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MCL coexpression mm9:1551: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0005843;cytosolic small ribosomal subunit (sensu Eukaryota);0.03067988823755;20044!GO:0015935;small ribosomal subunit;0.0328713088259464;20044!GO:0005830;cytosolic ribosome (sensu Eukaryota);0.0339670191201446;20044!GO:0033279;ribosomal subunit;0.0339670191201446;20044!GO:0044445;cytosolic part;0.0411987070618529;20044!GO:0042254;ribosome biogenesis and assembly;0.0446501944885772;20044!GO:0003735;structural constituent of ribosome;0.0446501944885772;20044!GO:0005840;ribosome;0.0446501944885772;20044!GO:0022613;ribonucleoprotein complex biogenesis and assembly;0.046019832356325;20044!
|gostat_on_MCL_coexpression=GO:0005843;cytosolic small ribosomal subunit (sensu Eukaryota);0.03067988823755;20044!GO:0015935;small ribosomal subunit;0.0328713088259464;20044!GO:0005830;cytosolic ribosome (sensu Eukaryota);0.0339670191201446;20044!GO:0033279;ribosomal subunit;0.0339670191201446;20044!GO:0044445;cytosolic part;0.0411987070618529;20044!GO:0042254;ribosome biogenesis and assembly;0.0446501944885772;20044!GO:0003735;structural constituent of ribosome;0.0446501944885772;20044!GO:0005840;ribosome;0.0446501944885772;20044!GO:0022613;ribonucleoprotein complex biogenesis and assembly;0.046019832356325;20044!
|ontology_enrichment_celltype=CL:0002371!8.22e-18!118;CL:0000548!1.55e-16!115;CL:0000255!1.55e-16!115;CL:0000219!1.53e-14!54;CL:0002320!1.54e-14!46;CL:0000134!1.54e-14!46;CL:0000034!1.07e-13!97;CL:0000988!1.61e-13!32;CL:0002032!1.61e-13!32;CL:0000037!1.61e-13!32;CL:0000566!1.61e-13!32;CL:0000837!1.61e-13!32;CL:0000723!4.56e-11!91;CL:0000048!4.56e-11!91;CL:0002031!3.34e-10!25;CL:0000838!3.08e-08!12;CL:0000542!9.38e-08!13;CL:0000051!9.38e-08!13;CL:0000084!1.34e-07!11;CL:0000827!1.34e-07!11;CL:0000738!1.73e-07!17;CL:0002087!1.73e-07!17;CL:0000049!3.91e-07!19;CL:0002242!7.79e-07!16;CL:0000791!9.98e-07!9;CL:0000789!9.98e-07!9;CL:0002420!9.98e-07!9;CL:0002419!9.98e-07!9;CL:0000790!9.98e-07!9
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002384!1.54e-14!46;UBERON:0000490!7.92e-08!66;UBERON:0002193!1.24e-07!48;UBERON:0002405!1.24e-07!48;UBERON:0002390!3.17e-07!45;UBERON:0003061!3.17e-07!45
}}
}}

Revision as of 17:04, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:115885803..115885825,-p2@Gm12657
p2@Gm6421
p2@Gm6749
p2@Gm7194
p2@Gm7227
p2@H3f3a
p2@H3f3b
p2@H3f3c
Mm9::chr17:27666934..27666939,+p1@ENSMUST00000119573
Mm9::chr18:15991281..15991283,+p1@Gm10036
Mm9::chr18:60934280..60934317,+p1@Rps14
Mm9::chrX:69048950..69048954,+p1@ENSMUST00000164796


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:0005843cytosolic small ribosomal subunit (sensu Eukaryota)0.03067988823755
GO:0015935small ribosomal subunit0.0328713088259464
GO:0005830cytosolic ribosome (sensu Eukaryota)0.0339670191201446
GO:0033279ribosomal subunit0.0339670191201446
GO:0044445cytosolic part0.0411987070618529
GO:0042254ribosome biogenesis and assembly0.0446501944885772
GO:0003735structural constituent of ribosome0.0446501944885772
GO:0005840ribosome0.0446501944885772
GO:0022613ribonucleoprotein complex biogenesis and assembly0.046019832356325



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 cell8.22e-18118
animal cell1.55e-16115
eukaryotic cell1.55e-16115
motile cell1.53e-1454
connective tissue cell1.54e-1446
mesenchymal cell1.54e-1446
stem cell1.07e-1397
hematopoietic cell1.61e-1332
hematopoietic oligopotent progenitor cell1.61e-1332
hematopoietic stem cell1.61e-1332
angioblastic mesenchymal cell1.61e-1332
hematopoietic multipotent progenitor cell1.61e-1332
somatic stem cell4.56e-1191
multi fate stem cell4.56e-1191
hematopoietic lineage restricted progenitor cell3.34e-1025
lymphoid lineage restricted progenitor cell3.08e-0812
lymphocyte9.38e-0813
common lymphoid progenitor9.38e-0813
T cell1.34e-0711
pro-T cell1.34e-0711
leukocyte1.73e-0717
nongranular leukocyte1.73e-0717
common myeloid progenitor3.91e-0719
nucleate cell7.79e-0716
mature alpha-beta T cell9.98e-079
alpha-beta T cell9.98e-079
immature T cell9.98e-079
mature T cell9.98e-079
immature alpha-beta T cell9.98e-079

Uber Anatomy
Ontology termp-valuen
connective tissue1.54e-1446
unilaminar epithelium7.92e-0866
hemolymphoid system1.24e-0748
immune system1.24e-0748
hematopoietic system3.17e-0745
blood island3.17e-0745


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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