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MCL coexpression mm9:263: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0.064513712786576,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0256231522473808,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.203902841136986,0.133162307142514,0,0,0,0.109123086691028,0.0866689030825281,0,0,0,0,0.0079419685884597,0,0,0.0380188235580625,0,0,0,0,0.201194179703458,0.108816382318513,0.0742309351586685,0.758136459685041,0.804212088227144,0,0,0,0,0,0,0,0,0,0,0.231524918389248,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0482820047261801,0,0,0,0,0.0651189800845078,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0144708855740369,0,0,0,0,0.0099821895188273,0,0,0,0.0285860945550467,0.0523528812100954,0.0388988969149198,0.0584786819677125,0,0,0,0.0860734338295156,0.0532734549622995,0,0.0812688455295622,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0759746788638707,0.0379235044731765,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.040250349638994,0,0.0147194505648231,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.250859123963394,0.33672307918798,0.338888976478549,0.498409696944844,0.648553782875447,0.583285545715466,0.381719064564938,0.483700099812716,0.486407647624893,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0662835200988411,0.0650059127791652,0.0254340553719351,0.0489745727197172,0.0587139611731839,0,0.0369370963453219,0,0,0,0,0,0,0,0,0,0,0,0.0254710207906437,0.00755147632986915,0.0824580172145032,0,0.054943952156948,0.034489466458534,0,0,0,0,0,0,0,0.0116582580158982,0,0,0,0,0,0,0,0,0.0065113944318591,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0684580848992459,0.0472542065752338,0,0,0.0871588832444397,0,0,0.0416819469651963,0.098117166361508,0.0082720779548292,0.0388749848471105,0.0523284672130554,0.0357392340837099,0,0.0476191773904887,0.0766073954291401,0,0.0328680168161059,0,0.0709519923534245,0.0464544367289881,0.0589368614163519,0.0390607415003592,0.0678996586311492,0.0217597003052645,0,0.0553034373508932,0,0.0924644954689594,0.0408018333703219,0,0.0312791175364151,0,0.0968441960560167,0,0.0845301845292944,0.0997458658206088,0.00184044300098491,0.0663595900574196
|gostat_on_MCL_coexpression=GO:0043121;neurotrophin binding;0.0220018627075001;18053!GO:0017049;GTP-Rho binding;0.0220018627075001;20166!GO:0001829;trophectodermal cell differentiation;0.0220018627075001;15221!GO:0048199;vesicle targeting, to, from or within Golgi;0.0220018627075001;68581!GO:0048406;nerve growth factor binding;0.0220018627075001;18053!GO:0009653;anatomical structure morphogenesis;0.0274970545431882;18053,14585,14457,15221!GO:0042488;positive regulation of odontogenesis of dentine-containing teeth;0.0274970545431882;18053!GO:0042482;positive regulation of odontogenesis;0.0274970545431882;18053!GO:0042481;regulation of odontogenesis;0.0305347110597331;18053!GO:0005095;GTPase inhibitor activity;0.0305347110597331;20166!GO:0042589;zymogen granule membrane;0.0305347110597331;68581!GO:0007399;nervous system development;0.0305347110597331;18053,14585,14457!GO:0048667;neuron morphogenesis during differentiation;0.0305347110597331;18053,14457!GO:0048812;neurite morphogenesis;0.0305347110597331;18053,14457!GO:0005035;death receptor activity;0.0305347110597331;18053!GO:0001825;blastocyst formation;0.0305347110597331;15221!GO:0042588;zymogen granule;0.0305347110597331;68581!GO:0042487;regulation of odontogenesis of dentine-containing teeth;0.0305347110597331;18053!GO:0006903;vesicle targeting;0.0328181267948919;68581!GO:0016048;detection of temperature stimulus;0.0328181267948919;18053!GO:0000904;cellular morphogenesis during differentiation;0.0328181267948919;18053,14457!GO:0031175;neurite development;0.0328181267948919;18053,14457!GO:0005801;cis-Golgi network;0.0328181267948919;68581!GO:0032502;developmental process;0.0328181267948919;18053,20166,14585,14457,15221!GO:0048731;system development;0.0328181267948919;18053,14585,14457,15221!GO:0030667;secretory granule membrane;0.0328181267948919;68581!GO:0048869;cellular developmental process;0.0328181267948919;18053,20166,14457,15221!GO:0030154;cell differentiation;0.0328181267948919;18053,20166,14457,15221!GO:0048666;neuron development;0.0328181267948919;18053,14457!GO:0021675;nerve development;0.0355230660621697;18053!GO:0043588;skin development;0.0355230660621697;18053!GO:0035257;nuclear hormone receptor binding;0.0355230660621697;57752!GO:0051650;establishment of vesicle localization;0.0355230660621697;68581!GO:0001892;embryonic placenta development;0.0355230660621697;15221!GO:0051427;hormone receptor binding;0.0356708540809494;57752!GO:0051648;vesicle localization;0.0356708540809494;68581!GO:0032990;cell part morphogenesis;0.0356708540809494;18053,14457!GO:0048858;cell projection morphogenesis;0.0356708540809494;18053,14457!GO:0030030;cell projection organization and biogenesis;0.0356708540809494;18053,14457!GO:0051017;actin filament bundle formation;0.0356708540809494;14457!GO:0048856;anatomical structure development;0.0358024264734813;18053,14585,14457,15221!GO:0030182;neuron differentiation;0.0361493430947323;18053,14457!GO:0017048;Rho GTPase binding;0.042373404854525;20166!GO:0030041;actin filament polymerization;0.042373404854525;14457!GO:0048699;generation of neurons;0.0432869659028584;18053,14457!GO:0007275;multicellular organismal development;0.0474875106611709;18053,14585,14457,15221!GO:0022008;neurogenesis;0.0474875106611709;18053,14457!GO:0051656;establishment of organelle localization;0.0479448740767939;68581!
|gostat_on_MCL_coexpression=GO:0043121;neurotrophin binding;0.0220018627075001;18053!GO:0017049;GTP-Rho binding;0.0220018627075001;20166!GO:0001829;trophectodermal cell differentiation;0.0220018627075001;15221!GO:0048199;vesicle targeting, to, from or within Golgi;0.0220018627075001;68581!GO:0048406;nerve growth factor binding;0.0220018627075001;18053!GO:0009653;anatomical structure morphogenesis;0.0274970545431882;18053,14585,14457,15221!GO:0042488;positive regulation of odontogenesis of dentine-containing teeth;0.0274970545431882;18053!GO:0042482;positive regulation of odontogenesis;0.0274970545431882;18053!GO:0042481;regulation of odontogenesis;0.0305347110597331;18053!GO:0005095;GTPase inhibitor activity;0.0305347110597331;20166!GO:0042589;zymogen granule membrane;0.0305347110597331;68581!GO:0007399;nervous system development;0.0305347110597331;18053,14585,14457!GO:0048667;neuron morphogenesis during differentiation;0.0305347110597331;18053,14457!GO:0048812;neurite morphogenesis;0.0305347110597331;18053,14457!GO:0005035;death receptor activity;0.0305347110597331;18053!GO:0001825;blastocyst formation;0.0305347110597331;15221!GO:0042588;zymogen granule;0.0305347110597331;68581!GO:0042487;regulation of odontogenesis of dentine-containing teeth;0.0305347110597331;18053!GO:0006903;vesicle targeting;0.0328181267948919;68581!GO:0016048;detection of temperature stimulus;0.0328181267948919;18053!GO:0000904;cellular morphogenesis during differentiation;0.0328181267948919;18053,14457!GO:0031175;neurite development;0.0328181267948919;18053,14457!GO:0005801;cis-Golgi network;0.0328181267948919;68581!GO:0032502;developmental process;0.0328181267948919;18053,20166,14585,14457,15221!GO:0048731;system development;0.0328181267948919;18053,14585,14457,15221!GO:0030667;secretory granule membrane;0.0328181267948919;68581!GO:0048869;cellular developmental process;0.0328181267948919;18053,20166,14457,15221!GO:0030154;cell differentiation;0.0328181267948919;18053,20166,14457,15221!GO:0048666;neuron development;0.0328181267948919;18053,14457!GO:0021675;nerve development;0.0355230660621697;18053!GO:0043588;skin development;0.0355230660621697;18053!GO:0035257;nuclear hormone receptor binding;0.0355230660621697;57752!GO:0051650;establishment of vesicle localization;0.0355230660621697;68581!GO:0001892;embryonic placenta development;0.0355230660621697;15221!GO:0051427;hormone receptor binding;0.0356708540809494;57752!GO:0051648;vesicle localization;0.0356708540809494;68581!GO:0032990;cell part morphogenesis;0.0356708540809494;18053,14457!GO:0048858;cell projection morphogenesis;0.0356708540809494;18053,14457!GO:0030030;cell projection organization and biogenesis;0.0356708540809494;18053,14457!GO:0051017;actin filament bundle formation;0.0356708540809494;14457!GO:0048856;anatomical structure development;0.0358024264734813;18053,14585,14457,15221!GO:0030182;neuron differentiation;0.0361493430947323;18053,14457!GO:0017048;Rho GTPase binding;0.042373404854525;20166!GO:0030041;actin filament polymerization;0.042373404854525;14457!GO:0048699;generation of neurons;0.0432869659028584;18053,14457!GO:0007275;multicellular organismal development;0.0474875106611709;18053,14585,14457,15221!GO:0022008;neurogenesis;0.0474875106611709;18053,14457!GO:0051656;establishment of organelle localization;0.0479448740767939;68581!
}}
}}

Revision as of 12:39, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:67400252..67400263,+p9@Gas7
Mm9::chr11:95430349..95430358,-p@chr11:95430349..95430358
-
Mm9::chr11:95431175..95431200,-p@chr11:95431175..95431200
-
Mm9::chr11:95431260..95431274,-p@chr11:95431260..95431274
-
Mm9::chr11:95435706..95435720,-p@chr11:95435706..95435720
-
Mm9::chr11:95442317..95442326,-p@chr11:95442317..95442326
-
Mm9::chr11:95449005..95449021,-p1@Ngfr
Mm9::chr12:86692075..86692107,-p7@Tmed10
Mm9::chr13:63424826..63424833,-p@chr13:63424826..63424833
-
Mm9::chr14:105988723..105988748,+p2@uc007uxu.2
p2@uc011zpn.1
p2@uc011zpo.1
p2@uc011zpp.1
p2@uc011zpq.1
Mm9::chr14:105988749..105988763,+p1@uc007uxu.2
p1@uc011zpn.1
p1@uc011zpo.1
p1@uc011zpp.1
p1@uc011zpq.1
Mm9::chr14:105988833..105988840,+p1@ENSMUST00000134007
Mm9::chr15:7760041..7760056,+p@chr15:7760041..7760056
+
Mm9::chr15:98725842..98725863,-p@chr15:98725842..98725863
-
Mm9::chr17:14683348..14683368,+p@chr17:14683348..14683368
+
Mm9::chr17:14732894..14732899,+p@chr17:14732894..14732899
+
Mm9::chr19:58530274..58530285,-p12@Gfra1
Mm9::chr19:58530308..58530362,-p3@Gfra1
Mm9::chr19:58530393..58530404,-p14@Gfra1
Mm9::chr19:58530437..58530452,-p5@Gfra1
Mm9::chr3:57305697..57305724,-p@chr3:57305697..57305724
-
Mm9::chr4:129732267..129732291,+p6@Col16a1
Mm9::chr4:99323019..99323031,+p4@Foxd3
Mm9::chr6:31073236..31073239,+p@chr6:31073236..31073239
+
Mm9::chr6:83087097..83087115,+p9@Rtkn
Mm9::chr6:83087128..83087146,+p13@Rtkn
Mm9::chr7:137818145..137818172,+p@chr7:137818145..137818172
+
Mm9::chr8:11797411..11797448,+p@chr8:11797411..11797448
+
Mm9::chr8:49928618..49928674,-p@chr8:49928618..49928674
-
Mm9::chr8:49928714..49928733,-p@chr8:49928714..49928733
-
Mm9::chr8:49929234..49929248,-p@chr8:49929234..49929248
-
Mm9::chrX:149092305..149092326,-p@chrX:149092305..149092326
-


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:0043121neurotrophin binding0.0220018627075001
GO:0017049GTP-Rho binding0.0220018627075001
GO:0001829trophectodermal cell differentiation0.0220018627075001
GO:0048199vesicle targeting, to, from or within Golgi0.0220018627075001
GO:0048406nerve growth factor binding0.0220018627075001
GO:0009653anatomical structure morphogenesis0.0274970545431882
GO:0042488positive regulation of odontogenesis of dentine-containing teeth0.0274970545431882
GO:0042482positive regulation of odontogenesis0.0274970545431882
GO:0042481regulation of odontogenesis0.0305347110597331
GO:0005095GTPase inhibitor activity0.0305347110597331
GO:0042589zymogen granule membrane0.0305347110597331
GO:0007399nervous system development0.0305347110597331
GO:0048667neuron morphogenesis during differentiation0.0305347110597331
GO:0048812neurite morphogenesis0.0305347110597331
GO:0005035death receptor activity0.0305347110597331
GO:0001825blastocyst formation0.0305347110597331
GO:0042588zymogen granule0.0305347110597331
GO:0042487regulation of odontogenesis of dentine-containing teeth0.0305347110597331
GO:0006903vesicle targeting0.0328181267948919
GO:0016048detection of temperature stimulus0.0328181267948919
GO:0000904cellular morphogenesis during differentiation0.0328181267948919
GO:0031175neurite development0.0328181267948919
GO:0005801cis-Golgi network0.0328181267948919
GO:0032502developmental process0.0328181267948919
GO:0048731system development0.0328181267948919
GO:0030667secretory granule membrane0.0328181267948919
GO:0048869cellular developmental process0.0328181267948919
GO:0030154cell differentiation0.0328181267948919
GO:0048666neuron development0.0328181267948919
GO:0021675nerve development0.0355230660621697
GO:0043588skin development0.0355230660621697
GO:0035257nuclear hormone receptor binding0.0355230660621697
GO:0051650establishment of vesicle localization0.0355230660621697
GO:0001892embryonic placenta development0.0355230660621697
GO:0051427hormone receptor binding0.0356708540809494
GO:0051648vesicle localization0.0356708540809494
GO:0032990cell part morphogenesis0.0356708540809494
GO:0048858cell projection morphogenesis0.0356708540809494
GO:0030030cell projection organization and biogenesis0.0356708540809494
GO:0051017actin filament bundle formation0.0356708540809494
GO:0048856anatomical structure development0.0358024264734813
GO:0030182neuron differentiation0.0361493430947323
GO:0017048Rho GTPase binding0.042373404854525
GO:0030041actin filament polymerization0.042373404854525
GO:0048699generation of neurons0.0432869659028584
GO:0007275multicellular organismal development0.0474875106611709
GO:0022008neurogenesis0.0474875106611709
GO:0051656establishment of organelle localization0.0479448740767939



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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