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MCL coexpression mm9:504: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0.032256856393288,0,0,0.143863728554057,0.238884677076104,0.0576650624644538,0.283367434407912,0.264629393743549,0.153011413271348,0.231008947931991,0.143546523360547,0.147572487232007,0.38982385752706,0.262444414487012,0,0.206130935280821,0.230336981122899,0.41035196278437,0.417172071844663,0.462698295017333,0,0,0.409459490058577,0.176793840893808,0.196197994426572,0,0.00354283085878227,0.0847446845832032,0.192714804809031,0.0388351825704144,0.0434877098916977,0,0,0,0.08066760093098,0.110443726078274,0.0403437855364229,0,0.246280992867285,0,0,0,0.0024995909689563,0,0.0160135200778046,0.0365927089968535,0,0,0,0,0,0,0.424345392628556,0.236880264493592,0.290898784500322,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0143478181031947,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.194188587880108,0.205359339583031,0.266463668622911,0.269611904680974,0,0,0,0,0,0,0.181721285172594,0.307386843316069,0.0541482397147466,0.33936774686491,0.549990024798021,0.909056572608405,0.436469301479683,0.45322719299967,0.400809590620714,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0245731644447729,0,0.0983461768813133,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0165881265967152,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.441091842723249,0.420239194365589,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0340889275307749,0.0820316904417725,0.0562185712770556,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0240026547541851,0,0.123312478819584,0.160939271735563,0.148176297568923,0,0,0,0,0,0,0,0,0.342961197219141,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|coexpression_dpi_cluster_scores_median=0.032256856393288,0,0,0.143863728554057,0.238884677076104,0.0576650624644538,0.283367434407912,0.264629393743549,0.153011413271348,0.231008947931991,0.143546523360547,0.147572487232007,0.38982385752706,0.262444414487012,0,0.206130935280821,0.230336981122899,0.41035196278437,0.417172071844663,0.462698295017333,0,0,0.409459490058577,0.176793840893808,0.196197994426572,0,0.00354283085878227,0.0847446845832032,0.192714804809031,0.0388351825704144,0.0434877098916977,0,0,0,0.08066760093098,0.110443726078274,0.0403437855364229,0,0.246280992867285,0,0,0,0.0024995909689563,0,0.0160135200778046,0.0365927089968535,0,0,0,0,0,0,0.424345392628556,0.236880264493592,0.290898784500322,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0143478181031947,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.194188587880108,0.205359339583031,0.266463668622911,0.269611904680974,0,0,0,0,0,0,0.181721285172594,0.307386843316069,0.0541482397147466,0.33936774686491,0.549990024798021,0.909056572608405,0.436469301479683,0.45322719299967,0.400809590620714,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0245731644447729,0,0.0983461768813133,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0165881265967152,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.441091842723249,0.420239194365589,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0340889275307749,0.0820316904417725,0.0562185712770556,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0240026547541851,0,0.123312478819584,0.160939271735563,0.148176297568923,0,0,0,0,0,0,0,0,0.342961197219141,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0002371!3.74e-23!118;CL:0000548!9.85e-23!115;CL:0000255!9.85e-23!115;CL:0002031!9.22e-18!25;CL:0000988!2.83e-17!32;CL:0002032!2.83e-17!32;CL:0000037!2.83e-17!32;CL:0000566!2.83e-17!32;CL:0000837!2.83e-17!32;CL:0002320!8.52e-16!46;CL:0000134!8.52e-16!46;CL:0002076!8.65e-16!15;CL:0000066!8.96e-16!25;CL:0000219!5.38e-15!54;CL:0000838!1.45e-14!12;CL:0000034!4.02e-14!97;CL:0000738!6.15e-14!17;CL:0002087!6.15e-14!17;CL:0000542!3.19e-13!13;CL:0000051!3.19e-13!13;CL:0000791!4.70e-13!9;CL:0000789!4.70e-13!9;CL:0002420!4.70e-13!9;CL:0002419!4.70e-13!9;CL:0000790!4.70e-13!9;CL:0000084!5.11e-13!11;CL:0000827!5.11e-13!11;CL:0000223!6.11e-13!20;CL:0000624!1.24e-11!8;CL:0002242!3.26e-10!16;CL:0000723!4.90e-10!91;CL:0000048!4.90e-10!91;CL:0000893!5.61e-09!6;CL:0002489!5.61e-09!6;CL:0000898!5.61e-09!6;CL:0000809!5.61e-09!6;CL:0000810!5.61e-09!6;CL:0000895!5.61e-09!6;CL:0000808!5.61e-09!6;CL:0000894!5.61e-09!6;CL:0000806!5.61e-09!6;CL:0000807!5.61e-09!6;CL:0000805!5.61e-09!6;CL:0002425!5.61e-09!6;CL:0002436!5.61e-09!6;CL:0002427!5.61e-09!6;CL:0002428!5.61e-09!6;CL:0002429!5.61e-09!6;CL:0002433!5.61e-09!6;CL:0002431!5.61e-09!6;CL:0002432!5.61e-09!6;CL:0000553!3.24e-07!6;CL:0000556!3.24e-07!6;CL:0002563!5.45e-07!9;CL:0002251!5.45e-07!9
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002384!8.52e-16!46;UBERON:0000344!2.92e-11!15;UBERON:0001242!4.99e-09!13;UBERON:0000060!4.99e-09!13;UBERON:0001262!4.99e-09!13;UBERON:0004786!4.99e-09!13;UBERON:0000485!8.41e-09!11;UBERON:0002193!1.61e-08!48;UBERON:0002405!1.61e-08!48;UBERON:0000072!1.77e-07!27;UBERON:0002390!2.42e-07!45;UBERON:0003061!2.42e-07!45;UBERON:0003350!5.45e-07!9;UBERON:0004808!5.45e-07!9;UBERON:0001277!5.45e-07!9;UBERON:0000490!5.60e-07!66
}}
}}

Revision as of 20:48, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:114725078..114725089,-p@chr10:114725078..114725089
-
Mm9::chr11:52218757..52218764,+p1@ENSMUST00000122004
Mm9::chr13:111190894..111190898,+p@chr13:111190894..111190898
+
Mm9::chr15:27560399..27560469,-p1@Fam105b
Mm9::chr17:47547196..47547202,+p@chr17:47547196..47547202
+
Mm9::chr18:35955169..35955173,+p@chr18:35955169..35955173
+
Mm9::chr1:178709356..178709358,+p@chr1:178709356..178709358
+
Mm9::chr2:77129080..77129085,+p1@ENSMUST00000119086
Mm9::chr3:66789602..66789614,+p5@Rsrc1
Mm9::chr5:34142228..34142234,+p@chr5:34142228..34142234
+
Mm9::chr7:46843882..46843894,+p3@Gm2058
Mm9::chr8:49432892..49432894,+p@chr8:49432892..49432894
+
Mm9::chr9:3372522..3372525,+p@chr9:3372522..3372525
+
Mm9::chrX:59083372..59083385,+p2@ENSMUST00000117345


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
somatic cell3.74e-23118
animal cell9.85e-23115
eukaryotic cell9.85e-23115
hematopoietic lineage restricted progenitor cell9.22e-1825
hematopoietic cell2.83e-1732
hematopoietic oligopotent progenitor cell2.83e-1732
hematopoietic stem cell2.83e-1732
angioblastic mesenchymal cell2.83e-1732
hematopoietic multipotent progenitor cell2.83e-1732
connective tissue cell8.52e-1646
mesenchymal cell8.52e-1646
endo-epithelial cell8.65e-1615
epithelial cell8.96e-1625
motile cell5.38e-1554
lymphoid lineage restricted progenitor cell1.45e-1412
stem cell4.02e-1497
leukocyte6.15e-1417
nongranular leukocyte6.15e-1417
lymphocyte3.19e-1313
common lymphoid progenitor3.19e-1313
mature alpha-beta T cell4.70e-139
alpha-beta T cell4.70e-139
immature T cell4.70e-139
mature T cell4.70e-139
immature alpha-beta T cell4.70e-139
T cell5.11e-1311
pro-T cell5.11e-1311
endodermal cell6.11e-1320
CD4-positive, alpha-beta T cell1.24e-118
nucleate cell3.26e-1016
somatic stem cell4.90e-1091
multi fate stem cell4.90e-1091
thymocyte5.61e-096
double negative thymocyte5.61e-096
naive T cell5.61e-096
double-positive, alpha-beta thymocyte5.61e-096
CD4-positive, alpha-beta thymocyte5.61e-096
naive thymus-derived CD4-positive, alpha-beta T cell5.61e-096
DN4 thymocyte5.61e-096
DN1 thymic pro-T cell5.61e-096
DN2 thymocyte5.61e-096
DN3 thymocyte5.61e-096
immature single positive thymocyte5.61e-096
early T lineage precursor5.61e-096
mature CD4 single-positive thymocyte5.61e-096
resting double-positive thymocyte5.61e-096
double-positive blast5.61e-096
CD69-positive double-positive thymocyte5.61e-096
CD69-positive, CD4-positive single-positive thymocyte5.61e-096
CD4-positive, CD8-intermediate double-positive thymocyte5.61e-096
CD24-positive, CD4 single-positive thymocyte5.61e-096
megakaryocyte progenitor cell3.24e-076
megakaryocyte3.24e-076
intestinal epithelial cell5.45e-079
epithelial cell of alimentary canal5.45e-079


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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