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MCL coexpression mm9:3407: Difference between revisions

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|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000221!5.46e-27!44;CL:0000133!5.46e-27!44;CL:0002319!3.96e-26!43;CL:0000055!7.60e-23!49;CL:0000540!1.81e-19!33;CL:0000047!1.81e-19!33;CL:0000031!1.81e-19!33;CL:0000404!1.81e-19!33;CL:0000393!2.26e-16!39;CL:0000211!2.26e-16!39;CL:0000117!2.22e-13!23;CL:0000337!2.22e-13!23;CL:0002321!3.33e-12!70;CL:0000333!2.05e-07!10;CL:0000095!2.05e-07!10;CL:0000243!2.05e-07!10;CL:0000123!2.05e-07!10;CL:0000125!2.05e-07!10;CL:0000030!2.05e-07!10;CL:0000339!2.05e-07!10
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001016!1.87e-41!75;UBERON:0004121!1.92e-41!95;UBERON:0000924!1.92e-41!95;UBERON:0006601!1.92e-41!95;UBERON:0001017!1.43e-39!73;UBERON:0002346!9.29e-31!64;UBERON:0003075!9.29e-31!64;UBERON:0007284!9.29e-31!64;UBERON:0010371!2.34e-28!73;UBERON:0000073!4.19e-26!54;UBERON:0001049!1.26e-25!52;UBERON:0005068!1.26e-25!52;UBERON:0006241!1.26e-25!52;UBERON:0007135!1.26e-25!52;UBERON:0003056!5.39e-22!49;UBERON:0000955!7.05e-22!47;UBERON:0006238!7.05e-22!47;UBERON:0002616!2.09e-21!46;UBERON:0010314!6.05e-20!92;UBERON:0003080!3.61e-19!40;UBERON:0002780!1.12e-18!39;UBERON:0001890!1.12e-18!39;UBERON:0006240!1.12e-18!39;UBERON:0002020!1.03e-17!34;UBERON:0003528!2.38e-14!29;UBERON:0002791!2.38e-14!29;UBERON:0001893!2.38e-14!29;UBERON:0000956!2.80e-10!21;UBERON:0001869!2.80e-10!21;UBERON:0000203!2.80e-10!21;UBERON:0011216!4.32e-09!194;UBERON:0002619!1.08e-08!17;UBERON:0000010!3.36e-08!11;UBERON:0004111!1.39e-07!122;UBERON:0003076!5.32e-07!12;UBERON:0003057!5.32e-07!12
}}
}}

Revision as of 20:01, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr3:34548845..34548856,+p4@Sox2
Mm9::chr3:34548909..34548927,+p1@Sox2
Mm9::chr3:34548946..34548972,+p2@Sox2


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 system1.87e-4175
ectoderm-derived structure1.92e-4195
ectoderm1.92e-4195
presumptive ectoderm1.92e-4195
central nervous system1.43e-3973
neurectoderm9.29e-3164
neural plate9.29e-3164
presumptive neural plate9.29e-3164
ecto-epithelium2.34e-2873
regional part of nervous system4.19e-2654
neural tube1.26e-2552
neural rod1.26e-2552
future spinal cord1.26e-2552
neural keel1.26e-2552
pre-chordal neural plate5.39e-2249
brain7.05e-2247
future brain7.05e-2247
regional part of brain2.09e-2146
structure with developmental contribution from neural crest6.05e-2092
anterior neural tube3.61e-1940
regional part of forebrain1.12e-1839
forebrain1.12e-1839
future forebrain1.12e-1839
gray matter1.03e-1734
brain grey matter2.38e-1429
regional part of telencephalon2.38e-1429
telencephalon2.38e-1429
cerebral cortex2.80e-1021
cerebral hemisphere2.80e-1021
pallium2.80e-1021
organ system subdivision4.32e-09194
regional part of cerebral cortex1.08e-0817
peripheral nervous system3.36e-0811
anatomical conduit1.39e-07122
posterior neural tube5.32e-0712
chordal neural plate5.32e-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)

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