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MCL coexpression mm9:303: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0546420971611823,0,0,0,0,0.127160916153114,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.524678293662169,0.672691387624111,0.533587527902543,0.653187245144261,0.424787867284045,0.648550255135487,0,0,0,0,0,0,0.147562843172839,0.18440492317299,0,0,0,0,0,0,0.909083797812052,1.11095205914435,0.0428469550828748,0.147681830935052,0,0.67334008360095,0.599960668250688,0,0.0397493170902889,0,0.793028224628591,0.646934718216548,0.779129827940688,0.0538027986792206,0.190030631017894,0.182104477852721,0.878377549483214,0.616500362949906,0.669052498591383,0.52595505204879,0.551778065780867,0.192901363035279,0,0,0,0,0,0,0,0,0.0820773865078903,0,0,0,0,0,0,0,0,0,0,0,0,0.0466177053206965,0,0,0,0.0481423929429416,0.0917293418104957,0.0514097768499148,0,0,0,0.121735003810417,0.143599661668073,0,0,0.56050766171087,0.570870543844938,0,0,0,0,0.54979272321513,0.28216905172576,0.0973644655708927,0.310256870570088,0.280532164120257,0.543255344169442,0.390965359711181,0.0421182837367051,0.0509235292940968,0,0.0829439327499637,0,0,0,0.0609639314262262,0.104536955558926,0.184462063653414,0.165773787790843,0.360501935852296,0,0,0,0,0,0,0,0.0788315948399074,0,0,0,0,0,0.0719048481885784,0,0.0780086007519514,0.0623063220167371,0.0555486728183886,0,0,0,0.0660154575426048,0.0338533374824575,0.0592603993571966,0.0861996515928926,0,0.31206088192539,0.180275890794066,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.048801161220162,0.0294389011296462,0.0266298923127834,0.0597943799295356,0,0,0,0.0670132089181356,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0250520763961708,0,0,0,0,0,0,0,0.57163431186883,0.530129162329394,0,0.303170930017544,0,0,0,0,0,0,0,0,0,0.293133511567635,0.101721102947495,0.0711694759496908,0,0.0663147875126409,0,0,0,0,0,0,0,0,0,0,0,0,0.0611879986310014,0,0.0528318955547673,0.0777647556521423,0.0709019855629759,0.0712812415377886,0.123557017950668,0.115432414129512,0,0,0,0,0,0,0,0,0,0.750942668859675,0.0685090053637401,0.0814866010703366,0.0737896374598673,0.07256743707153,0.055643654597214,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.15163164249159,0,0.0771684068561175,0.132701628744235,0.178075318759048,0.167148593213365,0.250719101121664,0.211962689954153,0.145756362195106,0.032757573714585,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0767094571656325,0,0,0,0,0.513085342652956,0.376754964798171,0.493532219532635,0.532237573572574,0.374778587894724,0.399810008829701,0.371076178555103,0.51209791841336,0.35554471279217,0.554949444870281,0,0,0,0,0,0,0.0661570074935683,0,0,0.0788859385252968,0.0829383888891935,0,0.0388749848471105,0.0523284672130554,0.0242538736058389,0,0.0242456271431725,0.046543403794923,0.0183452918206918,0.0596387295197733,0.102599674547886,0.0547553792190899,0,0.0589368614163519,0.0390607415003592,0.0596686198080922,0.0729583017401753,0,0.0553034373508932,0,0.0486884105045233,0.0408018333703219,0,0.0625582350728301,0,0.0968441960560167,0.091291089277545,0,0.0760168881589905,0.158719081855703,0.0905641158318875
|gostat_on_MCL_coexpression=GO:0031527;filopodium membrane;0.00438284117679286;57776!GO:0032433;filopodium tip;0.00438284117679286;57776!GO:0046847;filopodium formation;0.0101871281319128;57776!GO:0022610;biological adhesion;0.0101871281319128;57776,11932!GO:0007155;cell adhesion;0.0101871281319128;57776,11932!GO:0030035;microspike biogenesis;0.0101871281319128;57776!GO:0031253;cell projection membrane;0.0101871281319128;57776!GO:0005391;sodium:potassium-exchanging ATPase activity;0.0101871281319128;11932!GO:0015075;ion transmembrane transporter activity;0.0101871281319128;57776,11932!GO:0030175;filopodium;0.0101871281319128;57776!GO:0006811;ion transport;0.0101871281319128;57776,11932!GO:0022891;substrate-specific transmembrane transporter activity;0.0101871281319128;57776,11932!GO:0022857;transmembrane transporter activity;0.0126179115188622;57776,11932!GO:0022892;substrate-specific transporter activity;0.0140635193250359;57776,11932!GO:0030031;cell projection biogenesis;0.0258363874601177;57776!GO:0043168;anion binding;0.0258363874601177;57776!GO:0031404;chloride ion binding;0.0258363874601177;57776!GO:0005254;chloride channel activity;0.0258363874601177;57776!GO:0015662;ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism;0.0258363874601177;11932!GO:0005253;anion channel activity;0.0258363874601177;57776!GO:0030424;axon;0.0258363874601177;57776!GO:0031589;cell-substrate adhesion;0.0258683639415299;57776!GO:0044463;cell projection part;0.0258683639415299;57776!GO:0031402;sodium ion binding;0.0283385692941129;11932!GO:0042625;ATPase activity, coupled to transmembrane movement of ions;0.0283385692941129;11932!GO:0030955;potassium ion binding;0.0316754946025582;11932!GO:0008509;anion transmembrane transporter activity;0.0316754946025582;57776!GO:0006814;sodium ion transport;0.0316754946025582;11932!GO:0042626;ATPase activity, coupled to transmembrane movement of substances;0.0316754946025582;11932!GO:0043492;ATPase activity, coupled to movement of substances;0.0316754946025582;11932!GO:0043005;neuron projection;0.0316754946025582;57776!GO:0016820;hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances;0.0316754946025582;11932!GO:0015399;primary active transmembrane transporter activity;0.0328854058322195;11932!GO:0015405;P-P-bond-hydrolysis-driven transmembrane transporter activity;0.0328854058322195;11932!GO:0006810;transport;0.0349959185640569;57776,11932!GO:0051234;establishment of localization;0.0358865332238167;57776,11932!GO:0006813;potassium ion transport;0.0360963500426349;11932!GO:0031420;alkali metal ion binding;0.0406327701735411;11932!GO:0051179;localization;0.0422168481824396;57776,11932!GO:0016337;cell-cell adhesion;0.0453230729897579;57776!GO:0042623;ATPase activity, coupled;0.0478091709644383;11932!
|gostat_on_MCL_coexpression=GO:0031527;filopodium membrane;0.00438284117679286;57776!GO:0032433;filopodium tip;0.00438284117679286;57776!GO:0046847;filopodium formation;0.0101871281319128;57776!GO:0022610;biological adhesion;0.0101871281319128;57776,11932!GO:0007155;cell adhesion;0.0101871281319128;57776,11932!GO:0030035;microspike biogenesis;0.0101871281319128;57776!GO:0031253;cell projection membrane;0.0101871281319128;57776!GO:0005391;sodium:potassium-exchanging ATPase activity;0.0101871281319128;11932!GO:0015075;ion transmembrane transporter activity;0.0101871281319128;57776,11932!GO:0030175;filopodium;0.0101871281319128;57776!GO:0006811;ion transport;0.0101871281319128;57776,11932!GO:0022891;substrate-specific transmembrane transporter activity;0.0101871281319128;57776,11932!GO:0022857;transmembrane transporter activity;0.0126179115188622;57776,11932!GO:0022892;substrate-specific transporter activity;0.0140635193250359;57776,11932!GO:0030031;cell projection biogenesis;0.0258363874601177;57776!GO:0043168;anion binding;0.0258363874601177;57776!GO:0031404;chloride ion binding;0.0258363874601177;57776!GO:0005254;chloride channel activity;0.0258363874601177;57776!GO:0015662;ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism;0.0258363874601177;11932!GO:0005253;anion channel activity;0.0258363874601177;57776!GO:0030424;axon;0.0258363874601177;57776!GO:0031589;cell-substrate adhesion;0.0258683639415299;57776!GO:0044463;cell projection part;0.0258683639415299;57776!GO:0031402;sodium ion binding;0.0283385692941129;11932!GO:0042625;ATPase activity, coupled to transmembrane movement of ions;0.0283385692941129;11932!GO:0030955;potassium ion binding;0.0316754946025582;11932!GO:0008509;anion transmembrane transporter activity;0.0316754946025582;57776!GO:0006814;sodium ion transport;0.0316754946025582;11932!GO:0042626;ATPase activity, coupled to transmembrane movement of substances;0.0316754946025582;11932!GO:0043492;ATPase activity, coupled to movement of substances;0.0316754946025582;11932!GO:0043005;neuron projection;0.0316754946025582;57776!GO:0016820;hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances;0.0316754946025582;11932!GO:0015399;primary active transmembrane transporter activity;0.0328854058322195;11932!GO:0015405;P-P-bond-hydrolysis-driven transmembrane transporter activity;0.0328854058322195;11932!GO:0006810;transport;0.0349959185640569;57776,11932!GO:0051234;establishment of localization;0.0358865332238167;57776,11932!GO:0006813;potassium ion transport;0.0360963500426349;11932!GO:0031420;alkali metal ion binding;0.0406327701735411;11932!GO:0051179;localization;0.0422168481824396;57776,11932!GO:0016337;cell-cell adhesion;0.0453230729897579;57776!GO:0042623;ATPase activity, coupled;0.0478091709644383;11932!
}}
}}

Revision as of 12:39, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:69413509..69413520,-p@chr11:69413509..69413520
-
Mm9::chr11:69413515..69413542,+p@chr11:69413515..69413542
+
Mm9::chr11:69413654..69413671,-p@chr11:69413654..69413671
-
Mm9::chr11:69413749..69413773,-p@chr11:69413749..69413773
-
Mm9::chr11:69414255..69414260,-p@chr11:69414255..69414260
-
Mm9::chr11:69414283..69414297,-p@chr11:69414283..69414297
-
Mm9::chr11:69414455..69414467,-p@chr11:69414455..69414467
-
Mm9::chr11:69414477..69414488,-p@chr11:69414477..69414488
-
Mm9::chr11:69414521..69414532,-p@chr11:69414521..69414532
-
Mm9::chr11:69414640..69414649,-p@chr11:69414640..69414649
-
Mm9::chr11:69414665..69414705,+p@chr11:69414665..69414705
+
Mm9::chr11:69414740..69414751,+p@chr11:69414740..69414751
+
Mm9::chr11:69415954..69415967,-p@chr11:69415954..69415967
-
Mm9::chr11:69416245..69416285,-p2@Atp1b2
Mm9::chr11:69416312..69416334,-p4@Atp1b2
Mm9::chr11:69416350..69416362,-p3@Atp1b2
Mm9::chr11:69417040..69417064,-p6@Atp1b2
Mm9::chr11:69419455..69419473,-p1@Atp1b2
Mm9::chr12:112908947..112908956,-p@chr12:112908947..112908956
-
Mm9::chr12:112909692..112909703,-p@chr12:112909692..112909703
-
Mm9::chr1:137271496..137271510,-p4@Shisa4
Mm9::chr2:25978289..25978358,-p1@Nacc2
Mm9::chr2:92229169..92229176,-p@chr2:92229169..92229176
-
Mm9::chr7:4084759..4084771,+p6@Ttyh1
Mm9::chr8:113251010..113251031,+p6@Mtss1l
Mm9::chr8:113264957..113264971,+p@chr8:113264957..113264971
+
Mm9::chr9:37193490..37193505,+p@chr9:37193490..37193505
+


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:0031527filopodium membrane0.00438284117679286
GO:0032433filopodium tip0.00438284117679286
GO:0046847filopodium formation0.0101871281319128
GO:0022610biological adhesion0.0101871281319128
GO:0007155cell adhesion0.0101871281319128
GO:0030035microspike biogenesis0.0101871281319128
GO:0031253cell projection membrane0.0101871281319128
GO:0005391sodium:potassium-exchanging ATPase activity0.0101871281319128
GO:0015075ion transmembrane transporter activity0.0101871281319128
GO:0030175filopodium0.0101871281319128
GO:0006811ion transport0.0101871281319128
GO:0022891substrate-specific transmembrane transporter activity0.0101871281319128
GO:0022857transmembrane transporter activity0.0126179115188622
GO:0022892substrate-specific transporter activity0.0140635193250359
GO:0030031cell projection biogenesis0.0258363874601177
GO:0043168anion binding0.0258363874601177
GO:0031404chloride ion binding0.0258363874601177
GO:0005254chloride channel activity0.0258363874601177
GO:0015662ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism0.0258363874601177
GO:0005253anion channel activity0.0258363874601177
GO:0030424axon0.0258363874601177
GO:0031589cell-substrate adhesion0.0258683639415299
GO:0044463cell projection part0.0258683639415299
GO:0031402sodium ion binding0.0283385692941129
GO:0042625ATPase activity, coupled to transmembrane movement of ions0.0283385692941129
GO:0030955potassium ion binding0.0316754946025582
GO:0008509anion transmembrane transporter activity0.0316754946025582
GO:0006814sodium ion transport0.0316754946025582
GO:0042626ATPase activity, coupled to transmembrane movement of substances0.0316754946025582
GO:0043492ATPase activity, coupled to movement of substances0.0316754946025582
GO:0043005neuron projection0.0316754946025582
GO:0016820hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances0.0316754946025582
GO:0015399primary active transmembrane transporter activity0.0328854058322195
GO:0015405P-P-bond-hydrolysis-driven transmembrane transporter activity0.0328854058322195
GO:0006810transport0.0349959185640569
GO:0051234establishment of localization0.0358865332238167
GO:0006813potassium ion transport0.0360963500426349
GO:0031420alkali metal ion binding0.0406327701735411
GO:0051179localization0.0422168481824396
GO:0016337cell-cell adhesion0.0453230729897579
GO:0042623ATPase activity, coupled0.0478091709644383



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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