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MCL coexpression mm9:1229: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002100!7.64e-13!90;UBERON:0005177!5.80e-11!79;UBERON:0000466!4.28e-10!79;UBERON:0000160!2.97e-09!31;UBERON:0005256!1.06e-08!45;UBERON:0003104!3.35e-08!61;UBERON:0009142!3.35e-08!61;UBERON:0004119!5.30e-08!118;UBERON:0000925!5.30e-08!118;UBERON:0006595!5.30e-08!118;UBERON:0005409!1.16e-07!47;UBERON:0001007!1.49e-07!116;UBERON:0001555!1.49e-07!116;UBERON:0007026!1.49e-07!116;UBERON:0001264!2.03e-07!12;UBERON:0002365!2.10e-07!25;UBERON:0002330!2.10e-07!25;UBERON:0000344!4.50e-07!15;UBERON:0004921!5.42e-07!114
|ontology_enrichment_uberon=UBERON:0002100!7.64e-13!90;UBERON:0005177!5.80e-11!79;UBERON:0000466!4.28e-10!79;UBERON:0000160!2.97e-09!31;UBERON:0005256!1.06e-08!45;UBERON:0003104!3.35e-08!61;UBERON:0009142!3.35e-08!61;UBERON:0004119!5.30e-08!118;UBERON:0000925!5.30e-08!118;UBERON:0006595!5.30e-08!118;UBERON:0005409!1.16e-07!47;UBERON:0001007!1.49e-07!116;UBERON:0001555!1.49e-07!116;UBERON:0007026!1.49e-07!116;UBERON:0001264!2.03e-07!12;UBERON:0002365!2.10e-07!25;UBERON:0002330!2.10e-07!25;UBERON:0000344!4.50e-07!15;UBERON:0004921!5.42e-07!114
|tfbs_overrepresentation_for_novel_motifs=0.491922,0.217198,0.464605,0.535892,0.346849,0.550971,0.645383,0.247459,0.257202,1.00112,0.599767,0.632897,0.247704,0.6581,0.364314,0,0.856992,0.338549,0.656199,0.143775,0.426133,0.35122,0.657163,0.345236,0.472505,0.686615,0.223823,0.572827,0.394364,0.534301,0.558142,0.960397,0.892985,1.11492,2.56614,0.144368,4.26527,0.629145,0.303703,0.752287,0.342638,1.38433,0.327433,0.366415,2.48719,1.30113,0.77511,0.589246,0.594982,1.81584,0.839084,0.714419,0.517905,1.10437,1.12205,1.59824,0.406788,0.619643,0.614918,0.663395,0.939962,0.724164,0.742129,0.827522,1.62226,0.869046,1.2599,1.61148,0.935192,1.46355,1.1311,0.253541,1.21401,1.156,0.599223,0.19692,0.204132,1.80128,0.922432,0.430551,0.254777,0.874787,0.722675,0.240896,1.03903,0.768392,0.827903,0.181203,0.780154,1.77427,1.33021,1.04409,0.973447,0.35304,0.2995,0.281222,0.244935,0.976308,0.775372,1.49884,0.326561,0.960112,1.08669,0.839694,0.838613,0.563071,0.8998,0.585058,0.435642,1.92,0.484547,1.0885,0.431734,1.47196,1.33732,0.340765,0.902522,0.53982,0.858327,0.322606,1.16147,0.805995,0.688501,0.762461,1.39185,0.926209,0.65384,0.966541,1.25836,0.356163,1.06946,0.52828,1.2285,0.679647,1.35909,0.106956,0.500709,0.564999,1.30952,2.14327,1.74232,1.26465,0.700956,0.971067,0.831964,0.564002,0.778321,2.10357,0.503174,0.348692,0.540361,1.10885,1.10596,0.287383,0.678689,1.18867,0.71546,0.376898,0.48935,0.500417,1.31911,1.03816,0.926663,0.482185,0.82857,0.671017,0.325308,0.63125,0.5667
}}
}}

Revision as of 19:35, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:127759713..127759785,+p1@Cnpy2
Mm9::chr10:127759790..127759803,+p8@Cnpy2
Mm9::chr10:42481415..42481469,+p2@Sec63
Mm9::chr10:88194149..88194168,+p2@Arl1
Mm9::chr17:87665206..87665261,-p1@Mcfd2
Mm9::chr4:48292374..48292387,-p2@Erp44


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


GO IDGO nameFDR corrected p-value
GO:0005783endoplasmic reticulum0.000741829657981098



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
epithelial cell4.11e-0925
endodermal cell3.23e-0720

Uber Anatomy
Ontology termp-valuen
trunk7.64e-1390
trunk region element5.80e-1179
immaterial anatomical entity4.28e-1079
intestine2.97e-0931
trunk mesenchyme1.06e-0845
mesenchyme3.35e-0861
entire embryonic mesenchyme3.35e-0861
endoderm-derived structure5.30e-08118
endoderm5.30e-08118
presumptive endoderm5.30e-08118
gastrointestinal system1.16e-0747
digestive system1.49e-07116
digestive tract1.49e-07116
primitive gut1.49e-07116
pancreas2.03e-0712
exocrine gland2.10e-0725
exocrine system2.10e-0725
mucosa4.50e-0715
subdivision of digestive tract5.42e-07114


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}}}