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MCL coexpression mm9:2540: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002370!5.46e-14!23;UBERON:0000974!5.46e-14!23;UBERON:0004807!5.46e-14!23;UBERON:0005058!5.46e-14!23;UBERON:0003351!5.46e-14!23;UBERON:0009113!5.46e-14!23;UBERON:0003295!5.46e-14!23;UBERON:0009722!5.46e-14!23;UBERON:0005562!5.46e-14!23;UBERON:0007690!5.46e-14!23;UBERON:0002390!2.69e-13!45;UBERON:0003061!2.69e-13!45;UBERON:0006562!3.36e-13!24;UBERON:0003408!3.36e-13!24;UBERON:0001557!3.36e-13!24;UBERON:0001042!3.36e-13!24;UBERON:0008814!3.36e-13!24;UBERON:0009145!3.36e-13!24;UBERON:0004177!6.51e-13!29;UBERON:0005057!6.51e-13!29;UBERON:0002193!5.16e-12!48;UBERON:0002405!5.16e-12!48;UBERON:0002384!6.56e-12!46;UBERON:0000077!3.07e-11!35;UBERON:0000072!3.43e-11!27;UBERON:0000063!7.58e-11!35;UBERON:0007811!3.23e-08!36;UBERON:0000153!5.67e-07!43
|ontology_enrichment_uberon=UBERON:0002370!5.46e-14!23;UBERON:0000974!5.46e-14!23;UBERON:0004807!5.46e-14!23;UBERON:0005058!5.46e-14!23;UBERON:0003351!5.46e-14!23;UBERON:0009113!5.46e-14!23;UBERON:0003295!5.46e-14!23;UBERON:0009722!5.46e-14!23;UBERON:0005562!5.46e-14!23;UBERON:0007690!5.46e-14!23;UBERON:0002390!2.69e-13!45;UBERON:0003061!2.69e-13!45;UBERON:0006562!3.36e-13!24;UBERON:0003408!3.36e-13!24;UBERON:0001557!3.36e-13!24;UBERON:0001042!3.36e-13!24;UBERON:0008814!3.36e-13!24;UBERON:0009145!3.36e-13!24;UBERON:0004177!6.51e-13!29;UBERON:0005057!6.51e-13!29;UBERON:0002193!5.16e-12!48;UBERON:0002405!5.16e-12!48;UBERON:0002384!6.56e-12!46;UBERON:0000077!3.07e-11!35;UBERON:0000072!3.43e-11!27;UBERON:0000063!7.58e-11!35;UBERON:0007811!3.23e-08!36;UBERON:0000153!5.67e-07!43
|tfbs_overrepresentation_for_novel_motifs=0.752782,0.564138,1.71649,0.801166,0.587814,0.81763,0.919454,0.467321,0.479531,1.23467,0.870507,0.906098,0.467629,0.933025,0.608226,0,1.14208,0.578045,0.448066,0.328717,0.679146,0.756749,0.932027,0.585919,0.731217,0.963352,0.437236,0.841386,0.64294,0.380786,0.825437,1.24901,1.40911,0.411696,0.608816,0.144706,1.38481,0.902078,0.536514,0.50014,0.582863,0.831295,0.261619,0.610669,0.474221,0.788421,1.05665,0.859154,0.235354,0.646474,1.12346,0.99279,0.371606,1.3966,1.41464,0.940919,0.657156,0.891887,0.425455,0.938668,1.22795,1.00308,0.494668,1.11142,0.953187,1.15459,1.55483,1.90983,1.22303,1.7608,0.700291,0.474956,0.284975,1.44925,0.416814,0.402065,0.411601,1.04436,1.20986,0.684144,0.476502,1.16055,1.00151,0.459035,1.32978,0.535545,0.195254,0.380977,1.06194,2.07346,1.62608,1.33496,1.26245,0.595071,0.531443,0.509215,0.464141,1.26539,1.05692,0.352122,0.563856,1.24872,1.37854,1.12409,1.12297,1.94011,1.18646,0.854628,0.689894,1.63106,0.744607,1.38039,0.685481,0.876299,1.63327,0.580657,0.212464,0.805461,1.14346,0.559153,1.45481,1.08896,0.965352,1.04338,1.68841,1.21376,0.928483,1.25534,1.55328,0.598722,1.36093,0.792832,1.52297,0.955954,1.65529,0.273451,0.762499,0.832891,1.60513,2.44352,2.04137,1.55966,0.978551,1.26,1.11604,0.831808,1.06002,2.40374,0.765221,0.589976,0.38417,0.260379,1.39822,0.516739,0.954936,1.48249,0.993889,0.622823,0.749933,0.762177,1.61484,1.32889,1.21423,0.741984,1.11251,0.94678,0.562367,0.904334,0.833542
}}
}}

Revision as of 21:34, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:13702915..13702936,+p@chr10:13702915..13702936
+
Mm9::chr14:61792329..61792334,-p@chr14:61792329..61792334
-
Mm9::chr7:31107574..31107588,+p@chr7:31107574..31107588
+


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
hematopoietic cell3.66e-1832
hematopoietic oligopotent progenitor cell3.66e-1832
hematopoietic stem cell3.66e-1832
angioblastic mesenchymal cell3.66e-1832
hematopoietic multipotent progenitor cell3.66e-1832
lymphoid lineage restricted progenitor cell5.93e-1712
T cell1.78e-1511
pro-T cell1.78e-1511
lymphocyte2.27e-1513
common lymphoid progenitor2.27e-1513
nucleate cell4.42e-1416
hematopoietic lineage restricted progenitor cell4.66e-1425
mature alpha-beta T cell2.56e-139
alpha-beta T cell2.56e-139
immature T cell2.56e-139
mature T cell2.56e-139
immature alpha-beta T cell2.56e-139
connective tissue cell6.56e-1246
mesenchymal cell6.56e-1246
CD4-positive, alpha-beta T cell7.23e-128
leukocyte6.35e-1117
nongranular leukocyte6.35e-1117
motile cell7.38e-1154
thymocyte5.40e-096
double negative thymocyte5.40e-096
naive T cell5.40e-096
double-positive, alpha-beta thymocyte5.40e-096
CD4-positive, alpha-beta thymocyte5.40e-096
naive thymus-derived CD4-positive, alpha-beta T cell5.40e-096
DN4 thymocyte5.40e-096
DN1 thymic pro-T cell5.40e-096
DN2 thymocyte5.40e-096
DN3 thymocyte5.40e-096
immature single positive thymocyte5.40e-096
early T lineage precursor5.40e-096
mature CD4 single-positive thymocyte5.40e-096
resting double-positive thymocyte5.40e-096
double-positive blast5.40e-096
CD69-positive double-positive thymocyte5.40e-096
CD69-positive, CD4-positive single-positive thymocyte5.40e-096
CD4-positive, CD8-intermediate double-positive thymocyte5.40e-096
CD24-positive, CD4 single-positive thymocyte5.40e-096
stem cell1.51e-0797

Uber Anatomy
Ontology termp-valuen
thymus5.46e-1423
neck5.46e-1423
respiratory system epithelium5.46e-1423
hemolymphoid system gland5.46e-1423
pharyngeal epithelium5.46e-1423
thymic region5.46e-1423
pharyngeal gland5.46e-1423
entire pharyngeal arch endoderm5.46e-1423
thymus primordium5.46e-1423
early pharyngeal endoderm5.46e-1423
hematopoietic system2.69e-1345
blood island2.69e-1345
pharynx3.36e-1324
gland of gut3.36e-1324
upper respiratory tract3.36e-1324
chordate pharynx3.36e-1324
pharyngeal arch system3.36e-1324
pharyngeal region of foregut3.36e-1324
hemopoietic organ6.51e-1329
immune organ6.51e-1329
hemolymphoid system5.16e-1248
immune system5.16e-1248
connective tissue6.56e-1246
mixed endoderm/mesoderm-derived structure3.07e-1135
segment of respiratory tract3.43e-1127
organ segment7.58e-1135
craniocervical region3.23e-0836
anterior region of body5.67e-0743


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}}}