Personal tools

MCL coexpression mm9:3453: 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:0000073!2.84e-12!54;UBERON:0002020!5.35e-12!34;UBERON:0010314!2.27e-11!92;UBERON:0001049!4.13e-11!52;UBERON:0005068!4.13e-11!52;UBERON:0006241!4.13e-11!52;UBERON:0007135!4.13e-11!52;UBERON:0001016!7.53e-11!75;UBERON:0003528!1.53e-10!29;UBERON:0002791!1.53e-10!29;UBERON:0001893!1.53e-10!29;UBERON:0004121!1.72e-10!95;UBERON:0000924!1.72e-10!95;UBERON:0006601!1.72e-10!95;UBERON:0001017!3.21e-10!73;UBERON:0000955!1.32e-09!47;UBERON:0006238!1.32e-09!47;UBERON:0002346!1.33e-09!64;UBERON:0003075!1.33e-09!64;UBERON:0007284!1.33e-09!64;UBERON:0002616!3.44e-09!46;UBERON:0003080!9.21e-09!40;UBERON:0003056!1.77e-08!49;UBERON:0002780!2.91e-08!39;UBERON:0001890!2.91e-08!39;UBERON:0006240!2.91e-08!39;UBERON:0010371!3.72e-08!73;UBERON:0002619!7.51e-08!17;UBERON:0002021!1.56e-07!10;UBERON:0000411!1.56e-07!10;UBERON:0001950!1.56e-07!10;UBERON:0000956!2.41e-07!21;UBERON:0001869!2.41e-07!21;UBERON:0000203!2.41e-07!21
|ontology_enrichment_uberon=UBERON:0000073!2.84e-12!54;UBERON:0002020!5.35e-12!34;UBERON:0010314!2.27e-11!92;UBERON:0001049!4.13e-11!52;UBERON:0005068!4.13e-11!52;UBERON:0006241!4.13e-11!52;UBERON:0007135!4.13e-11!52;UBERON:0001016!7.53e-11!75;UBERON:0003528!1.53e-10!29;UBERON:0002791!1.53e-10!29;UBERON:0001893!1.53e-10!29;UBERON:0004121!1.72e-10!95;UBERON:0000924!1.72e-10!95;UBERON:0006601!1.72e-10!95;UBERON:0001017!3.21e-10!73;UBERON:0000955!1.32e-09!47;UBERON:0006238!1.32e-09!47;UBERON:0002346!1.33e-09!64;UBERON:0003075!1.33e-09!64;UBERON:0007284!1.33e-09!64;UBERON:0002616!3.44e-09!46;UBERON:0003080!9.21e-09!40;UBERON:0003056!1.77e-08!49;UBERON:0002780!2.91e-08!39;UBERON:0001890!2.91e-08!39;UBERON:0006240!2.91e-08!39;UBERON:0010371!3.72e-08!73;UBERON:0002619!7.51e-08!17;UBERON:0002021!1.56e-07!10;UBERON:0000411!1.56e-07!10;UBERON:0001950!1.56e-07!10;UBERON:0000956!2.41e-07!21;UBERON:0001869!2.41e-07!21;UBERON:0000203!2.41e-07!21
|tfbs_overrepresentation_for_novel_motifs=0.752782,0.193418,0.722405,0.801166,0.587814,0.81763,0.919454,0.467321,0.479531,0.235304,0.870507,0.906098,0.467629,0.933025,1.47843,0,1.14208,0.578045,1.138,0.876292,0.679146,0.275782,0.932027,0.585919,0.731217,0.963352,0.437236,0.841386,1.55113,0.380786,0.825437,1.24901,0.575271,0.411696,0.608816,0.144706,0.563758,0.902078,0.536514,0.50014,1.42511,0.831295,0.261619,0.610669,0.474221,0.788421,1.05665,0.859154,0.235354,0.646474,1.12346,0.99279,0.371606,1.3966,1.41464,0.940919,0.657156,0.891887,0.425455,0.938668,1.22795,1.00308,0.494668,1.11142,0.953187,1.15459,1.55483,1.90983,1.22303,1.7608,0.700291,0.474956,0.777706,1.44925,0.416814,1.03818,0.411601,1.04436,1.20986,0.684144,0.476502,1.16055,1.00151,0.459035,1.32978,0.535545,0.195254,0.380977,1.06194,2.07346,1.62608,1.33496,1.26245,0.595071,0.531443,0.509215,0.464141,1.26539,1.05692,0.352122,0.563856,1.24872,1.37854,1.12409,1.12297,0.830796,1.18646,0.854628,0.689894,0.681267,0.744607,1.38039,0.685481,0.876299,1.63327,0.580657,1.1471,0.805461,1.14346,0.559153,1.45481,1.08896,0.965352,1.04338,1.68841,1.21376,0.928483,1.25534,1.55328,0.598722,1.36093,0.792832,1.52297,0.955954,1.65529,0.273451,0.762499,0.832891,1.60513,2.44352,2.04137,1.55966,0.978551,1.26,1.11604,1.94219,1.06002,2.40374,0.765221,1.44008,0.38417,0.721422,1.39822,0.516739,0.954936,1.48249,0.993889,1.50904,0.749933,0.762177,1.61484,1.32889,1.21423,0.741984,1.11251,0.94678,0.562367,0.904334,1.95046
}}
}}

Revision as of 22:56, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr4:11886091..11886093,-p@chr4:11886091..11886093
-
Mm9::chr4:11893471..11893482,-p3@Pdp1
Mm9::chr4:11893515..11893608,-p1@Pdp1


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><br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
regional part of nervous system2.84e-1254
gray matter5.35e-1234
structure with developmental contribution from neural crest2.27e-1192
neural tube4.13e-1152
neural rod4.13e-1152
future spinal cord4.13e-1152
neural keel4.13e-1152
nervous system7.53e-1175
brain grey matter1.53e-1029
regional part of telencephalon1.53e-1029
telencephalon1.53e-1029
ectoderm-derived structure1.72e-1095
ectoderm1.72e-1095
presumptive ectoderm1.72e-1095
central nervous system3.21e-1073
brain1.32e-0947
future brain1.32e-0947
neurectoderm1.33e-0964
neural plate1.33e-0964
presumptive neural plate1.33e-0964
regional part of brain3.44e-0946
anterior neural tube9.21e-0940
pre-chordal neural plate1.77e-0849
regional part of forebrain2.91e-0839
forebrain2.91e-0839
future forebrain2.91e-0839
ecto-epithelium3.72e-0873
regional part of cerebral cortex7.51e-0817
occipital lobe1.56e-0710
visual cortex1.56e-0710
neocortex1.56e-0710
cerebral cortex2.41e-0721
cerebral hemisphere2.41e-0721
pallium2.41e-0721


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}}}