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MCL coexpression mm9:273: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0,0,0,0.114765798731257,0.176350522035494,0.780776438941348,0.849660675398721,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.255263364065407,0.331841431191486,0.197068726315728,0.269868638010351,0.399379240739151,0.563519988889442,0.400050888371664,0.275753957844422,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0469568706916304,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.357417438191274,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.423588899072447,0.184379402587773,0,0,0,0,0,0.0756292965920817,0.289824790457,0.123654991486488,0.0973736644748266,0.145480126286698,0.0773548534010084,0.278483662180697,0.270574546258304,0.341404378058948,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.335643082588139,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.249855990247831,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|coexpression_dpi_cluster_scores_median=0,0,0,0.114765798731257,0.176350522035494,0.780776438941348,0.849660675398721,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.255263364065407,0.331841431191486,0.197068726315728,0.269868638010351,0.399379240739151,0.563519988889442,0.400050888371664,0.275753957844422,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0469568706916304,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.357417438191274,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.423588899072447,0.184379402587773,0,0,0,0,0,0.0756292965920817,0.289824790457,0.123654991486488,0.0973736644748266,0.145480126286698,0.0773548534010084,0.278483662180697,0.270574546258304,0.341404378058948,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.335643082588139,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.249855990247831,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0030336;negative regulation of cell migration;0.0337967027183803;17831!GO:0007339;binding of sperm to zona pellucida;0.0337967027183803;215384!GO:0051271;negative regulation of cell motility;0.0337967027183803;17831!GO:0035036;sperm-egg recognition;0.0337967027183803;215384!GO:0009988;cell-cell recognition;0.0337967027183803;215384!GO:0040013;negative regulation of locomotion;0.0337967027183803;17831!
|gostat_on_MCL_coexpression=GO:0030336;negative regulation of cell migration;0.0337967027183803;17831!GO:0007339;binding of sperm to zona pellucida;0.0337967027183803;215384!GO:0051271;negative regulation of cell motility;0.0337967027183803;17831!GO:0035036;sperm-egg recognition;0.0337967027183803;215384!GO:0009988;cell-cell recognition;0.0337967027183803;215384!GO:0040013;negative regulation of locomotion;0.0337967027183803;17831!
|ontology_enrichment_celltype=CL:0000627!8.72e-11!3;CL:0000682!8.72e-11!3;CL:0000239!2.21e-09!6;CL:0000677!2.21e-09!6;CL:0000212!2.21e-09!6;CL:0000584!2.21e-09!6;CL:0000075!4.76e-08!7
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000160!7.50e-40!31;UBERON:0005409!9.17e-28!47;UBERON:0000344!1.17e-21!15;UBERON:0001242!2.93e-16!13;UBERON:0000060!2.93e-16!13;UBERON:0001262!2.93e-16!13;UBERON:0004786!2.93e-16!13;UBERON:0002108!1.43e-14!4;UBERON:0004923!7.40e-13!24;UBERON:0000331!2.16e-11!3;UBERON:0002116!2.16e-11!3;UBERON:0001204!2.16e-11!3;UBERON:0001168!2.16e-11!3;UBERON:0001007!3.37e-11!116;UBERON:0001555!3.37e-11!116;UBERON:0007026!3.37e-11!116;UBERON:0004119!6.20e-11!118;UBERON:0000925!6.20e-11!118;UBERON:0006595!6.20e-11!118;UBERON:0004921!4.71e-09!114;UBERON:0001962!9.86e-08!2;UBERON:0001961!9.86e-08!2;UBERON:0001744!9.86e-08!2
}}
}}

Revision as of 18:56, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr17:31266547..31266564,-p1@Tff3
Mm9::chr1:14921327..14921333,-p@chr1:14921327..14921333
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Mm9::chr1:72247892..72247896,-p@chr1:72247892..72247896
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Mm9::chr6:48417827..48417837,+p@chr6:48417827..48417837
+
Mm9::chr7:134194040..134194053,-p@chr7:134194040..134194053
-
Mm9::chr7:148877097..148877108,+p@chr7:148877097..148877108
+
Mm9::chr7:148877193..148877223,+p@chr7:148877193..148877223
+
Mm9::chr7:148880509..148880519,+p@chr7:148880509..148880519
+
Mm9::chr7:148882547..148882558,+p@chr7:148882547..148882558
+
Mm9::chr7:148930603..148930616,+p@chr7:148930603..148930616
+
Mm9::chr7:28860196..28860207,+p@chr7:28860196..28860207
+
Mm9::chr7:28860223..28860234,+p@chr7:28860223..28860234
+
Mm9::chr7:28860243..28860261,+p@chr7:28860243..28860261
+
Mm9::chr7:28860314..28860321,+p@chr7:28860314..28860321
+
Mm9::chr7:28860330..28860347,+p@chr7:28860330..28860347
+
Mm9::chr7:28860352..28860369,+p@chr7:28860352..28860369
+
Mm9::chr7:28869936..28869969,+p@chr7:28869936..28869969
+
Mm9::chr7:28870210..28870231,+p@chr7:28870210..28870231
+
Mm9::chr7:28870432..28870443,+p@chr7:28870432..28870443
+
Mm9::chr7:28871352..28871361,+p@chr7:28871352..28871361
+
Mm9::chr7:28871489..28871499,+p@chr7:28871489..28871499
+
Mm9::chr7:28871544..28871562,+p@chr7:28871544..28871562
+
Mm9::chr7:28874831..28874846,+p@chr7:28874831..28874846
+
Mm9::chr7:28888954..28888965,+p@chr7:28888954..28888965
+
Mm9::chr7:28889792..28889799,+p@chr7:28889792..28889799
+
Mm9::chr7:28902402..28902411,+p@chr7:28902402..28902411
+
Mm9::chr7:28902451..28902458,+p@chr7:28902451..28902458
+
Mm9::chr7:28905526..28905568,+p@chr7:28905526..28905568
+
Mm9::chr7:38969538..38969543,-p@chr7:38969538..38969543
-
Mm9::chr8:107232169..107232172,-p@chr8:107232169..107232172
-
Mm9::chr8:95678347..95678351,-p@chr8:95678347..95678351
-


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:0030336negative regulation of cell migration0.0337967027183803
GO:0007339binding of sperm to zona pellucida0.0337967027183803
GO:0051271negative regulation of cell motility0.0337967027183803
GO:0035036sperm-egg recognition0.0337967027183803
GO:0009988cell-cell recognition0.0337967027183803
GO:0040013negative regulation of locomotion0.0337967027183803



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
transporting cell8.72e-113
M cell of gut8.72e-113
brush border epithelial cell2.21e-096
gut absorptive cell2.21e-096
absorptive cell2.21e-096
enterocyte2.21e-096
columnar/cuboidal epithelial cell4.76e-087


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}}}

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