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MCL coexpression mm9:544: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0986886653414259,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0400093965272457,0.092202461586495,0.128831415531086,0,0,0,0,0,0,0,0.0428469550828748,0.0274990668782,0,0.109123086691028,0,0.0250913949416665,0,0,0,0.160017035171832,0.186307383050917,0.101668926708099,0.0729756721489083,0.0910522389263605,0,0.193893011938994,0.24486099132265,0.238124371123597,0.300291450823596,0.105918927514698,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.03048532897689,0,0,0,0,0,0,0,0,0,0.20018311764962,0.211745123527753,0,0,0,0,0.294954827205435,0.222888897389984,0.157885352194828,0.362113304938093,0.464647988369923,0.236570192217746,0.361336814746809,0.0613144345794207,0,0,0.0414719663749819,0.29363645439094,0.196052919103905,0.21158223695232,0.532492769531735,0.662890906640085,0.753804884132706,0.640705794975287,0.278997246791556,0,0,0.0351946358075573,0,0.106546909924599,0,0.0812688455295622,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0330077287713024,0,0,0,0,0.329072578125644,0.248227720859319,0,0,0,0,0.0526429550379996,0,0,0,0,0,0,0,0,0,0,0,0,0.046982063026719,0,0,0,0.0147194505648231,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.045779009027853,0,0,0,0.0635717028550276,0,0,0,0,0,0,0,0,0,0.120936080462619,0.183647834491121,0,0,0,0,0,0,0,0,0,0,0,0.358940419539848,0,0,0.0327687501780757,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.133577925442038,0,0,0.035450992781488,0,0.0948573962131381,0,0,0,0,0,0,0,0,0,0,0.240973653066283,0,0,0,0,0,0,0,0,0,0,0,0.0803809427109337,0.0222709268946923,0,0,0,0.017244733229267,0,0,0,0,0,0,0,0.0527554171614426,0,0.0698792936134432,0,0.0218199432126286,0,0,0,0,0.0405695412953027,0,0,0,0,0,0,0.015947867244644,0,0,0,0,0,0,0,0,0,0,0,0,0,0.430438782579648,0.330101651177499,0.331587424856164,0.473497331869198,0.374778587894724,0.244374584202533,0.425905624201957,0.447357266760456,0.435207518427552,0.308675506925909,0,0,0,0.0945084131504676,0,0,0.0871588832444397,0.081359932135904,0.120876255993453,0.0489230553888678,0,0.0750453505157095,0.0745542549075041,0.0523284672130554,0.109638387271474,0.169172763866184,0.0476191773904887,0.0766073954291401,0,0.0596387295197733,0.128033729919821,0.0709519923534245,0.0837336526858278,0.0589368614163519,0.0748964051866952,0.112424166433421,0.104181599639904,0.101427320830301,0.104353329269123,0,0.0705764529867414,0.112441925220423,0,0.0898938257864661,0,0.0968441960560167,0.091291089277545,0.0845301845292944,0,0,0
|gostat_on_MCL_coexpression=GO:0016080;synaptic vesicle targeting;0.017307005837869;192167!GO:0006903;vesicle targeting;0.017307005837869;192167!GO:0042043;neurexin binding;0.017307005837869;192167!GO:0016079;synaptic vesicle exocytosis;0.017307005837869;192167!GO:0051650;establishment of vesicle localization;0.017307005837869;192167!GO:0051648;vesicle localization;0.017307005837869;192167!GO:0007416;synaptogenesis;0.0212316856430153;192167!GO:0051656;establishment of organelle localization;0.0212316856430153;192167!GO:0048489;synaptic vesicle transport;0.0212316856430153;192167!GO:0051640;organelle localization;0.0212316856430153;192167!GO:0045664;regulation of neuron differentiation;0.0212316856430153;192167!GO:0050808;synapse organization and biogenesis;0.0317016877136253;192167!GO:0007269;neurotransmitter secretion;0.0339120770595599;192167!GO:0045055;regulated secretory pathway;0.0395025018332462;192167!GO:0006887;exocytosis;0.044701314499151;192167!GO:0003001;generation of a signal involved in cell-cell signaling;0.044701314499151;192167!GO:0001505;regulation of neurotransmitter levels;0.044701314499151;192167!GO:0043062;extracellular structure organization and biogenesis;0.0474808004265753;192167!GO:0045211;postsynaptic membrane;0.0495118245516327;192167!
|gostat_on_MCL_coexpression=GO:0016080;synaptic vesicle targeting;0.017307005837869;192167!GO:0006903;vesicle targeting;0.017307005837869;192167!GO:0042043;neurexin binding;0.017307005837869;192167!GO:0016079;synaptic vesicle exocytosis;0.017307005837869;192167!GO:0051650;establishment of vesicle localization;0.017307005837869;192167!GO:0051648;vesicle localization;0.017307005837869;192167!GO:0007416;synaptogenesis;0.0212316856430153;192167!GO:0051656;establishment of organelle localization;0.0212316856430153;192167!GO:0048489;synaptic vesicle transport;0.0212316856430153;192167!GO:0051640;organelle localization;0.0212316856430153;192167!GO:0045664;regulation of neuron differentiation;0.0212316856430153;192167!GO:0050808;synapse organization and biogenesis;0.0317016877136253;192167!GO:0007269;neurotransmitter secretion;0.0339120770595599;192167!GO:0045055;regulated secretory pathway;0.0395025018332462;192167!GO:0006887;exocytosis;0.044701314499151;192167!GO:0003001;generation of a signal involved in cell-cell signaling;0.044701314499151;192167!GO:0001505;regulation of neurotransmitter levels;0.044701314499151;192167!GO:0043062;extracellular structure organization and biogenesis;0.0474808004265753;192167!GO:0045211;postsynaptic membrane;0.0495118245516327;192167!
}}
}}

Revision as of 12:43, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr16:75092953..75092979,-p@chr16:75092953..75092979
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Mm9::chr18:23200112..23200123,-p4@Nol4
Mm9::chr18:77800445..77800450,-p@chr18:77800445..77800450
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Mm9::chr1:106677500..106677503,+p@chr1:106677500..106677503
+
Mm9::chr3:25330641..25330645,-p@chr3:25330641..25330645
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Mm9::chr3:25497991..25497995,-p@chr3:25497991..25497995
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Mm9::chr3:25746206..25746219,-p@chr3:25746206..25746219
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Mm9::chr3:25835662..25835666,-p@chr3:25835662..25835666
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Mm9::chr3:26001283..26001284,-p@chr3:26001283..26001284
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Mm9::chr3:26015244..26015245,-p@chr3:26015244..26015245
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Mm9::chr3:26230752..26230771,-p7@Nlgn1
Mm9::chr5:99792484..99792489,-p@chr5:99792484..99792489
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Mm9::chr7:129814314..129814341,+p@chr7:129814314..129814341
+
Mm9::chr7:71650246..71650250,+p@chr7:71650246..71650250
+


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:0016080synaptic vesicle targeting0.017307005837869
GO:0006903vesicle targeting0.017307005837869
GO:0042043neurexin binding0.017307005837869
GO:0016079synaptic vesicle exocytosis0.017307005837869
GO:0051650establishment of vesicle localization0.017307005837869
GO:0051648vesicle localization0.017307005837869
GO:0007416synaptogenesis0.0212316856430153
GO:0051656establishment of organelle localization0.0212316856430153
GO:0048489synaptic vesicle transport0.0212316856430153
GO:0051640organelle localization0.0212316856430153
GO:0045664regulation of neuron differentiation0.0212316856430153
GO:0050808synapse organization and biogenesis0.0317016877136253
GO:0007269neurotransmitter secretion0.0339120770595599
GO:0045055regulated secretory pathway0.0395025018332462
GO:0006887exocytosis0.044701314499151
GO:0003001generation of a signal involved in cell-cell signaling0.044701314499151
GO:0001505regulation of neurotransmitter levels0.044701314499151
GO:0043062extracellular structure organization and biogenesis0.0474808004265753
GO:0045211postsynaptic membrane0.0495118245516327



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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