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MCL coexpression mm9:741: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0005509;calcium ion binding;0.00373182711349774;65945,12314,12315!
|gostat_on_MCL_coexpression=GO:0005509;calcium ion binding;0.00373182711349774;65945,12314,12315!
|ontology_enrichment_celltype=CL:0000055!1.36e-15!49;CL:0000221!6.53e-14!44;CL:0000133!6.53e-14!44;CL:0002319!9.63e-14!43;CL:0000117!1.28e-13!23;CL:0000337!1.28e-13!23;CL:0000393!7.41e-12!39;CL:0000211!7.41e-12!39;CL:0002321!1.27e-10!70;CL:0000540!4.14e-10!33;CL:0000047!4.14e-10!33;CL:0000031!4.14e-10!33;CL:0000404!4.14e-10!33
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!1.01e-26!73;UBERON:0001016!1.52e-26!75;UBERON:0000073!1.06e-24!54;UBERON:0001049!3.56e-23!52;UBERON:0005068!3.56e-23!52;UBERON:0006241!3.56e-23!52;UBERON:0007135!3.56e-23!52;UBERON:0002346!4.53e-20!64;UBERON:0003075!4.53e-20!64;UBERON:0007284!4.53e-20!64;UBERON:0000955!1.63e-19!47;UBERON:0006238!1.63e-19!47;UBERON:0002616!3.71e-19!46;UBERON:0002020!6.65e-19!34;UBERON:0010314!2.32e-17!92;UBERON:0003080!1.69e-16!40;UBERON:0004121!1.96e-16!95;UBERON:0000924!1.96e-16!95;UBERON:0006601!1.96e-16!95;UBERON:0002780!4.30e-16!39;UBERON:0001890!4.30e-16!39;UBERON:0006240!4.30e-16!39;UBERON:0003528!1.60e-15!29;UBERON:0002791!1.60e-15!29;UBERON:0001893!1.60e-15!29;UBERON:0010371!2.07e-14!73;UBERON:0003056!2.97e-14!49;UBERON:0000956!7.02e-12!21;UBERON:0001869!7.02e-12!21;UBERON:0000203!7.02e-12!21;UBERON:0002619!2.60e-10!17;UBERON:0002021!9.88e-08!10;UBERON:0000411!9.88e-08!10;UBERON:0001950!9.88e-08!10;UBERON:0003076!2.27e-07!12;UBERON:0003057!2.27e-07!12
}}
}}

Revision as of 21:10, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr19:6235665..6235679,-p2@Ppp2r5b
Mm9::chr4:149001393..149001405,+p5@Clstn1
Mm9::chr6:95982989..95983016,+p@chr6:95982989..95983016
+
Mm9::chr7:17500809..17500825,-p@chr7:17500809..17500825
-
Mm9::chr7:17501357..17501384,-p@chr7:17501357..17501384
-
Mm9::chr7:17501389..17501409,-p@chr7:17501389..17501409
-
Mm9::chr7:17502533..17502561,-p5@Calm2
p6@Calm3
p7@Calm1
Mm9::chr7:17502981..17502996,-p10@Calm3
p11@Calm1
p9@Calm2
Mm9::chr7:17503029..17503048,-p7@Calm2
p8@Calm3
p9@Calm1
Mm9::chr7:17503062..17503077,-p@chr7:17503062..17503077
-


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:0005509calcium ion binding0.00373182711349774



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 system1.01e-2673
nervous system1.52e-2675
regional part of nervous system1.06e-2454
neural tube3.56e-2352
neural rod3.56e-2352
future spinal cord3.56e-2352
neural keel3.56e-2352
neurectoderm4.53e-2064
neural plate4.53e-2064
presumptive neural plate4.53e-2064
brain1.63e-1947
future brain1.63e-1947
regional part of brain3.71e-1946
gray matter6.65e-1934
structure with developmental contribution from neural crest2.32e-1792
anterior neural tube1.69e-1640
ectoderm-derived structure1.96e-1695
ectoderm1.96e-1695
presumptive ectoderm1.96e-1695
regional part of forebrain4.30e-1639
forebrain4.30e-1639
future forebrain4.30e-1639
brain grey matter1.60e-1529
regional part of telencephalon1.60e-1529
telencephalon1.60e-1529
ecto-epithelium2.07e-1473
pre-chordal neural plate2.97e-1449
cerebral cortex7.02e-1221
cerebral hemisphere7.02e-1221
pallium7.02e-1221
regional part of cerebral cortex2.60e-1017
occipital lobe9.88e-0810
visual cortex9.88e-0810
neocortex9.88e-0810
posterior neural tube2.27e-0712
chordal neural plate2.27e-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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