Personal tools

MCL coexpression mm9:3067: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 6: Line 6:
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004177!1.04e-14!29;UBERON:0005057!1.04e-14!29;UBERON:0000077!1.07e-12!35;UBERON:0003408!3.34e-12!24;UBERON:0002370!3.91e-12!23;UBERON:0000974!3.91e-12!23;UBERON:0004807!3.91e-12!23;UBERON:0005058!3.91e-12!23;UBERON:0003351!3.91e-12!23;UBERON:0009113!3.91e-12!23;UBERON:0003295!3.91e-12!23;UBERON:0009722!3.91e-12!23;UBERON:0005562!3.91e-12!23;UBERON:0007690!3.91e-12!23;UBERON:0001004!4.54e-12!42;UBERON:0000065!6.45e-12!41;UBERON:0002193!7.51e-12!48;UBERON:0002405!7.51e-12!48;UBERON:0006562!1.15e-11!24;UBERON:0001557!1.15e-11!24;UBERON:0001042!1.15e-11!24;UBERON:0008814!1.15e-11!24;UBERON:0009145!1.15e-11!24;UBERON:0001041!2.11e-11!80;UBERON:0002390!4.29e-11!45;UBERON:0003061!4.29e-11!45;UBERON:0001007!8.82e-11!116;UBERON:0001555!8.82e-11!116;UBERON:0007026!8.82e-11!116;UBERON:0004119!1.25e-10!118;UBERON:0000925!1.25e-10!118;UBERON:0006595!1.25e-10!118;UBERON:0004921!1.57e-10!114;UBERON:0003081!4.22e-09!87;UBERON:0005911!2.93e-08!69;UBERON:0000072!5.55e-08!27
|ontology_enrichment_uberon=UBERON:0004177!1.04e-14!29;UBERON:0005057!1.04e-14!29;UBERON:0000077!1.07e-12!35;UBERON:0003408!3.34e-12!24;UBERON:0002370!3.91e-12!23;UBERON:0000974!3.91e-12!23;UBERON:0004807!3.91e-12!23;UBERON:0005058!3.91e-12!23;UBERON:0003351!3.91e-12!23;UBERON:0009113!3.91e-12!23;UBERON:0003295!3.91e-12!23;UBERON:0009722!3.91e-12!23;UBERON:0005562!3.91e-12!23;UBERON:0007690!3.91e-12!23;UBERON:0001004!4.54e-12!42;UBERON:0000065!6.45e-12!41;UBERON:0002193!7.51e-12!48;UBERON:0002405!7.51e-12!48;UBERON:0006562!1.15e-11!24;UBERON:0001557!1.15e-11!24;UBERON:0001042!1.15e-11!24;UBERON:0008814!1.15e-11!24;UBERON:0009145!1.15e-11!24;UBERON:0001041!2.11e-11!80;UBERON:0002390!4.29e-11!45;UBERON:0003061!4.29e-11!45;UBERON:0001007!8.82e-11!116;UBERON:0001555!8.82e-11!116;UBERON:0007026!8.82e-11!116;UBERON:0004119!1.25e-10!118;UBERON:0000925!1.25e-10!118;UBERON:0006595!1.25e-10!118;UBERON:0004921!1.57e-10!114;UBERON:0003081!4.22e-09!87;UBERON:0005911!2.93e-08!69;UBERON:0000072!5.55e-08!27
|tfbs_overrepresentation_for_novel_motifs=0.752782,0.193418,1.71649,0.801166,1.43553,0.81763,0.919454,0.467321,0.479531,1.23467,0.870507,0.906098,0.467629,0.933025,0.608226,0,1.14208,0.578045,0.448066,0.328717,0.679146,0.275782,0.932027,0.585919,0.731217,0.963352,0.437236,0.841386,0.64294,0.380786,0.825437,1.24901,0.575271,0.411696,0.608816,0.444545,0.563758,0.902078,0.536514,0.50014,0.582863,0.831295,0.261619,0.610669,0.922882,0.788421,2.40123,1.99832,0.663409,0.646474,1.12346,0.99279,0.371606,1.3966,1.41464,0.940919,0.657156,0.891887,0.425455,0.938668,1.22795,1.00308,0.494668,1.11142,0.953187,1.15459,1.55483,1.90983,1.22303,1.7608,0.700291,1.19585,0.284975,1.44925,1.07031,0.402065,0.411601,1.04436,1.20986,0.684144,0.476502,1.16055,1.00151,0.459035,1.32978,0.535545,0.568545,0.380977,1.06194,2.07346,1.62608,1.33496,1.26245,0.595071,0.531443,0.509215,0.464141,1.26539,1.05692,0.352122,1.38502,1.24872,1.37854,1.12409,1.12297,0.830796,1.18646,0.854628,0.689894,0.681267,0.744607,1.38039,0.685481,0.876299,1.63327,0.580657,0.609576,0.805461,1.14346,0.559153,1.45481,1.08896,0.965352,1.04338,1.68841,1.21376,0.928483,1.25534,1.55328,0.598722,1.36093,0.792832,3.34259,0.955954,1.65529,0.751419,0.762499,0.832891,1.60513,2.44352,2.04137,1.55966,0.978551,1.26,1.11604,0.831808,1.06002,2.40374,1.80505,1.44008,0.38417,0.260379,1.39822,0.516739,0.954936,1.48249,0.993889,0.622823,0.749933,1.79877,1.61484,1.32889,1.21423,0.741984,1.11251,2.17757,0.562367,0.904334,1.34909
}}
}}

Revision as of 22:21, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr16:90284657..90284743,-p1@Scaf4
Mm9::chr6:99046175..99046180,-p@chr6:99046175..99046180
-
Mm9::chr6:99046190..99046234,-p@chr6:99046190..99046234
-


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 cell1.41e-079
alpha-beta T cell1.41e-079
immature T cell1.41e-079
mature T cell1.41e-079
immature alpha-beta T cell1.41e-079
CD4-positive, alpha-beta T cell6.55e-078
lymphocyte7.58e-0713
common lymphoid progenitor7.58e-0713

Uber Anatomy
Ontology termp-valuen
hemopoietic organ1.04e-1429
immune organ1.04e-1429
mixed endoderm/mesoderm-derived structure1.07e-1235
gland of gut3.34e-1224
thymus3.91e-1223
neck3.91e-1223
respiratory system epithelium3.91e-1223
hemolymphoid system gland3.91e-1223
pharyngeal epithelium3.91e-1223
thymic region3.91e-1223
pharyngeal gland3.91e-1223
entire pharyngeal arch endoderm3.91e-1223
thymus primordium3.91e-1223
early pharyngeal endoderm3.91e-1223
respiratory system4.54e-1242
respiratory tract6.45e-1241
hemolymphoid system7.51e-1248
immune system7.51e-1248
pharynx1.15e-1124
upper respiratory tract1.15e-1124
chordate pharynx1.15e-1124
pharyngeal arch system1.15e-1124
pharyngeal region of foregut1.15e-1124
foregut2.11e-1180
hematopoietic system4.29e-1145
blood island4.29e-1145
digestive system8.82e-11116
digestive tract8.82e-11116
primitive gut8.82e-11116
endoderm-derived structure1.25e-10118
endoderm1.25e-10118
presumptive endoderm1.25e-10118
subdivision of digestive tract1.57e-10114
lateral plate mesoderm4.22e-0987
endo-epithelium2.93e-0869
segment of respiratory tract5.55e-0827


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}}}