Personal tools

MCL coexpression mm9:1583: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 3: Line 3:
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0.216595894804095,0,0,0,0.127882415780397,0,0,0,0,0,0.0558041721483835,0,0,0.0411126530948397,0.00831939399685006,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.070560422226379,0,0.182849227049958,0,0.14481725110225,0.202226691205901,0,0,0,0,0,0,0,0,0,0,0,0.0333724529550097,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.188333302671611,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0354665036845375,0.0187257004140047,0,0,0,0,0,0.0482820047261801,0.00490846580297921,0,0.0290412615602653,0,0.121735003810417,0,0,0,0,0,0.0175232595995792,0.0932921651944173,0,0.132332414790453,0,0,0,0,0,0,0,0,0.0152191363483313,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.114158016903163,0,0,0,0,0,0,0,0,0,0,0,0.0338533374824575,0,0,0,0,0,0.123988367667141,0,0,0.0844028690712185,0,0,0,0,0.168653336497203,0,0.00490916900586716,0.0788034163803455,0.0773548534010084,0,0,0.0643163347730767,0,0.046982063026719,0,0,0,0,0,0,0,0,0,0,0,0,0,0.00136927959273463,0,0,0,0.0976213578632804,0.386977062110387,0,0.0366677032977133,0.097805083983237,0.0716601710131013,0.0785136609838844,0,0,0,0,0,0,0,0,0,0,0,0.0659019793256198,0.0475631255360579,0,0,0,0.173700201812769,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0663147875126409,0.790472905027295,0,0.262974955883986,0.399473075736769,0.481931503043336,0.404350550054662,0.0998284739419172,0.42131269625865,0.444433127084498,0.599278181580617,0.492533012172672,0.612154871150538,0,0,0,0,0,0,0,0,0.0915514965999916,0,0.241486731122021,0,0,0,0,0,0,0,0,0.0576081171177042,0,0,0.055643654597214,0,0,0.107177024667156,0,0.209794982827184,0,0,0,0,0.00449794408993144,0.0662719098109755,0.034489466458534,0,0,0,0,0.0211557191361223,0,0,0,0,0,0,0,0,0,0.584794686509832,0.0801664161057822,0.116651858992906,0.243852599615044,0.405614420814812,0.461765053561371,0.604127604933149,0.654043237059517,0.629652784267103,0.682175803901192,0.665556852290432,0.681318801672655,0.756969135382193,0.762825028239544,0,0,0,0,0,0,0,0,0.0952675894259541,0,0,0,0,0,0,0,0,0,0,0,0,0,0.00204391768150818,0,0,0,0,0,0,0.0168385643521453,0,0,0.0269518943326477,0.0242538736058389,0,0,0.0766073954291401,0,0,0,0,0,0,0,0,0.0541262955302689,0.101427320830301,0,0,0.0486884105045233,0,0,0,0,0,0,0,0,0.0662545863867439,0
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0.216595894804095,0,0,0,0.127882415780397,0,0,0,0,0,0.0558041721483835,0,0,0.0411126530948397,0.00831939399685006,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.070560422226379,0,0.182849227049958,0,0.14481725110225,0.202226691205901,0,0,0,0,0,0,0,0,0,0,0,0.0333724529550097,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.188333302671611,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0354665036845375,0.0187257004140047,0,0,0,0,0,0.0482820047261801,0.00490846580297921,0,0.0290412615602653,0,0.121735003810417,0,0,0,0,0,0.0175232595995792,0.0932921651944173,0,0.132332414790453,0,0,0,0,0,0,0,0,0.0152191363483313,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.114158016903163,0,0,0,0,0,0,0,0,0,0,0,0.0338533374824575,0,0,0,0,0,0.123988367667141,0,0,0.0844028690712185,0,0,0,0,0.168653336497203,0,0.00490916900586716,0.0788034163803455,0.0773548534010084,0,0,0.0643163347730767,0,0.046982063026719,0,0,0,0,0,0,0,0,0,0,0,0,0,0.00136927959273463,0,0,0,0.0976213578632804,0.386977062110387,0,0.0366677032977133,0.097805083983237,0.0716601710131013,0.0785136609838844,0,0,0,0,0,0,0,0,0,0,0,0.0659019793256198,0.0475631255360579,0,0,0,0.173700201812769,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0663147875126409,0.790472905027295,0,0.262974955883986,0.399473075736769,0.481931503043336,0.404350550054662,0.0998284739419172,0.42131269625865,0.444433127084498,0.599278181580617,0.492533012172672,0.612154871150538,0,0,0,0,0,0,0,0,0.0915514965999916,0,0.241486731122021,0,0,0,0,0,0,0,0,0.0576081171177042,0,0,0.055643654597214,0,0,0.107177024667156,0,0.209794982827184,0,0,0,0,0.00449794408993144,0.0662719098109755,0.034489466458534,0,0,0,0,0.0211557191361223,0,0,0,0,0,0,0,0,0,0.584794686509832,0.0801664161057822,0.116651858992906,0.243852599615044,0.405614420814812,0.461765053561371,0.604127604933149,0.654043237059517,0.629652784267103,0.682175803901192,0.665556852290432,0.681318801672655,0.756969135382193,0.762825028239544,0,0,0,0,0,0,0,0,0.0952675894259541,0,0,0,0,0,0,0,0,0,0,0,0,0,0.00204391768150818,0,0,0,0,0,0,0.0168385643521453,0,0,0.0269518943326477,0.0242538736058389,0,0,0.0766073954291401,0,0,0,0,0,0,0,0,0.0541262955302689,0.101427320830301,0,0,0.0486884105045233,0,0,0,0,0,0,0,0,0.0662545863867439,0
|gostat_on_MCL_coexpression=GO:0007320;insemination;0.0150817990477646;18436!GO:0030433;ER-associated protein catabolic process;0.0150817990477646;192193!GO:0007620;copulation;0.0150817990477646;18436!GO:0004571;mannosyl-oligosaccharide 1,2-alpha-mannosidase activity;0.0150817990477646;192193!GO:0006515;misfolded or incompletely synthesized protein catabolic process;0.0150817990477646;192193!GO:0015924;mannosyl-oligosaccharide mannosidase activity;0.0150817990477646;192193!GO:0043161;proteasomal ubiquitin-dependent protein catabolic process;0.0201052086526011;192193!GO:0007618;mating;0.0201052086526011;18436!GO:0015923;mannosidase activity;0.0201052086526011;192193!GO:0006940;regulation of smooth muscle contraction;0.0219703145114774;18436!GO:0030176;integral to endoplasmic reticulum membrane;0.023495730629226;192193!GO:0031227;intrinsic to endoplasmic reticulum membrane;0.024766379441129;192193!GO:0006939;smooth muscle contraction;0.0258339695861031;18436!GO:0006986;response to unfolded protein;0.0258339695861031;192193!GO:0051789;response to protein stimulus;0.0258339695861031;192193!GO:0006937;regulation of muscle contraction;0.0258339695861031;18436!GO:0016502;nucleotide receptor activity;0.0258339695861031;18436!GO:0001614;purinergic nucleotide receptor activity;0.0258339695861031;18436!GO:0031301;integral to organelle membrane;0.0339790161096225;192193!GO:0031300;intrinsic to organelle membrane;0.035503201710864;192193!GO:0005789;endoplasmic reticulum membrane;0.0392493008543478;192193!GO:0048609;reproductive process in a multicellular organism;0.0392493008543478;18436!GO:0032504;multicellular organism reproduction;0.0392493008543478;18436!GO:0042175;nuclear envelope-endoplasmic reticulum network;0.0392493008543478;192193!GO:0044432;endoplasmic reticulum part;0.0396565940540057;192193!GO:0003012;muscle system process;0.0396565940540057;18436!GO:0006936;muscle contraction;0.0396565940540057;18436!GO:0004553;hydrolase activity, hydrolyzing O-glycosyl compounds;0.0400787904412177;192193!GO:0016798;hydrolase activity, acting on glycosyl bonds;0.0454545468189168;192193!GO:0045211;postsynaptic membrane;0.0454545468189168;18436!GO:0006511;ubiquitin-dependent protein catabolic process;0.0454545468189168;192193!GO:0044456;synapse part;0.0454545468189168;18436!GO:0043632;modification-dependent macromolecule catabolic process;0.0454545468189168;192193!GO:0019941;modification-dependent protein catabolic process;0.0454545468189168;192193!GO:0051603;proteolysis involved in cellular protein catabolic process;0.0454545468189168;192193!GO:0044257;cellular protein catabolic process;0.0454545468189168;192193!
|gostat_on_MCL_coexpression=GO:0007320;insemination;0.0150817990477646;18436!GO:0030433;ER-associated protein catabolic process;0.0150817990477646;192193!GO:0007620;copulation;0.0150817990477646;18436!GO:0004571;mannosyl-oligosaccharide 1,2-alpha-mannosidase activity;0.0150817990477646;192193!GO:0006515;misfolded or incompletely synthesized protein catabolic process;0.0150817990477646;192193!GO:0015924;mannosyl-oligosaccharide mannosidase activity;0.0150817990477646;192193!GO:0043161;proteasomal ubiquitin-dependent protein catabolic process;0.0201052086526011;192193!GO:0007618;mating;0.0201052086526011;18436!GO:0015923;mannosidase activity;0.0201052086526011;192193!GO:0006940;regulation of smooth muscle contraction;0.0219703145114774;18436!GO:0030176;integral to endoplasmic reticulum membrane;0.023495730629226;192193!GO:0031227;intrinsic to endoplasmic reticulum membrane;0.024766379441129;192193!GO:0006939;smooth muscle contraction;0.0258339695861031;18436!GO:0006986;response to unfolded protein;0.0258339695861031;192193!GO:0051789;response to protein stimulus;0.0258339695861031;192193!GO:0006937;regulation of muscle contraction;0.0258339695861031;18436!GO:0016502;nucleotide receptor activity;0.0258339695861031;18436!GO:0001614;purinergic nucleotide receptor activity;0.0258339695861031;18436!GO:0031301;integral to organelle membrane;0.0339790161096225;192193!GO:0031300;intrinsic to organelle membrane;0.035503201710864;192193!GO:0005789;endoplasmic reticulum membrane;0.0392493008543478;192193!GO:0048609;reproductive process in a multicellular organism;0.0392493008543478;18436!GO:0032504;multicellular organism reproduction;0.0392493008543478;18436!GO:0042175;nuclear envelope-endoplasmic reticulum network;0.0392493008543478;192193!GO:0044432;endoplasmic reticulum part;0.0396565940540057;192193!GO:0003012;muscle system process;0.0396565940540057;18436!GO:0006936;muscle contraction;0.0396565940540057;18436!GO:0004553;hydrolase activity, hydrolyzing O-glycosyl compounds;0.0400787904412177;192193!GO:0016798;hydrolase activity, acting on glycosyl bonds;0.0454545468189168;192193!GO:0045211;postsynaptic membrane;0.0454545468189168;18436!GO:0006511;ubiquitin-dependent protein catabolic process;0.0454545468189168;192193!GO:0044456;synapse part;0.0454545468189168;18436!GO:0043632;modification-dependent macromolecule catabolic process;0.0454545468189168;192193!GO:0019941;modification-dependent protein catabolic process;0.0454545468189168;192193!GO:0051603;proteolysis involved in cellular protein catabolic process;0.0454545468189168;192193!GO:0044257;cellular protein catabolic process;0.0454545468189168;192193!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000949!3.26e-14!72;UBERON:0001264!3.51e-12!12;UBERON:0002370!1.01e-11!23;UBERON:0000974!1.01e-11!23;UBERON:0004807!1.01e-11!23;UBERON:0005058!1.01e-11!23;UBERON:0003351!1.01e-11!23;UBERON:0009113!1.01e-11!23;UBERON:0003295!1.01e-11!23;UBERON:0009722!1.01e-11!23;UBERON:0005562!1.01e-11!23;UBERON:0007690!1.01e-11!23;UBERON:0006562!5.22e-11!24;UBERON:0003408!5.22e-11!24;UBERON:0001557!5.22e-11!24;UBERON:0001042!5.22e-11!24;UBERON:0008814!5.22e-11!24;UBERON:0009145!5.22e-11!24;UBERON:0004177!2.17e-10!29;UBERON:0005057!2.17e-10!29;UBERON:0000077!7.48e-10!35;UBERON:0000072!3.34e-09!27;UBERON:0002075!8.22e-09!19;UBERON:0002530!6.17e-08!65;UBERON:0003929!1.39e-07!55;UBERON:0002368!8.86e-07!60
}}
}}

Revision as of 17:07, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:72823222..72823239,+p5@P2rx1
Mm9::chr6:108778502..108778511,+p6@Edem1
Mm9::chr6:108778599..108778610,+p4@Edem1
Mm9::chr6:108794661..108794664,+p@chr6:108794661..108794664
+
Mm9::chr7:134422075..134422089,+p@chr7:134422075..134422089
+


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:0007320insemination0.0150817990477646
GO:0030433ER-associated protein catabolic process0.0150817990477646
GO:0007620copulation0.0150817990477646
GO:0004571mannosyl-oligosaccharide 1,2-alpha-mannosidase activity0.0150817990477646
GO:0006515misfolded or incompletely synthesized protein catabolic process0.0150817990477646
GO:0015924mannosyl-oligosaccharide mannosidase activity0.0150817990477646
GO:0043161proteasomal ubiquitin-dependent protein catabolic process0.0201052086526011
GO:0007618mating0.0201052086526011
GO:0015923mannosidase activity0.0201052086526011
GO:0006940regulation of smooth muscle contraction0.0219703145114774
GO:0030176integral to endoplasmic reticulum membrane0.023495730629226
GO:0031227intrinsic to endoplasmic reticulum membrane0.024766379441129
GO:0006939smooth muscle contraction0.0258339695861031
GO:0006986response to unfolded protein0.0258339695861031
GO:0051789response to protein stimulus0.0258339695861031
GO:0006937regulation of muscle contraction0.0258339695861031
GO:0016502nucleotide receptor activity0.0258339695861031
GO:0001614purinergic nucleotide receptor activity0.0258339695861031
GO:0031301integral to organelle membrane0.0339790161096225
GO:0031300intrinsic to organelle membrane0.035503201710864
GO:0005789endoplasmic reticulum membrane0.0392493008543478
GO:0048609reproductive process in a multicellular organism0.0392493008543478
GO:0032504multicellular organism reproduction0.0392493008543478
GO:0042175nuclear envelope-endoplasmic reticulum network0.0392493008543478
GO:0044432endoplasmic reticulum part0.0396565940540057
GO:0003012muscle system process0.0396565940540057
GO:0006936muscle contraction0.0396565940540057
GO:0004553hydrolase activity, hydrolyzing O-glycosyl compounds0.0400787904412177
GO:0016798hydrolase activity, acting on glycosyl bonds0.0454545468189168
GO:0045211postsynaptic membrane0.0454545468189168
GO:0006511ubiquitin-dependent protein catabolic process0.0454545468189168
GO:0044456synapse part0.0454545468189168
GO:0043632modification-dependent macromolecule catabolic process0.0454545468189168
GO:0019941modification-dependent protein catabolic process0.0454545468189168
GO:0051603proteolysis involved in cellular protein catabolic process0.0454545468189168
GO:0044257cellular protein catabolic process0.0454545468189168



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><br>uberon_data<br><br>



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}}}