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MCL coexpression mm9:2234: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0001610;A1 adenosine receptor activity, G-protein coupled;0.00525940941215143;11539!GO:0001609;adenosine receptor activity, G-protein coupled;0.0157739062236469;11539!GO:0001608;nucleotide receptor activity, G-protein coupled;0.0314959814493766;11539!GO:0045028;purinergic nucleotide receptor activity, G-protein coupled;0.0314959814493766;11539!GO:0016502;nucleotide receptor activity;0.0314959814493766;11539!GO:0001614;purinergic nucleotide receptor activity;0.0314959814493766;11539!
|gostat_on_MCL_coexpression=GO:0001610;A1 adenosine receptor activity, G-protein coupled;0.00525940941215143;11539!GO:0001609;adenosine receptor activity, G-protein coupled;0.0157739062236469;11539!GO:0001608;nucleotide receptor activity, G-protein coupled;0.0314959814493766;11539!GO:0045028;purinergic nucleotide receptor activity, G-protein coupled;0.0314959814493766;11539!GO:0016502;nucleotide receptor activity;0.0314959814493766;11539!GO:0001614;purinergic nucleotide receptor activity;0.0314959814493766;11539!
|ontology_enrichment_celltype=CL:0002319!3.82e-13!43;CL:0000221!5.74e-13!44;CL:0000133!5.74e-13!44;CL:0000117!2.80e-12!23;CL:0000337!2.80e-12!23;CL:0000540!9.79e-11!33;CL:0000047!9.79e-11!33;CL:0000031!9.79e-11!33;CL:0000404!9.79e-11!33;CL:0000055!8.08e-10!49;CL:0000393!1.83e-07!39;CL:0000211!1.83e-07!39
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!1.45e-29!73;UBERON:0001016!8.25e-29!75;UBERON:0000073!1.42e-26!54;UBERON:0002346!5.16e-26!64;UBERON:0003075!5.16e-26!64;UBERON:0007284!5.16e-26!64;UBERON:0001049!2.95e-25!52;UBERON:0005068!2.95e-25!52;UBERON:0006241!2.95e-25!52;UBERON:0007135!2.95e-25!52;UBERON:0004121!5.66e-24!95;UBERON:0000924!5.66e-24!95;UBERON:0006601!5.66e-24!95;UBERON:0000955!4.22e-22!47;UBERON:0006238!4.22e-22!47;UBERON:0002616!1.29e-21!46;UBERON:0010371!2.95e-21!73;UBERON:0010314!5.73e-21!92;UBERON:0002020!5.41e-20!34;UBERON:0003056!1.97e-19!49;UBERON:0003080!6.41e-19!40;UBERON:0002780!1.67e-18!39;UBERON:0001890!1.67e-18!39;UBERON:0006240!1.67e-18!39;UBERON:0003528!5.57e-17!29;UBERON:0002791!5.57e-17!29;UBERON:0001893!5.57e-17!29;UBERON:0000956!3.79e-13!21;UBERON:0001869!3.79e-13!21;UBERON:0000203!3.79e-13!21;UBERON:0002619!3.19e-11!17;UBERON:0002021!1.62e-07!10;UBERON:0000411!1.62e-07!10;UBERON:0001950!1.62e-07!10;UBERON:0003076!6.74e-07!12;UBERON:0003057!6.74e-07!12
}}
}}

Revision as of 18:08, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr18:35000254..35000268,+p2@Reep2
Mm9::chr18:35000272..35000360,+p1@Reep2
Mm9::chr19:40686650..40686745,-p1@Tctn3
Mm9::chr1:136131997..136132020,-p2@Adora1


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:0001610A1 adenosine receptor activity, G-protein coupled0.00525940941215143
GO:0001609adenosine receptor activity, G-protein coupled0.0157739062236469
GO:0001608nucleotide receptor activity, G-protein coupled0.0314959814493766
GO:0045028purinergic nucleotide receptor activity, G-protein coupled0.0314959814493766
GO:0016502nucleotide receptor activity0.0314959814493766
GO:0001614purinergic nucleotide receptor activity0.0314959814493766



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 system1.45e-2973
nervous system8.25e-2975
regional part of nervous system1.42e-2654
neurectoderm5.16e-2664
neural plate5.16e-2664
presumptive neural plate5.16e-2664
neural tube2.95e-2552
neural rod2.95e-2552
future spinal cord2.95e-2552
neural keel2.95e-2552
ectoderm-derived structure5.66e-2495
ectoderm5.66e-2495
presumptive ectoderm5.66e-2495
brain4.22e-2247
future brain4.22e-2247
regional part of brain1.29e-2146
ecto-epithelium2.95e-2173
structure with developmental contribution from neural crest5.73e-2192
gray matter5.41e-2034
pre-chordal neural plate1.97e-1949
anterior neural tube6.41e-1940
regional part of forebrain1.67e-1839
forebrain1.67e-1839
future forebrain1.67e-1839
brain grey matter5.57e-1729
regional part of telencephalon5.57e-1729
telencephalon5.57e-1729
cerebral cortex3.79e-1321
cerebral hemisphere3.79e-1321
pallium3.79e-1321
regional part of cerebral cortex3.19e-1117
occipital lobe1.62e-0710
visual cortex1.62e-0710
neocortex1.62e-0710
posterior neural tube6.74e-0712
chordal neural plate6.74e-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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