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MCL coexpression mm9:1135: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004535!1.83e-08!23;UBERON:0001009!1.83e-08!23;UBERON:0004872!1.93e-07!33;UBERON:0007100!2.84e-07!18;UBERON:0000948!2.84e-07!18;UBERON:0005498!2.84e-07!18;UBERON:0004140!2.84e-07!18;UBERON:0009881!2.84e-07!18;UBERON:0004141!2.84e-07!18;UBERON:0003084!2.84e-07!18;UBERON:0007005!2.84e-07!18;UBERON:0004139!2.84e-07!18;UBERON:0004291!2.84e-07!18;UBERON:0000468!3.91e-07!333
|ontology_enrichment_uberon=UBERON:0004535!1.83e-08!23;UBERON:0001009!1.83e-08!23;UBERON:0004872!1.93e-07!33;UBERON:0007100!2.84e-07!18;UBERON:0000948!2.84e-07!18;UBERON:0005498!2.84e-07!18;UBERON:0004140!2.84e-07!18;UBERON:0009881!2.84e-07!18;UBERON:0004141!2.84e-07!18;UBERON:0003084!2.84e-07!18;UBERON:0007005!2.84e-07!18;UBERON:0004139!2.84e-07!18;UBERON:0004291!2.84e-07!18;UBERON:0000468!3.91e-07!333
|tfbs_overrepresentation_for_novel_motifs=0.438063,2.48969,1.05921,0.480627,0.810002,0.495263,0.587291,1.12275,0.616096,0.219671,0.542749,0.575086,0.206435,0.599731,0.315771,0,0.795315,0.291368,0.19222,0.361892,0.978328,0.08187,0.598814,0.29769,0.419327,0.62766,1.0368,0.516511,0.344372,0.446946,0.50223,0.897561,0.289148,0.964228,0.316253,3.60442,0.279977,0.57142,0.258564,2.65781,0.295233,0.507468,0.54842,0.851774,0.515031,0.469348,0.714592,0.532496,0.0609361,0.917701,0.777641,0.654933,0.431711,1.04034,1.0579,1.47583,0.937475,0.56214,0.176152,0.604914,0.877332,0.664501,0.642748,0.766235,0.618279,0.807219,1.19497,1.54543,0.872612,1.39786,0.392734,0.21183,0.0869413,1.09164,0.507615,0.159969,0.498755,0.703064,0.859987,0.378988,0.610783,0.812889,0.663039,0.200155,0.975495,0.613286,0.042613,2.72752,0.719558,1.70793,1.26498,0.980512,0.910485,0.305079,0.708155,0.668513,0.203879,0.913319,0.71485,0.79664,0.280055,0.897279,1.02279,0.778243,0.777175,0.507021,0.837607,0.528416,0.383871,0.376549,1.10097,1.02459,0.380122,0.547992,1.27206,0.796976,3.30647,0.484437,0.796633,0.757997,1.09707,0.745011,0.629509,0.702145,1.32639,0.863723,0.595563,0.903645,1.19345,1.5026,1.00568,0.473246,1.16374,2.55494,1.29374,1.46009,0.446555,1.26843,1.24438,2.07659,1.67603,1.19971,0.641722,0.908128,0.770616,0.507927,0.717753,2.03691,0.448938,0.813943,0.147909,0.0736236,1.04192,0.243291,0.619892,1.12411,0.655955,0.327731,0.435579,0.446272,1.25393,0.974632,0.864173,0.428662,0.767269,0.612377,0.278874,0.573477,0.0907999
}}
}}

Revision as of 19:26, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr14:55050434..55050510,+p1@Mmp14
Mm9::chr14:55050533..55050544,+p2@Mmp14
Mm9::chr16:37777131..37777151,+p1@Fstl1
Mm9::chr16:37777154..37777165,+p3@Fstl1
Mm9::chr16:37777178..37777192,+p2@Fstl1
Mm9::chr16:37834557..37834607,+p@chr16:37834557..37834607
+
Mm9::chr16:37834640..37834657,+p@chr16:37834640..37834657
+


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:0031638zymogen activation0.0130524352190759
GO:0030574collagen catabolic process0.0130524352190759
GO:0044256protein digestion0.0130524352190759
GO:0044254multicellular organismal protein catabolic process0.0130524352190759
GO:0044266multicellular organismal macromolecule catabolic process0.0130524352190759
GO:0044259multicellular organismal macromolecule metabolic process0.0130524352190759
GO:0044243multicellular organismal catabolic process0.0130524352190759
GO:0044268multicellular organismal protein metabolic process0.0130524352190759
GO:0005509calcium ion binding0.0130524352190759
GO:0032963collagen metabolic process0.0130524352190759
GO:0044236multicellular organismal metabolic process0.0130524352190759
GO:0007586digestion0.0251744122614664
GO:0048754branching morphogenesis of a tube0.0276721088505452
GO:0008201heparin binding0.0276721088505452
GO:0001763morphogenesis of a branching structure0.0276721088505452
GO:0030324lung development0.0276721088505452
GO:0030323respiratory tube development0.0276721088505452
GO:0016485protein processing0.0276721088505452
GO:0005539glycosaminoglycan binding0.0293868873408014
GO:0030247polysaccharide binding0.0305312052801401
GO:0001871pattern binding0.0305312052801401
GO:0004222metalloendopeptidase activity0.0349291874710246
GO:0005615extracellular space0.0349291874710246
GO:0044421extracellular region part0.037605042039508
GO:0035239tube morphogenesis0.044577337318088



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>



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}}}