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MCL coexpression mm9:2693: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0005954;calcium- and calmodulin-dependent protein kinase complex;0.0378231262427327;12323!GO:0004683;calmodulin-dependent protein kinase activity;0.0378231262427327;12323!GO:0000082;G1/S transition of mitotic cell cycle;0.0378231262427327;12323!GO:0046777;protein amino acid autophosphorylation;0.0378231262427327;12323!GO:0016540;protein autoprocessing;0.0378231262427327;12323!GO:0051325;interphase;0.0378231262427327;12323!GO:0051329;interphase of mitotic cell cycle;0.0378231262427327;12323!
|gostat_on_MCL_coexpression=GO:0005954;calcium- and calmodulin-dependent protein kinase complex;0.0378231262427327;12323!GO:0004683;calmodulin-dependent protein kinase activity;0.0378231262427327;12323!GO:0000082;G1/S transition of mitotic cell cycle;0.0378231262427327;12323!GO:0046777;protein amino acid autophosphorylation;0.0378231262427327;12323!GO:0016540;protein autoprocessing;0.0378231262427327;12323!GO:0051325;interphase;0.0378231262427327;12323!GO:0051329;interphase of mitotic cell cycle;0.0378231262427327;12323!
|ontology_enrichment_celltype=CL:0000117!7.10e-10!23;CL:0000337!7.10e-10!23
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000073!1.86e-18!54;UBERON:0001049!7.59e-18!52;UBERON:0005068!7.59e-18!52;UBERON:0006241!7.59e-18!52;UBERON:0007135!7.59e-18!52;UBERON:0000955!1.34e-17!47;UBERON:0006238!1.34e-17!47;UBERON:0002020!9.97e-17!34;UBERON:0003528!1.43e-16!29;UBERON:0002791!1.43e-16!29;UBERON:0001893!1.43e-16!29;UBERON:0003080!2.44e-16!40;UBERON:0002616!2.60e-16!46;UBERON:0002780!2.04e-15!39;UBERON:0001890!2.04e-15!39;UBERON:0006240!2.04e-15!39;UBERON:0002346!2.27e-15!64;UBERON:0003075!2.27e-15!64;UBERON:0007284!2.27e-15!64;UBERON:0001017!3.69e-15!73;UBERON:0003056!1.12e-14!49;UBERON:0001016!1.60e-14!75;UBERON:0010371!1.79e-12!73;UBERON:0004121!2.29e-11!95;UBERON:0000924!2.29e-11!95;UBERON:0006601!2.29e-11!95;UBERON:0000956!4.06e-11!21;UBERON:0001869!4.06e-11!21;UBERON:0000203!4.06e-11!21;UBERON:0000369!2.36e-08!5;UBERON:0002435!2.36e-08!5;UBERON:0000204!2.36e-08!5;UBERON:0010082!2.36e-08!5;UBERON:0010314!2.74e-08!92;UBERON:0002619!7.60e-07!17;UBERON:0002420!8.42e-07!8;UBERON:0007245!8.42e-07!8;UBERON:0010009!8.42e-07!8;UBERON:0010011!8.42e-07!8;UBERON:0000454!8.42e-07!8
}}
}}

Revision as of 18:52, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:5966113..5966123,-p17@Camk2b
Mm9::chr11:5966124..5966140,-p13@Camk2b
Mm9::chr3:117277800..117277823,+p5@4833424O15Rik


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:0005954calcium- and calmodulin-dependent protein kinase complex0.0378231262427327
GO:0004683calmodulin-dependent protein kinase activity0.0378231262427327
GO:0000082G1/S transition of mitotic cell cycle0.0378231262427327
GO:0046777protein amino acid autophosphorylation0.0378231262427327
GO:0016540protein autoprocessing0.0378231262427327
GO:0051325interphase0.0378231262427327
GO:0051329interphase of mitotic cell cycle0.0378231262427327



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
CNS neuron (sensu Vertebrata)7.10e-1023
neuroblast (sensu Vertebrata)7.10e-1023

Uber Anatomy
Ontology termp-valuen
regional part of nervous system1.86e-1854
neural tube7.59e-1852
neural rod7.59e-1852
future spinal cord7.59e-1852
neural keel7.59e-1852
brain1.34e-1747
future brain1.34e-1747
gray matter9.97e-1734
brain grey matter1.43e-1629
regional part of telencephalon1.43e-1629
telencephalon1.43e-1629
anterior neural tube2.44e-1640
regional part of brain2.60e-1646
regional part of forebrain2.04e-1539
forebrain2.04e-1539
future forebrain2.04e-1539
neurectoderm2.27e-1564
neural plate2.27e-1564
presumptive neural plate2.27e-1564
central nervous system3.69e-1573
pre-chordal neural plate1.12e-1449
nervous system1.60e-1475
ecto-epithelium1.79e-1273
ectoderm-derived structure2.29e-1195
ectoderm2.29e-1195
presumptive ectoderm2.29e-1195
cerebral cortex4.06e-1121
cerebral hemisphere4.06e-1121
pallium4.06e-1121
corpus striatum2.36e-085
striatum2.36e-085
ventral part of telencephalon2.36e-085
future corpus striatum2.36e-085
structure with developmental contribution from neural crest2.74e-0892
regional part of cerebral cortex7.60e-0717
basal ganglion8.42e-078
nuclear complex of neuraxis8.42e-078
aggregate regional part of brain8.42e-078
collection of basal ganglia8.42e-078
cerebral subcortex8.42e-078


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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