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MCL coexpression mm9:1354: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0009404;toxin metabolic process;0.00136963786774777;13498!GO:0050827;toxin receptor binding;0.00136963786774777;13498!GO:0009636;response to toxin;0.0173487463248051;13498!GO:0019748;secondary metabolic process;0.029447214156577;13498!GO:0003714;transcription corepressor activity;0.03067988823755;13498!
|gostat_on_MCL_coexpression=GO:0009404;toxin metabolic process;0.00136963786774777;13498!GO:0050827;toxin receptor binding;0.00136963786774777;13498!GO:0009636;response to toxin;0.0173487463248051;13498!GO:0019748;secondary metabolic process;0.029447214156577;13498!GO:0003714;transcription corepressor activity;0.03067988823755;13498!
|ontology_enrichment_celltype=CL:0000117!3.05e-11!23;CL:0000337!3.05e-11!23;CL:0000393!5.62e-11!39;CL:0000211!5.62e-11!39;CL:0000540!2.46e-10!33;CL:0000047!2.46e-10!33;CL:0000031!2.46e-10!33;CL:0000404!2.46e-10!33;CL:0000055!4.07e-09!49;CL:0000221!2.45e-08!44;CL:0000133!2.45e-08!44;CL:0002319!2.48e-08!43
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!2.32e-22!73;UBERON:0000073!6.83e-22!54;UBERON:0001016!7.85e-22!75;UBERON:0001049!3.63e-20!52;UBERON:0005068!3.63e-20!52;UBERON:0006241!3.63e-20!52;UBERON:0007135!3.63e-20!52;UBERON:0004121!6.48e-20!95;UBERON:0000924!6.48e-20!95;UBERON:0006601!6.48e-20!95;UBERON:0002346!3.79e-19!64;UBERON:0003075!3.79e-19!64;UBERON:0007284!3.79e-19!64;UBERON:0010371!2.15e-18!73;UBERON:0000955!4.63e-18!47;UBERON:0006238!4.63e-18!47;UBERON:0002616!1.93e-17!46;UBERON:0003080!1.03e-15!40;UBERON:0002020!1.16e-15!34;UBERON:0010314!1.35e-15!92;UBERON:0003056!2.52e-15!49;UBERON:0002780!3.20e-15!39;UBERON:0001890!3.20e-15!39;UBERON:0006240!3.20e-15!39;UBERON:0003528!2.54e-13!29;UBERON:0002791!2.54e-13!29;UBERON:0001893!2.54e-13!29;UBERON:0000025!6.70e-10!114;UBERON:0000956!8.25e-10!21;UBERON:0001869!8.25e-10!21;UBERON:0000203!8.25e-10!21;UBERON:0004111!1.33e-09!122;UBERON:0000468!1.68e-09!333;UBERON:0002619!3.70e-08!17;UBERON:0002021!1.49e-07!10;UBERON:0000411!1.49e-07!10;UBERON:0001950!1.49e-07!10;UBERON:0000922!5.63e-07!320
}}
}}

Revision as of 16:45, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr14:119498621..119498667,-p1@Uggt2
Mm9::chr15:77137003..77137037,-p4@Rbfox2
Mm9::chr15:77137042..77137081,-p3@Rbfox2
Mm9::chr2:106814540..106814579,-p1@2700007P21Rik
Mm9::chr6:124706496..124706545,-p4@Atn1
Mm9::chr6:124706717..124706786,-p1@Atn1


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:0009404toxin metabolic process0.00136963786774777
GO:0050827toxin receptor binding0.00136963786774777
GO:0009636response to toxin0.0173487463248051
GO:0019748secondary metabolic process0.029447214156577
GO:0003714transcription corepressor activity0.03067988823755



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 system2.32e-2273
regional part of nervous system6.83e-2254
nervous system7.85e-2275
neural tube3.63e-2052
neural rod3.63e-2052
future spinal cord3.63e-2052
neural keel3.63e-2052
ectoderm-derived structure6.48e-2095
ectoderm6.48e-2095
presumptive ectoderm6.48e-2095
neurectoderm3.79e-1964
neural plate3.79e-1964
presumptive neural plate3.79e-1964
ecto-epithelium2.15e-1873
brain4.63e-1847
future brain4.63e-1847
regional part of brain1.93e-1746
anterior neural tube1.03e-1540
gray matter1.16e-1534
structure with developmental contribution from neural crest1.35e-1592
pre-chordal neural plate2.52e-1549
regional part of forebrain3.20e-1539
forebrain3.20e-1539
future forebrain3.20e-1539
brain grey matter2.54e-1329
regional part of telencephalon2.54e-1329
telencephalon2.54e-1329
tube6.70e-10114
cerebral cortex8.25e-1021
cerebral hemisphere8.25e-1021
pallium8.25e-1021
anatomical conduit1.33e-09122
multi-cellular organism1.68e-09333
regional part of cerebral cortex3.70e-0817
occipital lobe1.49e-0710
visual cortex1.49e-0710
neocortex1.49e-0710
embryo5.63e-07320


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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