Personal tools

MCL coexpression mm9:1011: 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=0.0287876960505012,-0.337149901803145,-0.297761557884222,-0.337149901803145,-0.337149901803145,-0.337149901803145,-0.337149901803145,0.0346808480650007,0.153011413271348,0.0913378685245542,0.152881128923015,0.0335660615803384,0.0686313343811508,0.0363974770700186,-0.107511441879825,0.00594764403482378,0,0.104922369856568,0.0697031295035672,0.153628809860867,0.691664180937177,0.00572070691469322,0,-0.216580956594116,-0.337149901803145,-0.337149901803145,-0.337149901803145,-0.337149901803145,-0.261594393485749,-0.297761557884222,-0.297761557884222,0.165398335575286,0,-0.107511441879825,-0.297761557884222,-0.255298187526773,-0.188442784433298,-0.1218825387499,-0.132230675412567,-0.114912330834264,-0.211395720347389,-0.107511441879825,-0.0992097205542339,-0.0626969882880422,-0.0655754661109829,-0.263964483809438,0.0730959025557061,-0.0218551838256701,0.0299121052698104,-0.0303507757291216,-0.11487611622098,-0.0513445080814965,0.0625623522674417,0.129368822613767,0.125836948423969,-0.19833665409397,-0.190408134339815,-0.263287098109834,0.183172607561412,0.227340009634551,0.355110266454341,-0.107511441879825,-0.300191105459833,0.00323456926096122,0.11859361875482,0,0.00495690090805895,0.0336931463044772,0.073888499602441,0.26356739465617,0.235050521912799,0.319465399432465,0.29836056716436,0.099975891017633,0.132894068838885,0.175613044268534,0.189927076459253,0.443175035074788,0.346307943755924,0.116937602598331,0.19808148571899,0.151915667571925,0.281087299248562,0.303984538944846,0.311302112245387,0.259038638980829,0.23346783925084,0.259696586612867,-0.152434811569714,-0.131790562220115,0.00303264446560066,-0.297761557884222,-0.126262477067974,-0.274566895057098,-0.297761557884222,-0.136984931928068,0.20569496991661,-0.229415993265139,-0.236853122489647,-0.166354776192343,0.0865513540392557,-0.337149901803145,-0.337149901803145,-0.337149901803145,-0.226547108804476,-0.199685774079841,-0.120073746392242,0.0974582908774325,0.221231626711512,0.00280552794849215,0.0474939828819537,-0.0912241500813069,-0.0694006027287582,-0.0928576860918744,0.0398747938224527,-0.00856659027101864,-0.263224906203285,0.0489950407130375,0,-0.025977705418565,0,0,-0.107511441879825,0.538284922018322,0.340842228789213,-0.12906594389789,0,-0.133056322070301,0,0.477260228343498,0.948407949796628,0.559378544522779,0.9853277520659,0.879006157977799,0.548816478300125,0.659504883081709,0.00210414760035516,0.0240211054127051,0.157238680641041,0.056856039956688,0.0522056797313452,-0.0358272675210662,0.0203796046189019,0.0104845656954704,0.0616500850229957,0.04705233387661,0.106946876152523,0.141958445039028,0,0.00516981933023009,0.0498424447335493,0,0.09240708168169,0.134290245577994,0,-0.028679847039918,-0.107511441879825,-0.107511441879825,0,0,-0.0226336885149488,-0.0190088249045935,0.00204778133936362,-0.000259039902002656,-0.0230612514401634,-0.0121736965463924,-0.107511441879825,-0.0163614846126012,-0.0213684167027436,-0.0393883439189228,0,0.000748100994813372,0,-0.0604172183603243,0.835427829241243,0.335369668006983,-0.144765178707993,-0.297761557884222,0.017461505253355,-0.0555551443288829,0,-0.0922728366532103,-0.0757910148997249,-0.0105977612307955,-0.154067561773381,-0.107511441879825,0,0,-0.0357011295474567,-0.111352887386016,-0.117815262352911,-0.0943414018177263,0,0,-0.00936661735861039,0,0.0323954837288791,0,-0.0201273780664695,0,0,-0.021234257635073,-0.22439324970705,-0.0343088242621821,-0.107511441879825,-0.107511441879825,-0.0397374879211063,-0.107511441879825,-0.107511441879825,-0.297761557884222,-0.165012545486507,-0.147064048470905,-0.107511441879825,-0.160362833065501,-0.168218914152682,-0.199956473900986,-0.182012833402772,-0.297761557884222,0,0,0.0187322976332871,0,0,0.0449574608694999,-0.0539269873852877,-0.0976224455503708,-0.014218532778758,-0.107511441879825,-0.0834956331275067,-0.0788446347740686,-0.0313900635742839,-0.0957529903675854,-0.177178394962164,-0.0174586439168212,-0.000323102860992519,0,0.423265898262678,0.287285080795099,-0.174606034430602,-0.107511441879825,-0.215169492043774,-0.132460702211783,-0.027853354234642,-0.0144510725882343,-0.0120462807986315,-0.107511441879825,-0.107511441879825,0,0.00247310337926415,0.591413908805273,0.0576433181427177,0.0178716320488482,-0.0419739415236739,0.0860470054934124,-0.297761557884222,-0.0131169640144257,-0.0439388025838878,-0.062839028887984,-0.061629933587156,-0.101167552292007,-0.0836509344244576,0.000563471462508014,-0.107511441879825,-0.107511441879825,-0.131252569077317,-0.268704913918651,0.0945672710287596,0.0203783072601981,-0.0177501463687038,0.0381460039696979,0.0709019855629759,0.0712812415377886,0.0160455760708429,0.115432414129512,-0.0159599452798338,-0.0489463306590204,0,0.174542051472679,0.0306692172876902,0.0254340553719351,-0.0324313249744819,0.0382669107366533,-0.137679501971317,0.402582192389414,0.0201574954837498,-0.00850890952950389,-0.0131114452670965,-0.103217976059608,0,-0.0180379534991547,0,0.056886356216389,0.0431221877397941,0,0,0.00685763117136223,-0.0629695880904409,0.0461902080818152,0,0,0.0655310668895701,-0.0338687205619015,-0.107519896841801,0.119825832118136,1.45668410559732,-0.0261135744852655,0,0.0703445932158944,0.0371821892289818,0.0186254968994246,0.0268299134208254,-0.0306918270856031,-0.0642044487708322,0.853727267612528,0.970944906348099,0.0117481173122808,0.00848869539643599,0.0705704174903831,0.00955294815494856,0.0287607976342537,0,0.0432913429571886,0,-0.00766753635886674,0.0560198921886114,0.0797788474440915,0.0403878614760544,0,0.023025177287346,0.0752207917250723,-0.177591157920599,-0.0800896865342896,-0.0724682699183558,-0.0286447314319973,-0.0328110934832289,0,-0.0458518327719994,0,0.917826433989611,0.940520824955888,0.842399180724829,0.889716115574352,0.995327123166375,1.06001770612578,0.925582667693267,0.8638949625366,0.938322044800536,0.883799946562389,-0.11661042415351,0.12163135933359,0.0424161280524287,0.0929334384815405,0.0135823503884472,0.0556785625673303,0.0148117368714935,0.0423448196906387,0.0785904754501183,0.14308386397961,0.098117166361508,0.0878185409434264,0.0832853688274695,0.0560001877006668,0.0596285008618387,0.0876446929293599,0.0220666333952514,0.0765794741269113,0.0423496748856246,0.0558966674425289,0.0488362703156742,0.0773692466388455,0.0892073495914017,0.0654964028978215,0.0492603299923068,0.00222292418937559,0.0854976687639259,0.101427320830301,0.122136286233703,0.0445760831901578,0.0255182392655384,0.0602796155571683,0,0.0949058099601676,0.099991508292761,0.246071380107552,0.0840460670449233,0.0845301845292944,0.140689222355642,0.0512076399758779,0.036559306593919
|coexpression_dpi_cluster_scores_median=0.0287876960505012,-0.337149901803145,-0.297761557884222,-0.337149901803145,-0.337149901803145,-0.337149901803145,-0.337149901803145,0.0346808480650007,0.153011413271348,0.0913378685245542,0.152881128923015,0.0335660615803384,0.0686313343811508,0.0363974770700186,-0.107511441879825,0.00594764403482378,0,0.104922369856568,0.0697031295035672,0.153628809860867,0.691664180937177,0.00572070691469322,0,-0.216580956594116,-0.337149901803145,-0.337149901803145,-0.337149901803145,-0.337149901803145,-0.261594393485749,-0.297761557884222,-0.297761557884222,0.165398335575286,0,-0.107511441879825,-0.297761557884222,-0.255298187526773,-0.188442784433298,-0.1218825387499,-0.132230675412567,-0.114912330834264,-0.211395720347389,-0.107511441879825,-0.0992097205542339,-0.0626969882880422,-0.0655754661109829,-0.263964483809438,0.0730959025557061,-0.0218551838256701,0.0299121052698104,-0.0303507757291216,-0.11487611622098,-0.0513445080814965,0.0625623522674417,0.129368822613767,0.125836948423969,-0.19833665409397,-0.190408134339815,-0.263287098109834,0.183172607561412,0.227340009634551,0.355110266454341,-0.107511441879825,-0.300191105459833,0.00323456926096122,0.11859361875482,0,0.00495690090805895,0.0336931463044772,0.073888499602441,0.26356739465617,0.235050521912799,0.319465399432465,0.29836056716436,0.099975891017633,0.132894068838885,0.175613044268534,0.189927076459253,0.443175035074788,0.346307943755924,0.116937602598331,0.19808148571899,0.151915667571925,0.281087299248562,0.303984538944846,0.311302112245387,0.259038638980829,0.23346783925084,0.259696586612867,-0.152434811569714,-0.131790562220115,0.00303264446560066,-0.297761557884222,-0.126262477067974,-0.274566895057098,-0.297761557884222,-0.136984931928068,0.20569496991661,-0.229415993265139,-0.236853122489647,-0.166354776192343,0.0865513540392557,-0.337149901803145,-0.337149901803145,-0.337149901803145,-0.226547108804476,-0.199685774079841,-0.120073746392242,0.0974582908774325,0.221231626711512,0.00280552794849215,0.0474939828819537,-0.0912241500813069,-0.0694006027287582,-0.0928576860918744,0.0398747938224527,-0.00856659027101864,-0.263224906203285,0.0489950407130375,0,-0.025977705418565,0,0,-0.107511441879825,0.538284922018322,0.340842228789213,-0.12906594389789,0,-0.133056322070301,0,0.477260228343498,0.948407949796628,0.559378544522779,0.9853277520659,0.879006157977799,0.548816478300125,0.659504883081709,0.00210414760035516,0.0240211054127051,0.157238680641041,0.056856039956688,0.0522056797313452,-0.0358272675210662,0.0203796046189019,0.0104845656954704,0.0616500850229957,0.04705233387661,0.106946876152523,0.141958445039028,0,0.00516981933023009,0.0498424447335493,0,0.09240708168169,0.134290245577994,0,-0.028679847039918,-0.107511441879825,-0.107511441879825,0,0,-0.0226336885149488,-0.0190088249045935,0.00204778133936362,-0.000259039902002656,-0.0230612514401634,-0.0121736965463924,-0.107511441879825,-0.0163614846126012,-0.0213684167027436,-0.0393883439189228,0,0.000748100994813372,0,-0.0604172183603243,0.835427829241243,0.335369668006983,-0.144765178707993,-0.297761557884222,0.017461505253355,-0.0555551443288829,0,-0.0922728366532103,-0.0757910148997249,-0.0105977612307955,-0.154067561773381,-0.107511441879825,0,0,-0.0357011295474567,-0.111352887386016,-0.117815262352911,-0.0943414018177263,0,0,-0.00936661735861039,0,0.0323954837288791,0,-0.0201273780664695,0,0,-0.021234257635073,-0.22439324970705,-0.0343088242621821,-0.107511441879825,-0.107511441879825,-0.0397374879211063,-0.107511441879825,-0.107511441879825,-0.297761557884222,-0.165012545486507,-0.147064048470905,-0.107511441879825,-0.160362833065501,-0.168218914152682,-0.199956473900986,-0.182012833402772,-0.297761557884222,0,0,0.0187322976332871,0,0,0.0449574608694999,-0.0539269873852877,-0.0976224455503708,-0.014218532778758,-0.107511441879825,-0.0834956331275067,-0.0788446347740686,-0.0313900635742839,-0.0957529903675854,-0.177178394962164,-0.0174586439168212,-0.000323102860992519,0,0.423265898262678,0.287285080795099,-0.174606034430602,-0.107511441879825,-0.215169492043774,-0.132460702211783,-0.027853354234642,-0.0144510725882343,-0.0120462807986315,-0.107511441879825,-0.107511441879825,0,0.00247310337926415,0.591413908805273,0.0576433181427177,0.0178716320488482,-0.0419739415236739,0.0860470054934124,-0.297761557884222,-0.0131169640144257,-0.0439388025838878,-0.062839028887984,-0.061629933587156,-0.101167552292007,-0.0836509344244576,0.000563471462508014,-0.107511441879825,-0.107511441879825,-0.131252569077317,-0.268704913918651,0.0945672710287596,0.0203783072601981,-0.0177501463687038,0.0381460039696979,0.0709019855629759,0.0712812415377886,0.0160455760708429,0.115432414129512,-0.0159599452798338,-0.0489463306590204,0,0.174542051472679,0.0306692172876902,0.0254340553719351,-0.0324313249744819,0.0382669107366533,-0.137679501971317,0.402582192389414,0.0201574954837498,-0.00850890952950389,-0.0131114452670965,-0.103217976059608,0,-0.0180379534991547,0,0.056886356216389,0.0431221877397941,0,0,0.00685763117136223,-0.0629695880904409,0.0461902080818152,0,0,0.0655310668895701,-0.0338687205619015,-0.107519896841801,0.119825832118136,1.45668410559732,-0.0261135744852655,0,0.0703445932158944,0.0371821892289818,0.0186254968994246,0.0268299134208254,-0.0306918270856031,-0.0642044487708322,0.853727267612528,0.970944906348099,0.0117481173122808,0.00848869539643599,0.0705704174903831,0.00955294815494856,0.0287607976342537,0,0.0432913429571886,0,-0.00766753635886674,0.0560198921886114,0.0797788474440915,0.0403878614760544,0,0.023025177287346,0.0752207917250723,-0.177591157920599,-0.0800896865342896,-0.0724682699183558,-0.0286447314319973,-0.0328110934832289,0,-0.0458518327719994,0,0.917826433989611,0.940520824955888,0.842399180724829,0.889716115574352,0.995327123166375,1.06001770612578,0.925582667693267,0.8638949625366,0.938322044800536,0.883799946562389,-0.11661042415351,0.12163135933359,0.0424161280524287,0.0929334384815405,0.0135823503884472,0.0556785625673303,0.0148117368714935,0.0423448196906387,0.0785904754501183,0.14308386397961,0.098117166361508,0.0878185409434264,0.0832853688274695,0.0560001877006668,0.0596285008618387,0.0876446929293599,0.0220666333952514,0.0765794741269113,0.0423496748856246,0.0558966674425289,0.0488362703156742,0.0773692466388455,0.0892073495914017,0.0654964028978215,0.0492603299923068,0.00222292418937559,0.0854976687639259,0.101427320830301,0.122136286233703,0.0445760831901578,0.0255182392655384,0.0602796155571683,0,0.0949058099601676,0.099991508292761,0.246071380107552,0.0840460670449233,0.0845301845292944,0.140689222355642,0.0512076399758779,0.036559306593919
|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000117!2.58e-11!23;CL:0000337!2.58e-11!23
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000073!1.22e-22!54;UBERON:0001049!1.55e-21!52;UBERON:0005068!1.55e-21!52;UBERON:0006241!1.55e-21!52;UBERON:0007135!1.55e-21!52;UBERON:0002346!1.81e-19!64;UBERON:0003075!1.81e-19!64;UBERON:0007284!1.81e-19!64;UBERON:0010371!2.94e-19!73;UBERON:0000955!6.96e-19!47;UBERON:0006238!6.96e-19!47;UBERON:0001017!1.89e-18!73;UBERON:0002616!2.92e-18!46;UBERON:0004121!4.83e-18!95;UBERON:0000924!4.83e-18!95;UBERON:0006601!4.83e-18!95;UBERON:0002020!3.45e-17!34;UBERON:0001016!6.28e-17!75;UBERON:0003056!9.93e-17!49;UBERON:0003080!2.14e-16!40;UBERON:0002780!8.26e-16!39;UBERON:0001890!8.26e-16!39;UBERON:0006240!8.26e-16!39;UBERON:0003528!1.21e-14!29;UBERON:0002791!1.21e-14!29;UBERON:0001893!1.21e-14!29;UBERON:0010314!7.36e-12!92;UBERON:0000956!1.04e-10!21;UBERON:0001869!1.04e-10!21;UBERON:0000203!1.04e-10!21;UBERON:0002619!5.87e-09!17;UBERON:0002021!5.88e-08!10;UBERON:0000411!5.88e-08!10;UBERON:0001950!5.88e-08!10
}}
}}

Revision as of 16:10, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:124826487..124826609,-p@chr10:124826487..124826609
-
Mm9::chr11:6289445..6289456,+p4@Zmiz2
Mm9::chr16:4879849..4879864,-p4@Fam100a
Mm9::chr16:4879872..4879892,-p5@Fam100a
Mm9::chr1:67085323..67085334,-p5@Lancl1
Mm9::chr7:25184625..25184692,+p1@1500002O20Rik
Mm9::chr9:45216351..45216393,+p@chr9:45216351..45216393
+


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


no results for this coexpression

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><br>


Cell Type
Ontology termp-valuen
CNS neuron (sensu Vertebrata)2.58e-1123
neuroblast (sensu Vertebrata)2.58e-1123

Uber Anatomy
Ontology termp-valuen
regional part of nervous system1.22e-2254
neural tube1.55e-2152
neural rod1.55e-2152
future spinal cord1.55e-2152
neural keel1.55e-2152
neurectoderm1.81e-1964
neural plate1.81e-1964
presumptive neural plate1.81e-1964
ecto-epithelium2.94e-1973
brain6.96e-1947
future brain6.96e-1947
central nervous system1.89e-1873
regional part of brain2.92e-1846
ectoderm-derived structure4.83e-1895
ectoderm4.83e-1895
presumptive ectoderm4.83e-1895
gray matter3.45e-1734
nervous system6.28e-1775
pre-chordal neural plate9.93e-1749
anterior neural tube2.14e-1640
regional part of forebrain8.26e-1639
forebrain8.26e-1639
future forebrain8.26e-1639
brain grey matter1.21e-1429
regional part of telencephalon1.21e-1429
telencephalon1.21e-1429
structure with developmental contribution from neural crest7.36e-1292
cerebral cortex1.04e-1021
cerebral hemisphere1.04e-1021
pallium1.04e-1021
regional part of cerebral cortex5.87e-0917
occipital lobe5.88e-0810
visual cortex5.88e-0810
neocortex5.88e-0810


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}}}