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MCL coexpression mm9:3585: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0006972;hyperosmotic response;0.0368098148460913;320795!GO:0006970;response to osmotic stress;0.0390825764236366;320795!GO:0004697;protein kinase C activity;0.0390825764236366;320795!GO:0001565;phorbol ester receptor activity;0.0390825764236366;320795!
|gostat_on_MCL_coexpression=GO:0006972;hyperosmotic response;0.0368098148460913;320795!GO:0006970;response to osmotic stress;0.0390825764236366;320795!GO:0004697;protein kinase C activity;0.0390825764236366;320795!GO:0001565;phorbol ester receptor activity;0.0390825764236366;320795!
|ontology_enrichment_celltype=CL:0000540!1.06e-12!33;CL:0000047!1.06e-12!33;CL:0000031!1.06e-12!33;CL:0000404!1.06e-12!33;CL:0000117!4.70e-11!23;CL:0000337!4.70e-11!23;CL:0000393!5.85e-11!39;CL:0000211!5.85e-11!39;CL:0002321!3.46e-10!70;CL:0000221!7.24e-10!44;CL:0000133!7.24e-10!44;CL:0002319!8.39e-10!43;CL:0000055!9.17e-09!49
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!2.30e-21!73;UBERON:0001016!3.01e-21!75;UBERON:0002346!6.75e-19!64;UBERON:0003075!6.75e-19!64;UBERON:0007284!6.75e-19!64;UBERON:0000073!6.76e-19!54;UBERON:0004121!1.65e-18!95;UBERON:0000924!1.65e-18!95;UBERON:0006601!1.65e-18!95;UBERON:0001049!1.29e-17!52;UBERON:0005068!1.29e-17!52;UBERON:0006241!1.29e-17!52;UBERON:0007135!1.29e-17!52;UBERON:0010371!9.60e-16!73;UBERON:0002020!1.95e-15!34;UBERON:0000955!2.69e-15!47;UBERON:0006238!2.69e-15!47;UBERON:0002616!7.70e-15!46;UBERON:0003056!1.92e-14!49;UBERON:0003080!3.54e-14!40;UBERON:0002780!1.55e-13!39;UBERON:0001890!1.55e-13!39;UBERON:0006240!1.55e-13!39;UBERON:0003528!2.60e-13!29;UBERON:0002791!2.60e-13!29;UBERON:0001893!2.60e-13!29;UBERON:0000160!2.90e-12!31;UBERON:0000956!1.05e-09!21;UBERON:0001869!1.05e-09!21;UBERON:0000203!1.05e-09!21;UBERON:0010314!1.27e-09!92;UBERON:0000064!2.91e-09!99;UBERON:0011216!1.35e-08!194;UBERON:0002619!3.75e-08!17;UBERON:0000344!8.77e-08!15;UBERON:0005409!7.50e-07!47;UBERON:0001242!9.89e-07!13;UBERON:0000060!9.89e-07!13;UBERON:0001262!9.89e-07!13;UBERON:0004786!9.89e-07!13
}}
}}

Revision as of 20:18, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr7:104936999..104937092,+p2@Pak1
Mm9::chr8:13907748..13907816,+p1@Fbxo25
Mm9::chr9:99469268..99469330,-p2@Armc8


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:0006972hyperosmotic response0.0368098148460913
GO:0006970response to osmotic stress0.0390825764236366
GO:0004697protein kinase C activity0.0390825764236366
GO:0001565phorbol ester receptor activity0.0390825764236366



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>

Uber Anatomy
Ontology termp-valuen
central nervous system2.30e-2173
nervous system3.01e-2175
neurectoderm6.75e-1964
neural plate6.75e-1964
presumptive neural plate6.75e-1964
regional part of nervous system6.76e-1954
ectoderm-derived structure1.65e-1895
ectoderm1.65e-1895
presumptive ectoderm1.65e-1895
neural tube1.29e-1752
neural rod1.29e-1752
future spinal cord1.29e-1752
neural keel1.29e-1752
ecto-epithelium9.60e-1673
gray matter1.95e-1534
brain2.69e-1547
future brain2.69e-1547
regional part of brain7.70e-1546
pre-chordal neural plate1.92e-1449
anterior neural tube3.54e-1440
regional part of forebrain1.55e-1339
forebrain1.55e-1339
future forebrain1.55e-1339
brain grey matter2.60e-1329
regional part of telencephalon2.60e-1329
telencephalon2.60e-1329
intestine2.90e-1231
cerebral cortex1.05e-0921
cerebral hemisphere1.05e-0921
pallium1.05e-0921
structure with developmental contribution from neural crest1.27e-0992
organ part2.91e-0999
organ system subdivision1.35e-08194
regional part of cerebral cortex3.75e-0817
mucosa8.77e-0815
gastrointestinal system7.50e-0747
intestinal mucosa9.89e-0713
anatomical wall9.89e-0713
wall of intestine9.89e-0713
gastrointestinal system mucosa9.89e-0713


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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