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MCL coexpression mm9:1069: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000468!1.30e-08!333;UBERON:0002048!1.45e-07!14;UBERON:0000117!1.45e-07!14;UBERON:0000171!1.45e-07!14;UBERON:0000170!1.45e-07!14;UBERON:0005597!1.45e-07!14;UBERON:0000118!1.45e-07!14
|ontology_enrichment_uberon=UBERON:0000468!1.30e-08!333;UBERON:0002048!1.45e-07!14;UBERON:0000117!1.45e-07!14;UBERON:0000171!1.45e-07!14;UBERON:0000170!1.45e-07!14;UBERON:0005597!1.45e-07!14;UBERON:0000118!1.45e-07!14
|tfbs_overrepresentation_for_novel_motifs=1.11639,0.369498,1.05921,0.480627,1.47084,0.495263,0.587291,0.206208,0.215218,0.219671,0.542749,0.575086,0.59526,0.599731,0.315771,0,0.795315,0.291368,0.561256,1.75604,2.61348,0.586604,0.598814,0.29769,0.419327,0.62766,0.542568,0.516511,0.344372,2.03225,0.50223,0.897561,0.289148,0.964228,0.848378,1.10671,0.279977,0.57142,1.32199,0.230656,0.295233,2.18566,3.87129,0.317766,1.19315,1.18381,0.714592,1.31862,0.82704,0.347313,0.777641,0.654933,1.3744,1.04034,1.0579,0.606984,0.356236,0.56214,0.176152,0.604914,0.877332,0.664501,0.226529,1.80715,0.618279,0.807219,1.19497,1.54543,0.872612,1.39786,0.392734,0.21183,0.0869413,1.09164,0.17012,0.936963,2.92753,0.703064,0.859987,0.378988,0.212973,0.812889,1.59309,0.200155,0.975495,2.36627,0.042613,0.145788,0.719558,1.70793,1.26498,0.980512,0.910485,0.305079,0.254625,0.237542,2.47009,0.913319,0.71485,0.79664,0.280055,0.897279,1.02279,0.778243,0.777175,0.507021,0.837607,0.528416,0.383871,0.376549,0.430942,1.02459,0.990132,0.547992,1.27206,0.293461,0.0501572,1.21618,0.796633,0.757997,1.09707,0.745011,0.629509,1.67446,1.32639,0.863723,0.595563,0.903645,1.19345,0.308038,2.29762,3.0707,1.16374,0.620831,1.29374,0.275843,0.446555,1.26843,1.24438,2.07659,1.67603,1.19971,0.641722,0.908128,0.770616,0.507927,0.717753,2.03691,0.448938,0.300961,0.147909,0.256263,1.04192,1.26486,0.619892,1.12411,0.655955,0.327731,0.435579,0.446272,1.25393,0.974632,0.864173,0.428662,0.767269,0.612377,0.278874,0.573477,0.227149
}}
}}

Revision as of 19:20, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:33047808..33047828,-p1@Fgf18
Mm9::chr2:110203061..110203070,-p7@Fibin
Mm9::chr2:110203142..110203158,-p2@Fibin
Mm9::chr2:110203249..110203259,-p5@Fibin
Mm9::chr2:110203272..110203287,-p4@Fibin
Mm9::chr2:110203292..110203308,-p3@Fibin
Mm9::chr2:110203314..110203338,-p1@Fibin


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:0001957intramembranous ossification0.00753218282791926
GO:0002063chondrocyte development0.00753218282791926
GO:0030949positive regulation of vascular endothelial growth factor receptor signaling pathway0.00753218282791926
GO:0030947regulation of vascular endothelial growth factor receptor signaling pathway0.00753218282791926
GO:0001958endochondral ossification0.00964040159283091
GO:0048010vascular endothelial growth factor receptor signaling pathway0.0129087757991752
GO:0002062chondrocyte differentiation0.0129087757991752
GO:0005104fibroblast growth factor receptor binding0.014305658165835
GO:0051216cartilage development0.0320994530025149
GO:0030324lung development0.0325858050159078
GO:0009967positive regulation of signal transduction0.0325858050159078
GO:0030323respiratory tube development0.0325858050159078
GO:0001503ossification0.0403599296141723
GO:0031214biomineral formation0.0403599296141723
GO:0046849bone remodeling0.0412656971515578
GO:0048771tissue remodeling0.0454248818374421
GO:0001525angiogenesis0.0474795406709817
GO:0008083growth factor activity0.0474795406709817
GO:0007169transmembrane receptor protein tyrosine kinase signaling pathway0.0474795406709817
GO:0048514blood vessel morphogenesis0.0474795406709817
GO:0008284positive regulation of cell proliferation0.0474795406709817
GO:0001501skeletal development0.0474795406709817
GO:0048646anatomical structure formation0.0474795406709817
GO:0035295tube development0.0474795406709817
GO:0001568blood vessel development0.0474795406709817
GO:0001944vasculature development0.0474795406709817
GO:0005125cytokine activity0.047486145639546



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
multi-cellular organism1.30e-08333
lung1.45e-0714
respiratory tube1.45e-0714
respiration organ1.45e-0714
pair of lungs1.45e-0714
lung primordium1.45e-0714
lung bud1.45e-0714


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}}}