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MCL coexpression mm9:3219: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0004274;dipeptidyl-peptidase IV activity;0.011527492729213;74388!GO:0008239;dipeptidyl-peptidase activity;0.011527492729213;74388!GO:0016806;dipeptidyl-peptidase and tripeptidyl-peptidase activity;0.011527492729213;74388!GO:0008233;peptidase activity;0.011527492729213;170822,74388!GO:0004177;aminopeptidase activity;0.0283509095421994;74388!GO:0004221;ubiquitin thiolesterase activity;0.0325375515202056;170822!GO:0004843;ubiquitin-specific protease activity;0.0325375515202056;170822!GO:0019783;small conjugating protein-specific protease activity;0.0325375515202056;170822!GO:0016790;thiolester hydrolase activity;0.0359570282017172;170822!GO:0008238;exopeptidase activity;0.0359570282017172;74388!GO:0016787;hydrolase activity;0.0394152488012717;170822,74388!GO:0008234;cysteine-type peptidase activity;0.0429744633852751;170822!GO:0004252;serine-type endopeptidase activity;0.0429744633852751;74388!GO:0044267;cellular protein metabolic process;0.0429744633852751;170822,74388!GO:0044260;cellular macromolecule metabolic process;0.0429744633852751;170822,74388!GO:0008236;serine-type peptidase activity;0.0429744633852751;74388!GO:0017171;serine hydrolase activity;0.0429744633852751;74388!GO:0019538;protein metabolic process;0.0429744633852751;170822,74388!
|gostat_on_MCL_coexpression=GO:0004274;dipeptidyl-peptidase IV activity;0.011527492729213;74388!GO:0008239;dipeptidyl-peptidase activity;0.011527492729213;74388!GO:0016806;dipeptidyl-peptidase and tripeptidyl-peptidase activity;0.011527492729213;74388!GO:0008233;peptidase activity;0.011527492729213;170822,74388!GO:0004177;aminopeptidase activity;0.0283509095421994;74388!GO:0004221;ubiquitin thiolesterase activity;0.0325375515202056;170822!GO:0004843;ubiquitin-specific protease activity;0.0325375515202056;170822!GO:0019783;small conjugating protein-specific protease activity;0.0325375515202056;170822!GO:0016790;thiolester hydrolase activity;0.0359570282017172;170822!GO:0008238;exopeptidase activity;0.0359570282017172;74388!GO:0016787;hydrolase activity;0.0394152488012717;170822,74388!GO:0008234;cysteine-type peptidase activity;0.0429744633852751;170822!GO:0004252;serine-type endopeptidase activity;0.0429744633852751;74388!GO:0044267;cellular protein metabolic process;0.0429744633852751;170822,74388!GO:0044260;cellular macromolecule metabolic process;0.0429744633852751;170822,74388!GO:0008236;serine-type peptidase activity;0.0429744633852751;74388!GO:0017171;serine hydrolase activity;0.0429744633852751;74388!GO:0019538;protein metabolic process;0.0429744633852751;170822,74388!
|ontology_enrichment_celltype=CL:0000117!2.51e-07!23;CL:0000337!2.51e-07!23
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000073!1.04e-11!54;UBERON:0002020!1.28e-11!34;UBERON:0001049!1.21e-10!52;UBERON:0005068!1.21e-10!52;UBERON:0006241!1.21e-10!52;UBERON:0007135!1.21e-10!52;UBERON:0003528!1.96e-09!29;UBERON:0002791!1.96e-09!29;UBERON:0001893!1.96e-09!29;UBERON:0001017!4.35e-09!73;UBERON:0002346!8.36e-09!64;UBERON:0003075!8.36e-09!64;UBERON:0007284!8.36e-09!64;UBERON:0001016!9.69e-09!75;UBERON:0000955!1.28e-08!47;UBERON:0006238!1.28e-08!47;UBERON:0010371!1.44e-08!73;UBERON:0004121!2.32e-08!95;UBERON:0000924!2.32e-08!95;UBERON:0006601!2.32e-08!95;UBERON:0002616!3.47e-08!46;UBERON:0002021!5.94e-08!10;UBERON:0000411!5.94e-08!10;UBERON:0001950!5.94e-08!10;UBERON:0003080!8.36e-08!40;UBERON:0011216!1.14e-07!194;UBERON:0002780!2.25e-07!39;UBERON:0001890!2.25e-07!39;UBERON:0006240!2.25e-07!39;UBERON:0003056!3.68e-07!49
}}
}}

Revision as of 19:43, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr1:107560446..107560497,+p1@2310035C23Rik
Mm9::chr3:152009429..152009495,+p1@Usp33
Mm9::chr9:64880220..64880273,+p1@Dpp8


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:0004274dipeptidyl-peptidase IV activity0.011527492729213
GO:0008239dipeptidyl-peptidase activity0.011527492729213
GO:0016806dipeptidyl-peptidase and tripeptidyl-peptidase activity0.011527492729213
GO:0008233peptidase activity0.011527492729213
GO:0004177aminopeptidase activity0.0283509095421994
GO:0004221ubiquitin thiolesterase activity0.0325375515202056
GO:0004843ubiquitin-specific protease activity0.0325375515202056
GO:0019783small conjugating protein-specific protease activity0.0325375515202056
GO:0016790thiolester hydrolase activity0.0359570282017172
GO:0008238exopeptidase activity0.0359570282017172
GO:0016787hydrolase activity0.0394152488012717
GO:0008234cysteine-type peptidase activity0.0429744633852751
GO:0004252serine-type endopeptidase activity0.0429744633852751
GO:0044267cellular protein metabolic process0.0429744633852751
GO:0044260cellular macromolecule metabolic process0.0429744633852751
GO:0008236serine-type peptidase activity0.0429744633852751
GO:0017171serine hydrolase activity0.0429744633852751
GO:0019538protein metabolic process0.0429744633852751



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)2.51e-0723
neuroblast (sensu Vertebrata)2.51e-0723

Uber Anatomy
Ontology termp-valuen
regional part of nervous system1.04e-1154
gray matter1.28e-1134
neural tube1.21e-1052
neural rod1.21e-1052
future spinal cord1.21e-1052
neural keel1.21e-1052
brain grey matter1.96e-0929
regional part of telencephalon1.96e-0929
telencephalon1.96e-0929
central nervous system4.35e-0973
neurectoderm8.36e-0964
neural plate8.36e-0964
presumptive neural plate8.36e-0964
nervous system9.69e-0975
brain1.28e-0847
future brain1.28e-0847
ecto-epithelium1.44e-0873
ectoderm-derived structure2.32e-0895
ectoderm2.32e-0895
presumptive ectoderm2.32e-0895
regional part of brain3.47e-0846
occipital lobe5.94e-0810
visual cortex5.94e-0810
neocortex5.94e-0810
anterior neural tube8.36e-0840
organ system subdivision1.14e-07194
regional part of forebrain2.25e-0739
forebrain2.25e-0739
future forebrain2.25e-0739
pre-chordal neural plate3.68e-0749


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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