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MCL coexpression mm9:3069: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000949!3.05e-11!72;UBERON:0004177!1.75e-09!29;UBERON:0005057!1.75e-09!29;UBERON:0002368!3.60e-09!60;UBERON:0002390!4.10e-09!45;UBERON:0003061!4.10e-09!45;UBERON:0002193!5.01e-09!48;UBERON:0002405!5.01e-09!48;UBERON:0000466!2.63e-08!79;UBERON:0001048!7.72e-08!134;UBERON:0001041!7.89e-08!80;UBERON:0002530!8.83e-08!65;UBERON:0003408!1.06e-07!24;UBERON:0002370!2.67e-07!23;UBERON:0000974!2.67e-07!23;UBERON:0004807!2.67e-07!23;UBERON:0005058!2.67e-07!23;UBERON:0003351!2.67e-07!23;UBERON:0009113!2.67e-07!23;UBERON:0003295!2.67e-07!23;UBERON:0009722!2.67e-07!23;UBERON:0005562!2.67e-07!23;UBERON:0007690!2.67e-07!23;UBERON:0007811!5.29e-07!36;UBERON:0002553!5.98e-07!39
|ontology_enrichment_uberon=UBERON:0000949!3.05e-11!72;UBERON:0004177!1.75e-09!29;UBERON:0005057!1.75e-09!29;UBERON:0002368!3.60e-09!60;UBERON:0002390!4.10e-09!45;UBERON:0003061!4.10e-09!45;UBERON:0002193!5.01e-09!48;UBERON:0002405!5.01e-09!48;UBERON:0000466!2.63e-08!79;UBERON:0001048!7.72e-08!134;UBERON:0001041!7.89e-08!80;UBERON:0002530!8.83e-08!65;UBERON:0003408!1.06e-07!24;UBERON:0002370!2.67e-07!23;UBERON:0000974!2.67e-07!23;UBERON:0004807!2.67e-07!23;UBERON:0005058!2.67e-07!23;UBERON:0003351!2.67e-07!23;UBERON:0009113!2.67e-07!23;UBERON:0003295!2.67e-07!23;UBERON:0009722!2.67e-07!23;UBERON:0005562!2.67e-07!23;UBERON:0007690!2.67e-07!23;UBERON:0007811!5.29e-07!36;UBERON:0002553!5.98e-07!39
|tfbs_overrepresentation_for_novel_motifs=0.752782,0.564138,1.71649,0.801166,0.587814,0.81763,0.919454,0.467321,0.479531,0.66329,0.870507,0.906098,0.467629,0.933025,0.608226,0,1.14208,0.578045,0.448066,0.328717,0.679146,0.756749,0.932027,0.585919,0.731217,2.21138,1.1146,0.841386,0.64294,0.99159,0.825437,1.24901,0.575271,0.411696,1.47967,0.144706,1.38481,0.902078,0.536514,0.50014,0.582863,0.831295,0.261619,0.610669,0.474221,1.85291,1.05665,0.859154,0.235354,0.646474,1.12346,0.99279,0.371606,1.3966,1.41464,0.940919,0.657156,0.891887,0.425455,0.938668,1.22795,1.00308,0.494668,1.11142,0.953187,1.15459,1.55483,1.90983,1.22303,1.7608,1.6706,0.474956,1.41919,1.44925,0.416814,0.402065,0.411601,2.37627,1.20986,0.684144,0.476502,1.16055,1.00151,0.459035,1.32978,1.62246,0.568545,0.380977,1.06194,2.07346,1.62608,1.33496,1.26245,0.595071,0.531443,0.509215,0.464141,1.26539,1.05692,0.352122,0.563856,1.24872,1.37854,1.12409,1.12297,0.830796,1.18646,0.854628,0.689894,0.681267,0.744607,1.38039,0.685481,0.876299,1.63327,0.580657,0.609576,0.805461,1.14346,1.37508,1.45481,1.08896,0.965352,1.04338,1.68841,1.21376,0.928483,1.25534,1.55328,0.598722,1.36093,0.792832,1.52297,0.955954,1.65529,0.751419,0.762499,0.832891,1.60513,2.44352,2.04137,1.55966,0.978551,1.26,1.11604,0.831808,1.06002,2.40374,0.765221,1.44008,0.38417,2.0485,1.39822,0.516739,0.954936,1.48249,0.993889,0.622823,0.749933,0.762177,1.61484,1.32889,1.21423,0.741984,1.11251,0.94678,0.562367,0.904334,0.421338
}}
}}

Revision as of 22:21, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr16:91465082..91465136,-p@chr16:91465082..91465136
-
Mm9::chr18:74375772..74375799,+p2@Cxxc1
Mm9::chr5:152171258..152171298,+p1@ENSMUST00000138644
p1@ENSMUST00000143845
p1@uc009auq.1


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:0016363nuclear matrix0.0353366569878924



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><br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
endocrine system3.05e-1172
hemopoietic organ1.75e-0929
immune organ1.75e-0929
endocrine gland3.60e-0960
hematopoietic system4.10e-0945
blood island4.10e-0945
hemolymphoid system5.01e-0948
immune system5.01e-0948
immaterial anatomical entity2.63e-0879
primordium7.72e-08134
foregut7.89e-0880
gland8.83e-0865
gland of gut1.06e-0724
thymus2.67e-0723
neck2.67e-0723
respiratory system epithelium2.67e-0723
hemolymphoid system gland2.67e-0723
pharyngeal epithelium2.67e-0723
thymic region2.67e-0723
pharyngeal gland2.67e-0723
entire pharyngeal arch endoderm2.67e-0723
thymus primordium2.67e-0723
early pharyngeal endoderm2.67e-0723
craniocervical region5.29e-0736
anatomical cavity5.98e-0739


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}}}