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MCL coexpression mm9:1608: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004177!2.16e-21!29;UBERON:0005057!2.16e-21!29;UBERON:0002193!6.19e-20!48;UBERON:0002405!6.19e-20!48;UBERON:0002390!4.81e-19!45;UBERON:0003061!4.81e-19!45;UBERON:0003408!2.91e-18!24;UBERON:0002370!2.68e-17!23;UBERON:0000974!2.68e-17!23;UBERON:0004807!2.68e-17!23;UBERON:0005058!2.68e-17!23;UBERON:0003351!2.68e-17!23;UBERON:0009113!2.68e-17!23;UBERON:0003295!2.68e-17!23;UBERON:0009722!2.68e-17!23;UBERON:0005562!2.68e-17!23;UBERON:0007690!2.68e-17!23;UBERON:0001004!1.08e-16!42;UBERON:0006562!2.68e-16!24;UBERON:0001557!2.68e-16!24;UBERON:0001042!2.68e-16!24;UBERON:0008814!2.68e-16!24;UBERON:0009145!2.68e-16!24;UBERON:0000077!2.86e-16!35;UBERON:0000065!7.99e-16!41;UBERON:0000072!9.30e-14!27;UBERON:0001041!2.38e-12!80;UBERON:0007811!7.01e-11!36;UBERON:0003081!8.55e-11!87;UBERON:0000063!2.88e-10!35;UBERON:0005911!8.81e-10!69;UBERON:0001007!1.91e-08!116;UBERON:0001555!1.91e-08!116;UBERON:0007026!1.91e-08!116;UBERON:0004921!2.77e-08!114;UBERON:0004119!4.23e-08!118;UBERON:0000925!4.23e-08!118;UBERON:0006595!4.23e-08!118;UBERON:0000153!4.71e-08!43;UBERON:0001048!6.34e-08!134;UBERON:0000475!1.82e-07!150;UBERON:0000926!3.43e-07!120;UBERON:0004120!3.43e-07!120;UBERON:0006603!3.43e-07!120;UBERON:0003929!3.86e-07!55;UBERON:0002530!6.47e-07!65
|ontology_enrichment_uberon=UBERON:0004177!2.16e-21!29;UBERON:0005057!2.16e-21!29;UBERON:0002193!6.19e-20!48;UBERON:0002405!6.19e-20!48;UBERON:0002390!4.81e-19!45;UBERON:0003061!4.81e-19!45;UBERON:0003408!2.91e-18!24;UBERON:0002370!2.68e-17!23;UBERON:0000974!2.68e-17!23;UBERON:0004807!2.68e-17!23;UBERON:0005058!2.68e-17!23;UBERON:0003351!2.68e-17!23;UBERON:0009113!2.68e-17!23;UBERON:0003295!2.68e-17!23;UBERON:0009722!2.68e-17!23;UBERON:0005562!2.68e-17!23;UBERON:0007690!2.68e-17!23;UBERON:0001004!1.08e-16!42;UBERON:0006562!2.68e-16!24;UBERON:0001557!2.68e-16!24;UBERON:0001042!2.68e-16!24;UBERON:0008814!2.68e-16!24;UBERON:0009145!2.68e-16!24;UBERON:0000077!2.86e-16!35;UBERON:0000065!7.99e-16!41;UBERON:0000072!9.30e-14!27;UBERON:0001041!2.38e-12!80;UBERON:0007811!7.01e-11!36;UBERON:0003081!8.55e-11!87;UBERON:0000063!2.88e-10!35;UBERON:0005911!8.81e-10!69;UBERON:0001007!1.91e-08!116;UBERON:0001555!1.91e-08!116;UBERON:0007026!1.91e-08!116;UBERON:0004921!2.77e-08!114;UBERON:0004119!4.23e-08!118;UBERON:0000925!4.23e-08!118;UBERON:0006595!4.23e-08!118;UBERON:0000153!4.71e-08!43;UBERON:0001048!6.34e-08!134;UBERON:0000475!1.82e-07!150;UBERON:0000926!3.43e-07!120;UBERON:0004120!3.43e-07!120;UBERON:0006603!3.43e-07!120;UBERON:0003929!3.86e-07!55;UBERON:0002530!6.47e-07!65
|tfbs_overrepresentation_for_novel_motifs=0.557864,0.293744,0.529553,2.49835,0.406364,0.618805,0.715644,0.812379,0.310789,0.115752,0.668936,0.702872,0.300533,0.728641,0.424775,0,0.930881,0.397593,0.283802,0.545768,2.12626,0.145201,0.727684,1.84054,0.537749,0.757752,0.754069,0.641282,1.15581,0.227599,0.626183,1.03545,0.395107,0.253145,0.425309,4.15666,0.384813,0.699032,0.360612,2.39139,1.03785,0.631725,0.419293,0.426986,0.4934,0.591277,0.847828,0.658142,0.370501,0.459555,0.912738,0.786094,0.220111,1.18062,1.19842,0.73621,0.469329,0.689304,0.26467,0.734051,1.01481,0.796017,0.323911,0.901018,0.747985,0.943088,1.33705,1.68977,1.00999,1.54147,0.509047,0.827208,0.152094,1.23259,0.257421,0.245132,0.253065,0.835925,0.997094,0.494135,0.830212,0.948899,0.794502,0.796301,1.1148,0.0793594,0.0882907,0.645625,0.852952,1.85284,1.40768,1.11989,1.04863,0.412897,0.356133,0.89388,0.297538,1.05152,0.848095,0.20438,0.384901,1.03517,1.16282,0.913356,0.91226,0.631253,0.97421,0.653843,0.499439,0.491483,0.550229,1.16464,0.495367,0.674448,1.41481,0.399936,0.0998646,1.47653,0.932233,0.380707,1.23809,0.879184,0.759676,0.834976,1.46955,1.00091,0.724289,1.04166,1.33551,0.416189,1.14546,0.595426,1.3055,0.750642,1.43666,0.143464,0.566955,0.633235,1.3869,2.2222,1.82084,1.34183,0.772375,1.04623,0.905521,0.632211,0.851091,2.18247,0.569503,0.408309,0.230371,0.133815,1.18223,0.343194,0.749664,1.26545,0.787153,0.438007,0.555203,0.566652,1.39653,1.11392,1.00137,0.547782,0.90208,0.741834,0.997706,0.701187,0.191104
}}
}}

Revision as of 20:10, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:98340765..98340774,-p@chr11:98340765..98340774
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Mm9::chr11:98340830..98340833,-p@chr11:98340830..98340833
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Mm9::chr11:98370126..98370147,-p@chr11:98370126..98370147
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Mm9::chr1:89761676..89761681,+p@chr1:89761676..89761681
+
Mm9::chr1:89792712..89792716,+p@chr1:89792712..89792716
+


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

no results for this coexpression

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
CD4-positive, alpha-beta T cell5.34e-098
mature alpha-beta T cell8.79e-089
alpha-beta T cell8.79e-089
immature T cell8.79e-089
mature T cell8.79e-089
immature alpha-beta T cell8.79e-089
hematopoietic lineage restricted progenitor cell9.19e-0825
thymocyte1.75e-076
double negative thymocyte1.75e-076
naive T cell1.75e-076
double-positive, alpha-beta thymocyte1.75e-076
CD4-positive, alpha-beta thymocyte1.75e-076
naive thymus-derived CD4-positive, alpha-beta T cell1.75e-076
DN4 thymocyte1.75e-076
DN1 thymic pro-T cell1.75e-076
DN2 thymocyte1.75e-076
DN3 thymocyte1.75e-076
immature single positive thymocyte1.75e-076
early T lineage precursor1.75e-076
mature CD4 single-positive thymocyte1.75e-076
resting double-positive thymocyte1.75e-076
double-positive blast1.75e-076
CD69-positive double-positive thymocyte1.75e-076
CD69-positive, CD4-positive single-positive thymocyte1.75e-076
CD4-positive, CD8-intermediate double-positive thymocyte1.75e-076
CD24-positive, CD4 single-positive thymocyte1.75e-076
megakaryocyte progenitor cell2.82e-076
megakaryocyte2.82e-076
lymphoid lineage restricted progenitor cell4.74e-0712

Uber Anatomy
Ontology termp-valuen
hemopoietic organ2.16e-2129
immune organ2.16e-2129
hemolymphoid system6.19e-2048
immune system6.19e-2048
hematopoietic system4.81e-1945
blood island4.81e-1945
gland of gut2.91e-1824
thymus2.68e-1723
neck2.68e-1723
respiratory system epithelium2.68e-1723
hemolymphoid system gland2.68e-1723
pharyngeal epithelium2.68e-1723
thymic region2.68e-1723
pharyngeal gland2.68e-1723
entire pharyngeal arch endoderm2.68e-1723
thymus primordium2.68e-1723
early pharyngeal endoderm2.68e-1723
respiratory system1.08e-1642
pharynx2.68e-1624
upper respiratory tract2.68e-1624
chordate pharynx2.68e-1624
pharyngeal arch system2.68e-1624
pharyngeal region of foregut2.68e-1624
mixed endoderm/mesoderm-derived structure2.86e-1635
respiratory tract7.99e-1641
segment of respiratory tract9.30e-1427
foregut2.38e-1280
craniocervical region7.01e-1136
lateral plate mesoderm8.55e-1187
organ segment2.88e-1035
endo-epithelium8.81e-1069
digestive system1.91e-08116
digestive tract1.91e-08116
primitive gut1.91e-08116
subdivision of digestive tract2.77e-08114
endoderm-derived structure4.23e-08118
endoderm4.23e-08118
presumptive endoderm4.23e-08118
anterior region of body4.71e-0843
primordium6.34e-08134
organism subdivision1.82e-07150
mesoderm3.43e-07120
mesoderm-derived structure3.43e-07120
presumptive mesoderm3.43e-07120
gut epithelium3.86e-0755
gland6.47e-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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