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MCL coexpression mm9:1907: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0431240519609854,0.0385803330753519,0.0284498392435444,0,0,0,0,0,0,0,0.176782520138305,0.206395942804617,0.106603619640227,0,0,0,0,0,0,0,0.2625374495562,0.237443309433083,0.0762435360188495,0.054561543345514,0,0.13445688189298,0.184038585565817,0,0.161229439267587,0.564485601894894,0.672026542966802,0.214402317356416,0.279076216560236,0.0910522389263605,0.106932678779961,0,0,0.479508561808578,0.344219720738571,0.297289546580007,0,0.0305646611437113,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0303093843382358,0,0.0486822327854464,0.0348015516584171,0.049445620134025,0,0.0936712615872169,0,0,0,0,0,0,0,0,0.0285860945550467,0.0495341378702163,0.0194494484574599,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0453994444268803,0,0,0,0,0,0,0,0,0,0.111406921876104,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0316664407153844,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0387082368603573,0,0,0,0.0329509896628099,0,0,0,0,0,0,0.120936080462619,0.069799803134987,0,0,0,0,0,0,0,0,0,0,0,0.060504220684743,0,0,0,0,0,0,0,0,0,0,0.0499142369709586,0,0,0,0,0,0,0,0.0264159477773836,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0738741926906438,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0822247952518535,0.196699873644339,0.090286502334319,0,0,0.112010322600128,0,0.081154088775084,0.0906015960884875,0.0214427057787972,0,0,0,0,0,0,0,0,0,0,0.0375226752578547,0,0.0134759471663239,0.0236122972807905,0,0,0,0,0,0,0.0354759961767123,0,0,0.0195303707501796,0,0,0,0,0,0.0486884105045233,0,0,0,0,0,0,0,0,0,0
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|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000117!1.15e-26!23;CL:0000337!1.15e-26!23;CL:0002319!2.48e-17!43;CL:0000540!7.38e-17!33;CL:0000047!7.38e-17!33;CL:0000031!7.38e-17!33;CL:0000404!7.38e-17!33;CL:0000221!8.66e-17!44;CL:0000133!8.66e-17!44;CL:0000055!2.07e-14!49;CL:0000393!2.04e-13!39;CL:0000211!2.04e-13!39;CL:0002321!3.19e-08!70;CL:0002609!5.69e-08!6;CL:0002612!5.55e-07!3;CL:0002610!6.87e-07!3
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001016!6.74e-28!75;UBERON:0001017!2.46e-27!73;UBERON:0000073!3.58e-27!54;UBERON:0002020!1.66e-25!34;UBERON:0001049!5.78e-24!52;UBERON:0005068!5.78e-24!52;UBERON:0006241!5.78e-24!52;UBERON:0007135!5.78e-24!52;UBERON:0004121!1.08e-23!95;UBERON:0000924!1.08e-23!95;UBERON:0006601!1.08e-23!95;UBERON:0002346!3.61e-22!64;UBERON:0003075!3.61e-22!64;UBERON:0007284!3.61e-22!64;UBERON:0003528!3.07e-20!29;UBERON:0002791!3.07e-20!29;UBERON:0001893!3.07e-20!29;UBERON:0000955!4.58e-19!47;UBERON:0006238!4.58e-19!47;UBERON:0010371!2.49e-18!73;UBERON:0002616!6.30e-18!46;UBERON:0003080!8.63e-18!40;UBERON:0003056!1.73e-17!49;UBERON:0002780!8.60e-17!39;UBERON:0001890!8.60e-17!39;UBERON:0006240!8.60e-17!39;UBERON:0000956!6.81e-16!21;UBERON:0001869!6.81e-16!21;UBERON:0000203!6.81e-16!21;UBERON:0010314!9.11e-14!92;UBERON:0002619!1.48e-10!17;UBERON:0000025!1.05e-08!114;UBERON:0002240!6.08e-08!6;UBERON:0005174!6.08e-08!6;UBERON:0001137!6.08e-08!6;UBERON:0004111!1.34e-07!122;UBERON:0002257!5.55e-07!3;UBERON:0004684!6.87e-07!3;UBERON:0002275!6.87e-07!3;UBERON:0003076!8.65e-07!12;UBERON:0003057!8.65e-07!12
}}
}}

Revision as of 17:37, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:69457137..69457160,+p@chr10:69457137..69457160
+
Mm9::chr13:100204786..100204797,-p@chr13:100204786..100204797
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Mm9::chr14:13448641..13448660,-p@chr14:13448641..13448660
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Mm9::chr15:8589189..8589190,-p@chr15:8589189..8589190
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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>

Uber Anatomy
Ontology termp-valuen
nervous system6.74e-2875
central nervous system2.46e-2773
regional part of nervous system3.58e-2754
gray matter1.66e-2534
neural tube5.78e-2452
neural rod5.78e-2452
future spinal cord5.78e-2452
neural keel5.78e-2452
ectoderm-derived structure1.08e-2395
ectoderm1.08e-2395
presumptive ectoderm1.08e-2395
neurectoderm3.61e-2264
neural plate3.61e-2264
presumptive neural plate3.61e-2264
brain grey matter3.07e-2029
regional part of telencephalon3.07e-2029
telencephalon3.07e-2029
brain4.58e-1947
future brain4.58e-1947
ecto-epithelium2.49e-1873
regional part of brain6.30e-1846
anterior neural tube8.63e-1840
pre-chordal neural plate1.73e-1749
regional part of forebrain8.60e-1739
forebrain8.60e-1739
future forebrain8.60e-1739
cerebral cortex6.81e-1621
cerebral hemisphere6.81e-1621
pallium6.81e-1621
structure with developmental contribution from neural crest9.11e-1492
regional part of cerebral cortex1.48e-1017
tube1.05e-08114
spinal cord6.08e-086
dorsal region element6.08e-086
dorsum6.08e-086
anatomical conduit1.34e-07122
ventral horn of spinal cord5.55e-073
raphe nuclei6.87e-073
reticular formation6.87e-073
posterior neural tube8.65e-0712
chordal neural plate8.65e-0712


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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