Personal tools

MCL coexpression mm9:1803

From FANTOM5_SSTAR

Revision as of 16:16, 10 October 2012 by Autoedit (talk | contribs) (Created page with "{{MCL_coexpression_mm9|gostat_on_MCL_coexpression=GO:0030478;actin cap;0.00525180931773736;109624!GO:0003779;actin binding;0.00525180931773736;109624,21894!GO:0008092;cytoskel...")
(diff) ← Older revision | Latest revision (diff) | Newer revision → (diff)
Jump to: navigation, search


Phase1 CAGE Peaks

 Short description
Mm9::chr4:43571258..43571293,-p11@Tln1
Mm9::chr6:34548518..34548529,+p9@Cald1
Mm9::chr6:34548530..34548587,+p1@Cald1
Mm9::chr6:34548595..34548606,+p8@Cald1
Mm9::chr6:34548615..34548626,+p11@Cald1


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:0030478actin cap0.00525180931773736
GO:0003779actin binding0.00525180931773736
GO:0008092cytoskeletal protein binding0.00657354137709317
GO:0007016cytoskeletal anchoring0.00657354137709317
GO:0007044cell-substrate junction assembly0.00657354137709317
GO:0030866cortical actin cytoskeleton organization and biogenesis0.0087640014480281
GO:0030865cortical cytoskeleton organization and biogenesis0.00903713359305485
GO:0030864cortical actin cytoskeleton0.00903713359305485
GO:0006940regulation of smooth muscle contraction0.0101557694197892
GO:0030863cortical cytoskeleton0.0101557694197892
GO:0007028cytoplasm organization and biogenesis0.0101557694197892
GO:0005856cytoskeleton0.0110612890703835
GO:0006939smooth muscle contraction0.0120992024380542
GO:0005925focal adhesion0.0120992024380542
GO:0044448cell cortex part0.0120992024380542
GO:0005924cell-substrate adherens junction0.0120992024380542
GO:0006937regulation of muscle contraction0.0120992024380542
GO:0001726ruffle0.0120992024380542
GO:0030055cell-matrix junction0.0120992024380542
GO:0005938cell cortex0.0154300466598971
GO:0043232intracellular non-membrane-bound organelle0.0174074266334173
GO:0043228non-membrane-bound organelle0.0174074266334173
GO:0005912adherens junction0.0174074266334173
GO:0016323basolateral plasma membrane0.0191386856223827
GO:0031252leading edge0.0199446936446966
GO:0003012muscle system process0.020164369857969
GO:0006936muscle contraction0.020164369857969
GO:0005200structural constituent of cytoskeleton0.0206127218757387
GO:0030036actin cytoskeleton organization and biogenesis0.0347652712330674
GO:0030029actin filament-based process0.035995992192866
GO:0015629actin cytoskeleton0.0400852403630016



Relative expression of the co-expression cluster over median <br>Analyst:



"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.

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>disease_data<br>


Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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}}}