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MCL coexpression mm9:1633: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002193!5.47e-21!48;UBERON:0002405!5.47e-21!48;UBERON:0002390!1.67e-19!45;UBERON:0003061!1.67e-19!45;UBERON:0003081!2.56e-12!87;UBERON:0004177!1.87e-11!29;UBERON:0005057!1.87e-11!29;UBERON:0000926!3.82e-10!120;UBERON:0004120!3.82e-10!120;UBERON:0006603!3.82e-10!120;UBERON:0001041!5.93e-10!80;UBERON:0000077!9.19e-10!35;UBERON:0003408!6.07e-09!24;UBERON:0002371!6.89e-09!16;UBERON:0002370!1.39e-08!23;UBERON:0000974!1.39e-08!23;UBERON:0004807!1.39e-08!23;UBERON:0005058!1.39e-08!23;UBERON:0003351!1.39e-08!23;UBERON:0009113!1.39e-08!23;UBERON:0003295!1.39e-08!23;UBERON:0009722!1.39e-08!23;UBERON:0005562!1.39e-08!23;UBERON:0007690!1.39e-08!23;UBERON:0004119!1.88e-08!118;UBERON:0000925!1.88e-08!118;UBERON:0006595!1.88e-08!118;UBERON:0001007!2.31e-08!116;UBERON:0001555!2.31e-08!116;UBERON:0007026!2.31e-08!116;UBERON:0001474!4.16e-08!22;UBERON:0004765!4.16e-08!22;UBERON:0001434!4.16e-08!22;UBERON:0006562!4.97e-08!24;UBERON:0001557!4.97e-08!24;UBERON:0001042!4.97e-08!24;UBERON:0008814!4.97e-08!24;UBERON:0009145!4.97e-08!24;UBERON:0004921!8.32e-08!114;UBERON:0002530!2.10e-07!65
|ontology_enrichment_uberon=UBERON:0002193!5.47e-21!48;UBERON:0002405!5.47e-21!48;UBERON:0002390!1.67e-19!45;UBERON:0003061!1.67e-19!45;UBERON:0003081!2.56e-12!87;UBERON:0004177!1.87e-11!29;UBERON:0005057!1.87e-11!29;UBERON:0000926!3.82e-10!120;UBERON:0004120!3.82e-10!120;UBERON:0006603!3.82e-10!120;UBERON:0001041!5.93e-10!80;UBERON:0000077!9.19e-10!35;UBERON:0003408!6.07e-09!24;UBERON:0002371!6.89e-09!16;UBERON:0002370!1.39e-08!23;UBERON:0000974!1.39e-08!23;UBERON:0004807!1.39e-08!23;UBERON:0005058!1.39e-08!23;UBERON:0003351!1.39e-08!23;UBERON:0009113!1.39e-08!23;UBERON:0003295!1.39e-08!23;UBERON:0009722!1.39e-08!23;UBERON:0005562!1.39e-08!23;UBERON:0007690!1.39e-08!23;UBERON:0004119!1.88e-08!118;UBERON:0000925!1.88e-08!118;UBERON:0006595!1.88e-08!118;UBERON:0001007!2.31e-08!116;UBERON:0001555!2.31e-08!116;UBERON:0007026!2.31e-08!116;UBERON:0001474!4.16e-08!22;UBERON:0004765!4.16e-08!22;UBERON:0001434!4.16e-08!22;UBERON:0006562!4.97e-08!24;UBERON:0001557!4.97e-08!24;UBERON:0001042!4.97e-08!24;UBERON:0008814!4.97e-08!24;UBERON:0009145!4.97e-08!24;UBERON:0004921!8.32e-08!114;UBERON:0002530!2.10e-07!65
|tfbs_overrepresentation_for_novel_motifs=0.557864,0.293744,0.529553,0.603273,1.04755,0.618805,0.715644,0.300268,0.310789,0.115752,0.668936,0.702872,1.47559,0.728641,0.424775,0,0.930881,1.02841,0.283802,0.185796,2.12626,0.145201,0.727684,0.404661,0.537749,0.757752,0.274609,0.641282,0.456327,0.227599,0.626183,1.03545,0.395107,0.253145,0.425309,0.0566307,0.384813,0.699032,0.360612,0.328675,1.03785,0.631725,0.419293,0.426986,0.0637209,0.591277,0.847828,0.658142,0.370501,0.459555,0.912738,0.786094,1.17664,1.18062,1.19842,0.73621,1.18377,0.689304,0.26467,0.734051,1.01481,0.796017,0.323911,0.901018,0.747985,0.943088,1.33705,1.68977,2.30638,1.54147,0.509047,0.827208,0.152094,1.23259,0.257421,0.245132,0.253065,0.835925,0.997094,0.494135,0.308173,0.948899,1.86544,0.796301,1.1148,0.0793594,0.297068,0.227755,0.852952,1.85284,1.40768,1.11989,1.04863,0.412897,0.356133,0.3366,0.297538,1.05152,0.848095,5.05241,0.384901,1.03517,1.16282,0.913356,0.91226,0.631253,0.97421,0.653843,0.499439,0.491483,0.550229,1.16464,0.495367,0.674448,1.41481,0.399936,0.0998646,0.607321,0.932233,0.991416,1.23809,0.879184,0.759676,0.834976,1.46955,1.00091,0.724289,1.04166,1.33551,0.416189,1.14546,0.595426,1.3055,0.750642,1.43666,0.143464,1.39156,0.633235,1.3869,2.2222,1.82084,1.34183,0.772375,1.04623,0.905521,0.632211,0.851091,2.18247,0.569503,0.408309,0.230371,0.133815,1.18223,0.343194,0.749664,1.26545,0.787153,1.11626,1.36673,0.566652,1.39653,1.11392,1.00137,0.547782,0.90208,0.741834,0.383572,0.701187,0.0513167
}}
}}

Revision as of 20:12, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr12:99506836..99506864,+p2@Gpr65
Mm9::chr12:99506866..99506887,+p1@Gpr65
Mm9::chr12:99506888..99506900,+p3@Gpr65
Mm9::chr1:173537509..173537534,-p2@Ly9
Mm9::chr3:106563719..106563730,-p@chr3:106563719..106563730
-


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:0005886plasma membrane0.0289145497558186



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
hemolymphoid system5.47e-2148
immune system5.47e-2148
hematopoietic system1.67e-1945
blood island1.67e-1945
lateral plate mesoderm2.56e-1287
hemopoietic organ1.87e-1129
immune organ1.87e-1129
mesoderm3.82e-10120
mesoderm-derived structure3.82e-10120
presumptive mesoderm3.82e-10120
foregut5.93e-1080
mixed endoderm/mesoderm-derived structure9.19e-1035
gland of gut6.07e-0924
bone marrow6.89e-0916
thymus1.39e-0823
neck1.39e-0823
respiratory system epithelium1.39e-0823
hemolymphoid system gland1.39e-0823
pharyngeal epithelium1.39e-0823
thymic region1.39e-0823
pharyngeal gland1.39e-0823
entire pharyngeal arch endoderm1.39e-0823
thymus primordium1.39e-0823
early pharyngeal endoderm1.39e-0823
endoderm-derived structure1.88e-08118
endoderm1.88e-08118
presumptive endoderm1.88e-08118
digestive system2.31e-08116
digestive tract2.31e-08116
primitive gut2.31e-08116
bone element4.16e-0822
skeletal element4.16e-0822
skeletal system4.16e-0822
pharynx4.97e-0824
upper respiratory tract4.97e-0824
chordate pharynx4.97e-0824
pharyngeal arch system4.97e-0824
pharyngeal region of foregut4.97e-0824
subdivision of digestive tract8.32e-08114
gland2.10e-0765


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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