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{{MCL_coexpression_mm9|gostat_on_MCL_coexpression=GO:0045872;positive regulation of rhodopsin gene expression;0.0212008325669304;23958!GO:0007468;regulation of rhodopsin gene expression;0.0212008325669304;23958!GO:0060041;retina development in camera-type eye;0.0317881805600894;23958!GO:0007205;protein kinase C activation;0.0317881805600894;110197!GO:0004143;diacylglycerol kinase activity;0.0317881805600894;110197!GO:0016439;tRNA-pseudouridine synthase activity;0.0317881805600894;23958!GO:0042461;photoreceptor cell development;0.0317881805600894;23958!GO:0009982;pseudouridine synthase activity;0.0317881805600894;23958!GO:0046530;photoreceptor cell differentiation;0.0329628101206219;23958!GO:0016866;intramolecular transferase activity;0.0353085843642717;23958!GO:0007200;G-protein signaling, coupled to IP3 second messenger (phospholipase C activating);0.0353085843642717;110197!GO:0032147;activation of protein kinase activity;0.0353085843642717;110197!GO:0048015;phosphoinositide-mediated signaling;0.0398582512683634;110197!GO:0019992;diacylglycerol binding;0.0398582512683634;110197!GO:0005496;steroid binding;0.0398582512683634;23958!GO:0003707;steroid hormone receptor activity;0.0398582512683634;23958!GO:0004879;ligand-dependent nuclear receptor activity;0.0398582512683634;23958!}}
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0045872;positive regulation of rhodopsin gene expression;0.0212008325669304;23958!GO:0007468;regulation of rhodopsin gene expression;0.0212008325669304;23958!GO:0060041;retina development in camera-type eye;0.0317881805600894;23958!GO:0007205;protein kinase C activation;0.0317881805600894;110197!GO:0004143;diacylglycerol kinase activity;0.0317881805600894;110197!GO:0016439;tRNA-pseudouridine synthase activity;0.0317881805600894;23958!GO:0042461;photoreceptor cell development;0.0317881805600894;23958!GO:0009982;pseudouridine synthase activity;0.0317881805600894;23958!GO:0046530;photoreceptor cell differentiation;0.0329628101206219;23958!GO:0016866;intramolecular transferase activity;0.0353085843642717;23958!GO:0007200;G-protein signaling, coupled to IP3 second messenger (phospholipase C activating);0.0353085843642717;110197!GO:0032147;activation of protein kinase activity;0.0353085843642717;110197!GO:0048015;phosphoinositide-mediated signaling;0.0398582512683634;110197!GO:0019992;diacylglycerol binding;0.0398582512683634;110197!GO:0005496;steroid binding;0.0398582512683634;23958!GO:0003707;steroid hormone receptor activity;0.0398582512683634;23958!GO:0004879;ligand-dependent nuclear receptor activity;0.0398582512683634;23958!
}}

Revision as of 11:21, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:116611222..116611252,-p1@ENSMUST00000106377
Mm9::chr16:22622369..22622383,-p@chr16:22622369..22622383
-
Mm9::chr4:106675318..106675331,+p@chr4:106675318..106675331
+
Mm9::chr7:113496188..113496202,-p@chr7:113496188..113496202
-
Mm9::chr9:59797503..59797513,-p3@Nr2e3
Mm9::chr9:59797525..59797538,-p2@Nr2e3


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:0045872positive regulation of rhodopsin gene expression0.0212008325669304
GO:0007468regulation of rhodopsin gene expression0.0212008325669304
GO:0060041retina development in camera-type eye0.0317881805600894
GO:0007205protein kinase C activation0.0317881805600894
GO:0004143diacylglycerol kinase activity0.0317881805600894
GO:0016439tRNA-pseudouridine synthase activity0.0317881805600894
GO:0042461photoreceptor cell development0.0317881805600894
GO:0009982pseudouridine synthase activity0.0317881805600894
GO:0046530photoreceptor cell differentiation0.0329628101206219
GO:0016866intramolecular transferase activity0.0353085843642717
GO:0007200G-protein signaling, coupled to IP3 second messenger (phospholipase C activating)0.0353085843642717
GO:0032147activation of protein kinase activity0.0353085843642717
GO:0048015phosphoinositide-mediated signaling0.0398582512683634
GO:0019992diacylglycerol binding0.0398582512683634
GO:0005496steroid binding0.0398582512683634
GO:0003707steroid hormone receptor activity0.0398582512683634
GO:0004879ligand-dependent nuclear receptor activity0.0398582512683634



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



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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}}}