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MCL coexpression mm9:1888: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004177!6.86e-16!29;UBERON:0005057!6.86e-16!29;UBERON:0006562!3.77e-14!24;UBERON:0001557!3.77e-14!24;UBERON:0001042!3.77e-14!24;UBERON:0008814!3.77e-14!24;UBERON:0009145!3.77e-14!24;UBERON:0002370!4.17e-13!23;UBERON:0000974!4.17e-13!23;UBERON:0004807!4.17e-13!23;UBERON:0005058!4.17e-13!23;UBERON:0003351!4.17e-13!23;UBERON:0009113!4.17e-13!23;UBERON:0003295!4.17e-13!23;UBERON:0009722!4.17e-13!23;UBERON:0005562!4.17e-13!23;UBERON:0007690!4.17e-13!23;UBERON:0000077!6.98e-13!35;UBERON:0000065!1.44e-12!41;UBERON:0003408!2.70e-12!24;UBERON:0001004!4.64e-12!42;UBERON:0000072!7.94e-12!27;UBERON:0002193!1.74e-11!48;UBERON:0002405!1.74e-11!48;UBERON:0007811!7.40e-11!36;UBERON:0002390!1.51e-10!45;UBERON:0003061!1.51e-10!45;UBERON:0000063!1.38e-08!35;UBERON:0000153!6.49e-08!43
|ontology_enrichment_uberon=UBERON:0004177!6.86e-16!29;UBERON:0005057!6.86e-16!29;UBERON:0006562!3.77e-14!24;UBERON:0001557!3.77e-14!24;UBERON:0001042!3.77e-14!24;UBERON:0008814!3.77e-14!24;UBERON:0009145!3.77e-14!24;UBERON:0002370!4.17e-13!23;UBERON:0000974!4.17e-13!23;UBERON:0004807!4.17e-13!23;UBERON:0005058!4.17e-13!23;UBERON:0003351!4.17e-13!23;UBERON:0009113!4.17e-13!23;UBERON:0003295!4.17e-13!23;UBERON:0009722!4.17e-13!23;UBERON:0005562!4.17e-13!23;UBERON:0007690!4.17e-13!23;UBERON:0000077!6.98e-13!35;UBERON:0000065!1.44e-12!41;UBERON:0003408!2.70e-12!24;UBERON:0001004!4.64e-12!42;UBERON:0000072!7.94e-12!27;UBERON:0002193!1.74e-11!48;UBERON:0002405!1.74e-11!48;UBERON:0007811!7.40e-11!36;UBERON:0002390!1.51e-10!45;UBERON:0003061!1.51e-10!45;UBERON:0000063!1.38e-08!35;UBERON:0000153!6.49e-08!43
|tfbs_overrepresentation_for_novel_motifs=0.641384,0.128156,0.612053,0.688265,1.21364,0.704257,0.803568,0.370124,0.381467,0.949265,0.755749,0.790506,0.37041,0.81685,0.502646,0,1.02248,0.473993,0.352304,0.24402,1.39891,0.57409,0.815872,0.481455,0.620553,0.846564,0.342316,0.727368,0.535752,0.290745,0.711848,1.12823,0.471365,0.854272,0.503207,0.30022,0.460474,0.786577,0.434783,0.40068,0.478558,0.717547,0.185353,1.26006,0.0986756,0.675898,0.938241,0.744678,0.49007,0.539131,1.0041,0.875451,0.282443,1.2746,1.29252,0.82458,0.549352,0.776619,0.331485,0.822375,1.10737,0.885556,0.39557,0.992216,0.8366,1.03484,1.43193,1.78579,1.1025,1.63712,0.590754,0.377213,0.205546,1.32691,0.323563,0.310084,0.318792,0.926147,1.08947,0.575233,0.986898,1.04072,0.884013,0.362446,1.20828,0.11855,0.129654,0.290918,0.943446,1.94914,1.50286,1.21342,1.14153,0.490141,0.430015,0.409166,0.367176,1.14445,0.938512,0.264911,0.460566,1.12793,1.25667,1.00472,1.00361,0.717061,1.06633,0.740267,0.580757,0.57247,0.633483,1.25851,0.576517,0.7614,1.51002,0.476467,0.143825,0.692434,1.02384,0.456123,1.33244,0.970073,0.848526,0.925183,1.56496,1.09333,0.812403,1.13449,1.43038,0.493609,1.23918,0.680176,1.40022,1.9576,1.53196,0.195549,0.650785,0.719099,1.482,2.31884,1.91709,1.43673,0.861473,1.1391,0.996781,0.718046,0.941555,2.27909,0.653418,0.485304,0.293812,0.184289,1.27621,0.416214,0.838313,1.35996,0.87653,0.516549,0.63863,0.650472,1.49167,1.20739,1.09379,0.630949,0.993294,0.830321,0.459159,1.85366,0.0824127
}}
}}

Revision as of 20:35, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:22022565..22022574,-p5@uc007eph.1
p5@uc007epi.1
Mm9::chr10:22022577..22022625,-p2@uc007eph.1
p2@uc007epi.1
Mm9::chr10:22022630..22022662,-p3@uc007eph.1
p3@uc007epi.1
Mm9::chr13:46831472..46831507,+p@chr13:46831472..46831507
+


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
mature alpha-beta T cell8.69e-119
alpha-beta T cell8.69e-119
immature T cell8.69e-119
mature T cell8.69e-119
immature alpha-beta T cell8.69e-119
CD4-positive, alpha-beta T cell1.21e-098
lymphoid lineage restricted progenitor cell3.82e-0912
T cell2.64e-0811
pro-T cell2.64e-0811
lymphocyte3.39e-0813
common lymphoid progenitor3.39e-0813
thymocyte2.63e-076
double negative thymocyte2.63e-076
naive T cell2.63e-076
double-positive, alpha-beta thymocyte2.63e-076
CD4-positive, alpha-beta thymocyte2.63e-076
naive thymus-derived CD4-positive, alpha-beta T cell2.63e-076
DN4 thymocyte2.63e-076
DN1 thymic pro-T cell2.63e-076
DN2 thymocyte2.63e-076
DN3 thymocyte2.63e-076
immature single positive thymocyte2.63e-076
early T lineage precursor2.63e-076
mature CD4 single-positive thymocyte2.63e-076
resting double-positive thymocyte2.63e-076
double-positive blast2.63e-076
CD69-positive double-positive thymocyte2.63e-076
CD69-positive, CD4-positive single-positive thymocyte2.63e-076
CD4-positive, CD8-intermediate double-positive thymocyte2.63e-076
CD24-positive, CD4 single-positive thymocyte2.63e-076

Uber Anatomy
Ontology termp-valuen
hemopoietic organ6.86e-1629
immune organ6.86e-1629
pharynx3.77e-1424
upper respiratory tract3.77e-1424
chordate pharynx3.77e-1424
pharyngeal arch system3.77e-1424
pharyngeal region of foregut3.77e-1424
thymus4.17e-1323
neck4.17e-1323
respiratory system epithelium4.17e-1323
hemolymphoid system gland4.17e-1323
pharyngeal epithelium4.17e-1323
thymic region4.17e-1323
pharyngeal gland4.17e-1323
entire pharyngeal arch endoderm4.17e-1323
thymus primordium4.17e-1323
early pharyngeal endoderm4.17e-1323
mixed endoderm/mesoderm-derived structure6.98e-1335
respiratory tract1.44e-1241
gland of gut2.70e-1224
respiratory system4.64e-1242
segment of respiratory tract7.94e-1227
hemolymphoid system1.74e-1148
immune system1.74e-1148
craniocervical region7.40e-1136
hematopoietic system1.51e-1045
blood island1.51e-1045
organ segment1.38e-0835
anterior region of body6.49e-0843


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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