35279878..35279900
+


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

no results for this coexpression

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><br>

Cell Type
Ontology termp-valuen
T cell2.27e-1411
pro-T cell2.27e-1411
lymphoid lineage restricted progenitor cell6.67e-1312
mature alpha-beta T cell1.21e-129
alpha-beta T cell1.21e-129
immature T cell1.21e-129
mature T cell1.21e-129
immature alpha-beta T cell1.21e-129
hematopoietic cell1.42e-1232
hematopoietic oligopotent progenitor cell1.42e-1232
hematopoietic stem cell1.42e-1232
angioblastic mesenchymal cell1.42e-1232
hematopoietic multipotent progenitor cell1.42e-1232
lymphocyte1.16e-1113
common lymphoid progenitor1.16e-1113
CD4-positive, alpha-beta T cell3.25e-118
hematopoietic lineage restricted progenitor cell4.43e-0925
nucleate cell6.78e-0916
thymocyte1.86e-086
double negative thymocyte1.86e-086
naive T cell1.86e-086
double-positive, alpha-beta thymocyte1.86e-086
CD4-positive, alpha-beta thymocyte1.86e-086
naive thymus-derived CD4-positive, alpha-beta T cell1.86e-086
DN4 thymocyte1.86e-086
DN1 thymic pro-T cell1.86e-086
DN2 thymocyte1.86e-086
DN3 thymocyte1.86e-086
immature single positive thymocyte1.86e-086
early T lineage precursor1.86e-086
mature CD4 single-positive thymocyte1.86e-086
resting double-positive thymocyte1.86e-086
double-positive blast1.86e-086
CD69-positive double-positive thymocyte1.86e-086
CD69-positive, CD4-positive single-positive thymocyte1.86e-086
CD4-positive, CD8-intermediate double-positive thymocyte1.86e-086
CD24-positive, CD4 single-positive thymocyte1.86e-086
leukocyte3.40e-0817
nongranular leukocyte3.40e-0817
connective tissue cell5.33e-0746
mesenchymal cell5.33e-0746

Uber Anatomy
Ontology termp-valuen
hemopoietic organ2.34e-1829
immune organ2.34e-1829
hematopoietic system5.86e-1745
blood island5.86e-1745
hemolymphoid system6.42e-1748
immune system6.42e-1748
thymus2.85e-1623
neck2.85e-1623
respiratory system epithelium2.85e-1623
hemolymphoid system gland2.85e-1623
pharyngeal epithelium2.85e-1623
thymic region2.85e-1623
pharyngeal gland2.85e-1623
entire pharyngeal arch endoderm2.85e-1623
thymus primordium2.85e-1623
early pharyngeal endoderm2.85e-1623
pharynx2.36e-1524
gland of gut2.36e-1524
upper respiratory tract2.36e-1524
chordate pharynx2.36e-1524
pharyngeal arch system2.36e-1524
pharyngeal region of foregut2.36e-1524
mixed endoderm/mesoderm-derived structure5.22e-1435
segment of respiratory tract5.15e-1327
respiratory tract2.77e-1241
respiratory system7.95e-1242
organ segment8.35e-0935
craniocervical region2.04e-0836
foregut4.41e-0780
connective tissue5.33e-0746


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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