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MCL coexpression mm9:1310: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000945!1.45e-07!16;UBERON:0010039!1.45e-07!16;UBERON:0002048!3.09e-07!14;UBERON:0000117!3.09e-07!14;UBERON:0000171!3.09e-07!14;UBERON:0000170!3.09e-07!14;UBERON:0005597!3.09e-07!14;UBERON:0000118!3.09e-07!14;UBERON:0005178!4.52e-07!17;UBERON:0005181!4.52e-07!17;UBERON:0002224!4.52e-07!17;UBERON:0000915!4.52e-07!17;UBERON:0008947!4.52e-07!17;UBERON:0003258!4.52e-07!17
|ontology_enrichment_uberon=UBERON:0000945!1.45e-07!16;UBERON:0010039!1.45e-07!16;UBERON:0002048!3.09e-07!14;UBERON:0000117!3.09e-07!14;UBERON:0000171!3.09e-07!14;UBERON:0000170!3.09e-07!14;UBERON:0005597!3.09e-07!14;UBERON:0000118!3.09e-07!14;UBERON:0005178!4.52e-07!17;UBERON:0005181!4.52e-07!17;UBERON:0002224!4.52e-07!17;UBERON:0000915!4.52e-07!17;UBERON:0008947!4.52e-07!17;UBERON:0003258!4.52e-07!17
|tfbs_overrepresentation_for_novel_motifs=0.491922,1.24447,0.464605,0.535892,0.916672,0.550971,0.645383,0.691572,1.31693,0.594834,0.599767,0.632897,0.247704,0.6581,0.364314,0,0.856992,0.338549,0.232269,0.86893,0.426133,0.35122,0.657163,0.345236,0.472505,0.686615,0.63639,0.572827,0.394364,0.181062,0.558142,0.960397,0.336199,0.204204,0.364821,0.607065,0.326478,0.629145,0.303703,0.27383,0.342638,0.56353,0.327433,0.959963,2.48719,0.524258,0.77511,0.589246,0.594982,0.397446,0.839084,0.714419,0.174327,1.10437,1.12205,0.66551,0.406788,0.619643,1.15584,0.663395,0.939962,0.724164,0.742129,0.827522,0.677043,0.869046,1.2599,1.61148,0.935192,1.46355,0.444872,0.253541,0.366795,1.156,0.599223,0.19692,0.204132,0.763395,0.922432,0.430551,0.254777,0.874787,1.71704,0.240896,1.03903,0.198949,0.220054,0.534643,0.780154,1.77427,1.33021,1.04409,0.973447,0.35304,0.2995,0.281222,0.244935,0.976308,0.775372,0.483322,0.326561,0.960112,1.08669,0.839694,0.838613,0.563071,0.8998,0.585058,0.435642,0.428007,0.484547,1.0885,1.10269,0.605144,1.33732,0.340765,0.902522,1.33416,0.858327,0.322606,1.16147,0.805995,0.688501,0.762461,1.39185,0.926209,0.65384,0.966541,1.25836,1.67297,2.42725,0.52828,1.2285,0.679647,1.35909,0.106956,0.500709,0.564999,1.30952,2.14327,1.74232,1.26465,0.700956,0.971067,0.831964,0.564002,0.778321,2.10357,0.503174,0.348692,0.183562,0.0987301,1.10596,0.287383,1.62569,1.18867,0.71546,0.376898,0.48935,0.500417,1.31911,1.03816,0.926663,0.482185,0.82857,0.671017,0.86867,0.63125,0.0323861
}}
}}

Revision as of 19:43, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:94426729..94426757,+p@chr11:94426729..94426757
+
Mm9::chr18:10920920..10920940,+p@chr18:10920920..10920940
+
Mm9::chr19:10751736..10751740,-p@chr19:10751736..10751740
-
Mm9::chr1:133640588..133640606,+p1@Slc26a9
Mm9::chr1:133640755..133640772,+p@chr1:133640755..133640772
+
Mm9::chr4:134954228..134954250,+p@chr4:134954228..134954250
+


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:0015701bicarbonate transport0.0156643648946284
GO:0015301anion:anion antiporter activity0.0156643648946284
GO:0015106bicarbonate transmembrane transporter activity0.0156643648946284
GO:0006885regulation of pH0.0192207603386587
GO:0015103inorganic anion transmembrane transporter activity0.0239126128897673
GO:0015297antiporter activity0.027036612488319
GO:0016324apical plasma membrane0.029873557841563
GO:0006821chloride transport0.0314652936105574
GO:0045177apical part of cell0.0364840831430798
GO:0008509anion transmembrane transporter activity0.0477150928473999



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
stomach1.45e-0716
food storage organ1.45e-0716
lung3.09e-0714
respiratory tube3.09e-0714
respiration organ3.09e-0714
pair of lungs3.09e-0714
lung primordium3.09e-0714
lung bud3.09e-0714
thoracic cavity element4.52e-0717
thoracic segment organ4.52e-0717
thoracic cavity4.52e-0717
thoracic segment of trunk4.52e-0717
respiratory primordium4.52e-0717
endoderm of foregut4.52e-0717


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}}}