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MCL coexpression mm9:419: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.173299063763561,0.535256539748224,0.230336981122899,0.91256127549984,0.855233660713868,0.84145052039587,0,0,0,0.970435035652083,0.902523729605679,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.857341007065193,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.152695919012311,0,0,0,0,0,0,0,0,0,0,0.0893284091371433,0.570145052750797,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.139020819349871,0,0,0,0,0,0,0,0,0,0,0,0.117119073365835,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0736278867910527,0,0,0,0,0,0,0,0,0,0,0.0659019793256198,0,0.0293361777120366,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.382901221236659,0,0,0.166697269497493,0.169336129901,0.195284541486735,0,0,0,0,0,0,0,0,0,0,0,0,0,0.104936956647056,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.020859375746038,0,0.0398944891531444,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0004126;cytidine deaminase activity;0.0361836203434129;11628!GO:0004945;angiotensin type II receptor activity;0.0361836203434129;12458!GO:0001595;angiotensin receptor activity;0.0361836203434129;12458!GO:0016493;C-C chemokine receptor activity;0.0361836203434129;12458!GO:0019957;C-C chemokine binding;0.0361836203434129;12458!GO:0019239;deaminase activity;0.0361836203434129;11628!GO:0016814;hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines;0.0361836203434129;11628!GO:0001637;G-protein chemoattractant receptor activity;0.0361836203434129;12458!GO:0004950;chemokine receptor activity;0.0361836203434129;12458!GO:0019956;chemokine binding;0.0361836203434129;12458!GO:0005212;structural constituent of eye lens;0.0361836203434129;107993!
|gostat_on_MCL_coexpression=GO:0004126;cytidine deaminase activity;0.0361836203434129;11628!GO:0004945;angiotensin type II receptor activity;0.0361836203434129;12458!GO:0001595;angiotensin receptor activity;0.0361836203434129;12458!GO:0016493;C-C chemokine receptor activity;0.0361836203434129;12458!GO:0019957;C-C chemokine binding;0.0361836203434129;12458!GO:0019239;deaminase activity;0.0361836203434129;11628!GO:0016814;hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines;0.0361836203434129;11628!GO:0001637;G-protein chemoattractant receptor activity;0.0361836203434129;12458!GO:0004950;chemokine receptor activity;0.0361836203434129;12458!GO:0019956;chemokine binding;0.0361836203434129;12458!GO:0005212;structural constituent of eye lens;0.0361836203434129;107993!
}}
}}

Revision as of 12:41, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:75411037..75411078,+p1@Vpreb3
Mm9::chr10:75411080..75411098,+p2@Vpreb3
Mm9::chr11:44388716..44388720,+p@chr11:44388716..44388720
+
Mm9::chr12:115045984..115045990,-p1@LOC100047361
Mm9::chr12:115707771..115707799,-p1@ENSMUST00000109711
Mm9::chr17:8437904..8437915,+p4@Ccr6
Mm9::chr17:8437919..8437957,+p1@Ccr6
Mm9::chr1:87497443..87497454,+p3@Gm2427
p3@Sp140
Mm9::chr2:99640370..99640374,+p@chr2:99640370..99640374
+
Mm9::chr6:122503817..122503834,+p1@Aicda
Mm9::chr6:67505591..67505606,+p1@ENSMUST00000103302
p1@uc012enb.1
Mm9::chr6:68101848..68101850,+p1@ENSMUST00000103318
Mm9::chr6:68424573..68424579,+p@chr6:68424573..68424579
+
Mm9::chr6:68630341..68630348,+p1@ENSMUST00000103329
Mm9::chr6:68889550..68889579,+p1@ENSMUST00000103339
Mm9::chr6:70676952..70676959,-p@chr6:70676952..70676959
-
Mm9::chr9:103351500..103351511,-p6@Bfsp2
Mm9::chr9:70664786..70664801,-p@chr9:70664786..70664801
-


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:0004126cytidine deaminase activity0.0361836203434129
GO:0004945angiotensin type II receptor activity0.0361836203434129
GO:0001595angiotensin receptor activity0.0361836203434129
GO:0016493C-C chemokine receptor activity0.0361836203434129
GO:0019957C-C chemokine binding0.0361836203434129
GO:0019239deaminase activity0.0361836203434129
GO:0016814hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines0.0361836203434129
GO:0001637G-protein chemoattractant receptor activity0.0361836203434129
GO:0004950chemokine receptor activity0.0361836203434129
GO:0019956chemokine binding0.0361836203434129
GO:0005212structural constituent of eye lens0.0361836203434129



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>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}}}

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