Personal tools

MCL coexpression mm9:346: 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=0.274143771310022,-0.0613317376939059,-0.0487135621915458,-0.141391268161475,-0.0995723379109222,-0.0793293692173899,-0.0753680434941335,-0.165330802874595,-0.119120955301875,-0.174516904275092,-0.191663854299853,-0.172900447947601,-0.191840180790097,-0.156711981004192,-0.0758949482900413,-0.0758949482900413,-0.05999481016356,-0.174516904275092,-0.131408484865993,-0.16933900918271,0.575095336740098,-0.032242953797344,-0.0370412549453538,-0.0361779381504861,-0.04127526969897,-0.0724313969442674,-0.0216741516644596,-0.0664489273945399,-0.109561451244465,-0.0730901405271147,-0.0729533157522625,-0.0724313969442674,0,-0.19928449730601,-0.0305199154848404,-0.0309533658693099,-0.0487464937775536,-0.0880035555878401,-0.122809522061153,-0.142578802040428,-0.0758949482900413,-0.122809522061153,-0.0868278836922451,0.00799636777300358,0,0.00064046292267371,0.358048842573642,0.615313046204678,0.565763211523612,0.642245788237919,0.36552815354084,0.757424903196604,-0.119300283483768,-0.125361081961465,-0.125998241354308,0,0.0129733432295637,0,0.161615992107725,0.217842976818549,0.161968422755962,0.117828225815712,0.276299728348189,0,0,0.110308507632463,0.690389613359093,1.1358437722535,0,0.0370039807451175,0.0242544909213291,0.261072892811981,0.28978618008614,0.0525995065673548,0.00529941301631746,0.058505004230913,0.156130427931366,0.171806315025634,0.215590178543103,0.153698739520084,0.163590153725977,0.187096754734128,0.148572903473445,0.327466262382121,0.260705710369896,0.261280754201699,0.195481483838292,0.117992494602756,-0.0094032596656197,0.0167343852500043,0.0133460077602596,-0.0758949482900413,-0.122809522061153,-0.0359522460741798,-0.0758949482900413,-0.0457402772962424,0.136842222572385,0.0276799381079292,0.0524705369097724,0.0537703332723078,0.242763397387744,-0.06083574878538,-0.0758949482900413,-0.191840180790097,0.0538115657300317,0,0,0.0882183978186913,-0.111572026059855,0,0.038632067748183,0,0.0241520482903545,0.0363360059392162,0.0064488734852941,0.00894425503085682,-0.0724313969442674,-0.0135293257918408,-0.0724313969442674,-0.0113912998935682,-0.0213493854656039,-0.0597339331132211,-0.101117910894242,0.208175404131021,0.18383860139742,-0.0546401249554852,-0.0592376834692105,-0.00626097756028315,-0.0724313969442674,0.175012370227116,0.269498697427049,0.105060120248047,0.107604926826283,0.10067032237911,0.216797209927098,0.17405485253033,0.00430304663688832,0.0459320272401849,0.171943968208729,-0.0543480142699874,0.0252802822667428,0.0949273515606787,0.0629548454091596,0.0801185068175448,0.0603271198404585,0.0640560735590278,0.118068943367908,0.0960879531332609,0,-0.01487655294492,-0.0204726393846247,0,0,-0.0371629695750973,-0.00854339580009265,0.0221930651491758,-0.0724313969442674,-0.0135297058032817,-0.0329964297379311,-0.0295861202147966,-0.0385779190089006,-0.0447948008419502,-0.0609590576854875,-0.0125243279858154,-0.00177708847849034,-0.0021023707469568,-0.0281847331026643,0.0187185603229567,-0.0639072317897013,-0.05769217449777,-0.0278126998530406,-0.0328731492863336,-0.0127185032156995,0,0.253569429861445,0.182183406853352,-0.122809522061153,-0.0346830641249996,-0.0009037519557423,0.0064960443053989,-0.07007831559396,-0.0602703203040049,-0.0513831238416953,-0.00160114912391286,-0.00161861629290953,-0.0600700348724467,-0.0593585510429215,-0.0677699487587452,-0.020979194990824,-0.0145458982228119,-0.00130651616153876,-0.0156387978860275,0.00263495118355618,0.015928498745001,-0.03306940425805,0.00808796904670394,0.0196920688596609,0.000241741439696908,0.0401656152881281,0.0190341462833251,0.0674824325846257,0.110095036838073,-0.0655192045676434,-0.0565490835769877,-0.101664695106661,-0.0810071700088764,-0.0891238822926946,-0.0784441944306177,-0.0760026722690997,-0.0799294874910412,-0.0758949482900413,-0.104454927595204,-0.106796024603615,-0.0724313969442674,-0.0603728180618411,-0.0790848751619159,-0.0724313969442674,-0.0724313969442674,0.18129339557419,0.00572399172148765,-0.0285082215056498,0.0141342611205944,0.098169860015513,0.125485336951101,0.162273596720024,0.0982044829386565,0.0767010756897148,0,0.0226846873352546,0.0832109084909111,0.115076912317357,0.0930448476701539,-0.0724313969442674,-0.0292888735708771,-0.0378761266704526,-0.0670160851225502,0.165444442799909,0.123743292215522,0,-0.00745345199935345,-0.00783340259562525,0.0576721453662385,0.0196789378020912,0.0237600121427807,0,0,0,0.0102935998357962,0.0784757471354434,0.185080080498453,0.12740003259415,0.102369561796365,0.017187423858736,0.24620320099037,-0.0724313969442674,0,0.0012362509701625,-0.0329651265927704,0.0328061047777519,0.0157347105691114,-0.00480834096941732,0.00586419837649155,0,0.00310129765310665,0,-0.0753680434941335,0.288941799213233,0.0662511375294315,0.206581249847199,0.139672579981147,0.230778883824253,0.257893362773035,0.203701761577531,0.288640604255283,-0.0668512613854697,-0.0307210337532368,0,-0.0631275325822778,-0.021470265731332,-0.0644380206547072,-0.0310447664432428,-0.0512266824203831,-0.0085725675107911,0.170426834273887,-0.0850914680335091,-0.0119460208377325,-0.049763244680401,-0.0758949482900413,-0.0793161386185981,-0.0798655208020397,-0.0421497172529022,-0.00878142496784806,-0.0639039923208867,0.0432412471263196,0,-0.0378459493073669,-0.00843050528741255,0,0,0,0,0,0,0.0077784305994497,1.09080835651994,-0.00846675299249802,0.0464190248327727,0.0411017995429442,0.0486208365813161,0.0534305525745286,0.0074453050920755,0.00245903766425537,0.0297945297719645,0.710498258972692,0.857720454149748,-0.10845551820091,0,-0.00565329654561505,-0.0608609463391531,-0.0829308209196551,-0.107207404141051,-0.0873321237336389,-0.0701991805575322,-0.108319809615267,-0.0631364120114127,-0.114178755701249,-0.104639520572507,-0.116689197619378,-0.093721679702836,0,0,-0.053775160272095,-0.0530330898036875,0.0177511240435237,0,0.0317196975817474,-0.0364791508700876,0.00487937107645901,0.193777127702715,0.139422964802155,0.107846755457163,0.1537856971605,0.181156500162682,0.222931386483753,0.108329963065243,0.189332224906565,0.20346757753109,0.134469520142334,-0.0079925803385141,0,0,0.0219318941735845,-0.0199862667423127,0.0177448773356918,0.00262618554434359,0.00420081519786436,0.0453532611643982,0,0.010790484050413,-0.00230205523466898,0.0242258216408552,0.0269518943326477,0.0472245945615809,0.0397218056926402,0.0351650714947024,0.0240628345019785,0.0587100509501709,-0.00191359707102989,-0.0261632676326327,0.00674467238781965,0,0,0.0069696729557744,0.0166933354717478,0,0,0.0082681382391191,0,0.0395306744970229,0.0031600887323033,0,0.0014550799636551,0.0280229971648591,0.103550161649305,0.0266182600813184,0,-0.0325930417241315,0,0
|coexpression_dpi_cluster_scores_median=0.274143771310022,-0.0613317376939059,-0.0487135621915458,-0.141391268161475,-0.0995723379109222,-0.0793293692173899,-0.0753680434941335,-0.165330802874595,-0.119120955301875,-0.174516904275092,-0.191663854299853,-0.172900447947601,-0.191840180790097,-0.156711981004192,-0.0758949482900413,-0.0758949482900413,-0.05999481016356,-0.174516904275092,-0.131408484865993,-0.16933900918271,0.575095336740098,-0.032242953797344,-0.0370412549453538,-0.0361779381504861,-0.04127526969897,-0.0724313969442674,-0.0216741516644596,-0.0664489273945399,-0.109561451244465,-0.0730901405271147,-0.0729533157522625,-0.0724313969442674,0,-0.19928449730601,-0.0305199154848404,-0.0309533658693099,-0.0487464937775536,-0.0880035555878401,-0.122809522061153,-0.142578802040428,-0.0758949482900413,-0.122809522061153,-0.0868278836922451,0.00799636777300358,0,0.00064046292267371,0.358048842573642,0.615313046204678,0.565763211523612,0.642245788237919,0.36552815354084,0.757424903196604,-0.119300283483768,-0.125361081961465,-0.125998241354308,0,0.0129733432295637,0,0.161615992107725,0.217842976818549,0.161968422755962,0.117828225815712,0.276299728348189,0,0,0.110308507632463,0.690389613359093,1.1358437722535,0,0.0370039807451175,0.0242544909213291,0.261072892811981,0.28978618008614,0.0525995065673548,0.00529941301631746,0.058505004230913,0.156130427931366,0.171806315025634,0.215590178543103,0.153698739520084,0.163590153725977,0.187096754734128,0.148572903473445,0.327466262382121,0.260705710369896,0.261280754201699,0.195481483838292,0.117992494602756,-0.0094032596656197,0.0167343852500043,0.0133460077602596,-0.0758949482900413,-0.122809522061153,-0.0359522460741798,-0.0758949482900413,-0.0457402772962424,0.136842222572385,0.0276799381079292,0.0524705369097724,0.0537703332723078,0.242763397387744,-0.06083574878538,-0.0758949482900413,-0.191840180790097,0.0538115657300317,0,0,0.0882183978186913,-0.111572026059855,0,0.038632067748183,0,0.0241520482903545,0.0363360059392162,0.0064488734852941,0.00894425503085682,-0.0724313969442674,-0.0135293257918408,-0.0724313969442674,-0.0113912998935682,-0.0213493854656039,-0.0597339331132211,-0.101117910894242,0.208175404131021,0.18383860139742,-0.0546401249554852,-0.0592376834692105,-0.00626097756028315,-0.0724313969442674,0.175012370227116,0.269498697427049,0.105060120248047,0.107604926826283,0.10067032237911,0.216797209927098,0.17405485253033,0.00430304663688832,0.0459320272401849,0.171943968208729,-0.0543480142699874,0.0252802822667428,0.0949273515606787,0.0629548454091596,0.0801185068175448,0.0603271198404585,0.0640560735590278,0.118068943367908,0.0960879531332609,0,-0.01487655294492,-0.0204726393846247,0,0,-0.0371629695750973,-0.00854339580009265,0.0221930651491758,-0.0724313969442674,-0.0135297058032817,-0.0329964297379311,-0.0295861202147966,-0.0385779190089006,-0.0447948008419502,-0.0609590576854875,-0.0125243279858154,-0.00177708847849034,-0.0021023707469568,-0.0281847331026643,0.0187185603229567,-0.0639072317897013,-0.05769217449777,-0.0278126998530406,-0.0328731492863336,-0.0127185032156995,0,0.253569429861445,0.182183406853352,-0.122809522061153,-0.0346830641249996,-0.0009037519557423,0.0064960443053989,-0.07007831559396,-0.0602703203040049,-0.0513831238416953,-0.00160114912391286,-0.00161861629290953,-0.0600700348724467,-0.0593585510429215,-0.0677699487587452,-0.020979194990824,-0.0145458982228119,-0.00130651616153876,-0.0156387978860275,0.00263495118355618,0.015928498745001,-0.03306940425805,0.00808796904670394,0.0196920688596609,0.000241741439696908,0.0401656152881281,0.0190341462833251,0.0674824325846257,0.110095036838073,-0.0655192045676434,-0.0565490835769877,-0.101664695106661,-0.0810071700088764,-0.0891238822926946,-0.0784441944306177,-0.0760026722690997,-0.0799294874910412,-0.0758949482900413,-0.104454927595204,-0.106796024603615,-0.0724313969442674,-0.0603728180618411,-0.0790848751619159,-0.0724313969442674,-0.0724313969442674,0.18129339557419,0.00572399172148765,-0.0285082215056498,0.0141342611205944,0.098169860015513,0.125485336951101,0.162273596720024,0.0982044829386565,0.0767010756897148,0,0.0226846873352546,0.0832109084909111,0.115076912317357,0.0930448476701539,-0.0724313969442674,-0.0292888735708771,-0.0378761266704526,-0.0670160851225502,0.165444442799909,0.123743292215522,0,-0.00745345199935345,-0.00783340259562525,0.0576721453662385,0.0196789378020912,0.0237600121427807,0,0,0,0.0102935998357962,0.0784757471354434,0.185080080498453,0.12740003259415,0.102369561796365,0.017187423858736,0.24620320099037,-0.0724313969442674,0,0.0012362509701625,-0.0329651265927704,0.0328061047777519,0.0157347105691114,-0.00480834096941732,0.00586419837649155,0,0.00310129765310665,0,-0.0753680434941335,0.288941799213233,0.0662511375294315,0.206581249847199,0.139672579981147,0.230778883824253,0.257893362773035,0.203701761577531,0.288640604255283,-0.0668512613854697,-0.0307210337532368,0,-0.0631275325822778,-0.021470265731332,-0.0644380206547072,-0.0310447664432428,-0.0512266824203831,-0.0085725675107911,0.170426834273887,-0.0850914680335091,-0.0119460208377325,-0.049763244680401,-0.0758949482900413,-0.0793161386185981,-0.0798655208020397,-0.0421497172529022,-0.00878142496784806,-0.0639039923208867,0.0432412471263196,0,-0.0378459493073669,-0.00843050528741255,0,0,0,0,0,0,0.0077784305994497,1.09080835651994,-0.00846675299249802,0.0464190248327727,0.0411017995429442,0.0486208365813161,0.0534305525745286,0.0074453050920755,0.00245903766425537,0.0297945297719645,0.710498258972692,0.857720454149748,-0.10845551820091,0,-0.00565329654561505,-0.0608609463391531,-0.0829308209196551,-0.107207404141051,-0.0873321237336389,-0.0701991805575322,-0.108319809615267,-0.0631364120114127,-0.114178755701249,-0.104639520572507,-0.116689197619378,-0.093721679702836,0,0,-0.053775160272095,-0.0530330898036875,0.0177511240435237,0,0.0317196975817474,-0.0364791508700876,0.00487937107645901,0.193777127702715,0.139422964802155,0.107846755457163,0.1537856971605,0.181156500162682,0.222931386483753,0.108329963065243,0.189332224906565,0.20346757753109,0.134469520142334,-0.0079925803385141,0,0,0.0219318941735845,-0.0199862667423127,0.0177448773356918,0.00262618554434359,0.00420081519786436,0.0453532611643982,0,0.010790484050413,-0.00230205523466898,0.0242258216408552,0.0269518943326477,0.0472245945615809,0.0397218056926402,0.0351650714947024,0.0240628345019785,0.0587100509501709,-0.00191359707102989,-0.0261632676326327,0.00674467238781965,0,0,0.0069696729557744,0.0166933354717478,0,0,0.0082681382391191,0,0.0395306744970229,0.0031600887323033,0,0.0014550799636551,0.0280229971648591,0.103550161649305,0.0266182600813184,0,-0.0325930417241315,0,0
|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000221!4.50e-14!44;CL:0000133!4.50e-14!44;CL:0002319!1.59e-13!43;CL:0000055!9.44e-13!49;CL:0000117!3.41e-09!23;CL:0000337!3.41e-09!23;CL:0000540!4.47e-09!33;CL:0000047!4.47e-09!33;CL:0000031!4.47e-09!33;CL:0000404!4.47e-09!33;CL:0000393!1.83e-08!39;CL:0000211!1.83e-08!39;CL:0002453!9.13e-07!8
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!2.25e-30!73;UBERON:0001016!7.33e-30!75;UBERON:0004121!2.22e-26!95;UBERON:0000924!2.22e-26!95;UBERON:0006601!2.22e-26!95;UBERON:0002346!7.94e-25!64;UBERON:0003075!7.94e-25!64;UBERON:0007284!7.94e-25!64;UBERON:0000073!8.26e-25!54;UBERON:0001049!9.62e-24!52;UBERON:0005068!9.62e-24!52;UBERON:0006241!9.62e-24!52;UBERON:0007135!9.62e-24!52;UBERON:0010371!4.06e-21!73;UBERON:0000955!7.14e-21!47;UBERON:0006238!7.14e-21!47;UBERON:0002616!2.40e-20!46;UBERON:0010314!8.98e-19!92;UBERON:0003056!2.96e-18!49;UBERON:0003080!4.49e-17!40;UBERON:0002780!1.35e-16!39;UBERON:0001890!1.35e-16!39;UBERON:0006240!1.35e-16!39;UBERON:0002020!3.42e-14!34;UBERON:0003528!1.46e-11!29;UBERON:0002791!1.46e-11!29;UBERON:0001893!1.46e-11!29;UBERON:0004111!3.26e-09!122;UBERON:0000025!1.72e-08!114;UBERON:0000956!6.41e-08!21;UBERON:0001869!6.41e-08!21;UBERON:0000203!6.41e-08!21;UBERON:0002619!8.22e-08!17;UBERON:0003076!2.54e-07!12;UBERON:0003057!2.54e-07!12
}}
}}

Revision as of 20:06, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:128333291..128333302,+p@chr10:128333291..128333302
+
Mm9::chr10:128333303..128333314,+p@chr10:128333303..128333314
+
Mm9::chr10:77815068..77815204,-p1@Agpat3
Mm9::chr11:105927236..105927268,-p1@uc007lya.1
Mm9::chr11:61318640..61318712,+p1@B9d1
Mm9::chr11:68884292..68884358,+p1@Tmem107
Mm9::chr12:77505391..77505413,+p2@Hspa2
Mm9::chr12:81536158..81536222,+p@chr12:81536158..81536222
+
Mm9::chr15:79604813..79604824,-p2@Dnalc4
Mm9::chr16:90935110..90935130,-p3@1110004E09Rik
Mm9::chr17:56970339..56970428,-p1@Rfx2
Mm9::chr2:105843510..105843543,+p1@ENSMUST00000126340
p1@uc008lli.1
Mm9::chr2:112333409..112333437,-p@chr2:112333409..112333437
-
Mm9::chr2:131000557..131000573,-p1@Spef1
Mm9::chr2:70347324..70347350,-p1@ENSMUST00000150702
Mm9::chr5:117737598..117737632,-p1@Pebp1
Mm9::chr5:137384000..137384044,+p1@Rabl5
Mm9::chr7:148068151..148068171,-p4@Sirt3
Mm9::chr7:4484021..4484072,-p1@6030429G01Rik
Mm9::chr8:108225042..108225090,+p1@Pard6a
Mm9::chr8:13705884..13705952,+p1@4932443I19Rik
Mm9::chr9:21921567..21921618,-p1@Elof1


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>

Uber Anatomy
Ontology termp-valuen
central nervous system2.25e-3073
nervous system7.33e-3075
ectoderm-derived structure2.22e-2695
ectoderm2.22e-2695
presumptive ectoderm2.22e-2695
neurectoderm7.94e-2564
neural plate7.94e-2564
presumptive neural plate7.94e-2564
regional part of nervous system8.26e-2554
neural tube9.62e-2452
neural rod9.62e-2452
future spinal cord9.62e-2452
neural keel9.62e-2452
ecto-epithelium4.06e-2173
brain7.14e-2147
future brain7.14e-2147
regional part of brain2.40e-2046
structure with developmental contribution from neural crest8.98e-1992
pre-chordal neural plate2.96e-1849
anterior neural tube4.49e-1740
regional part of forebrain1.35e-1639
forebrain1.35e-1639
future forebrain1.35e-1639
gray matter3.42e-1434
brain grey matter1.46e-1129
regional part of telencephalon1.46e-1129
telencephalon1.46e-1129
anatomical conduit3.26e-09122
tube1.72e-08114
cerebral cortex6.41e-0821
cerebral hemisphere6.41e-0821
pallium6.41e-0821
regional part of cerebral cortex8.22e-0817
posterior neural tube2.54e-0712
chordal neural plate2.54e-0712


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}}}

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:346&oldid=2155799"