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MCL coexpression mm9:316: Difference between revisions

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|coexpression_dpi_cluster_scores_median=-0.128581538312666,-0.133428863758294,0,-0.196086850610712,-0.100534820121801,0,-0.0462224118648004,0.687858766284809,0.333885207342093,0.369731694620629,0.127893569522672,0.0649013181965294,0.638704132210884,0.659870565773688,0.300249281763686,0.289562517118512,0.142981779596723,0.708775037660058,0.640466009142189,0.530252522294619,0.0672635927311764,0.291880607581561,0.317582984573239,0.29224599754879,0.290298783727395,0,0,0.0847446845832032,-0.15376688957156,-0.0937758136316402,0.0161351108121695,-0.053308595260546,-0.0283772204727167,-0.343583024762704,-0.0354212655589763,-0.0637726561757277,-0.105048357738837,0.936811392837821,0.754960509080355,0.750996557289418,0.906269184425653,0.810525794932964,0.80213130728895,-0.0569352014375358,0,0,0.0127149282237886,-0.0574956027476456,0,-0.0284648049415475,0,-0.143151860801801,0.568473668996045,0.683232886086979,0.673893835723029,0,0.156534517998826,0.0294879473542291,-0.183983090388056,-0.0924804189843046,-0.102270902098764,0,0,1.03738254392338,1.03697458171985,1.08531210049307,0.632516729472937,0.519595643970425,-0.193309581534965,-0.208434762384046,-0.151792140112695,-0.0518976149864148,0,-0.228320844469951,-0.181511270886109,-0.180035407311149,-0.143151860801801,-0.0490032313374413,-0.111620225763683,-0.144280099622389,-0.143151860801801,-0.143151860801801,0,-0.0666433699178848,0,-0.062238716436988,-0.0683554828145461,-0.137152607370607,-0.0928608436913061,-0.0544082982147067,0.1771496139494,0,-0.237858022280525,-0.196086850610712,-0.063022569056871,-0.102656270184292,0.0570741246689917,-0.00920880800434987,0,-0.011745079109921,-0.181787203910269,0,0,0,-0.120644582134994,-0.0980110668063307,-0.0724669433150755,0.0469568706916304,0.613551625079963,0.147642918047921,-0.0189838725874829,0,-0.0311797535912941,0,0,-0.00904353949917946,0,0.195928170476557,0.457358487459159,0.0981487244137691,0.22076806852419,0.272186763511546,0,-0.15124117170439,-0.13183790123495,0.1792397770908,0.468634049675341,0.351707060452094,0.370421799021391,-0.0595402833706155,0,-0.166068430569554,-0.0829690725818377,-0.0971956103426619,-0.00486670764337704,-0.0347014347885331,0.00767474968900267,0.261022566345495,0,0,-0.143151860801801,-0.150947334333926,-0.125960104793412,-0.0816728326731181,-0.0711075882194165,-0.12218976409914,-0.104252963886881,-0.0767871125180022,-0.119942180558236,-0.0682757081836665,-0.080256761663407,-0.0214858681989527,-0.0115444596318978,0,0,-0.0238709119079061,0.580794183103832,0.463691927318088,0.432164218352352,-0.0978519579104834,-0.0552653279880524,-0.0615616537762147,-0.0303773075397223,-0.0273807758488476,-0.011877494736202,-0.0759236840665538,-0.032185809250318,-0.00955982706020153,0,0.0206563885909555,0.0338533374824575,0.0422102014902486,0.158091042771083,0.108327558991915,-0.0529682242676361,-0.143151860801801,0.123988367667141,-0.0344976569636281,-0.143732629122485,-0.0900673876431067,-0.0413558280237908,-0.0482259945082513,-0.0395680745033644,-0.0469902488046816,0.0169534357739238,-0.0231908524970401,0.0508209461208384,0,0.0763987844867433,0.0150507660402509,0.0509217220267399,0.0407062067672211,-0.0677261169828655,-0.0537777516196763,-0.0474955517445554,-0.0695992570237334,-0.0562072149623642,-0.0115297602727426,-0.0387372726482794,-0.023212999080348,-0.0279707628062753,-0.0453464048014174,0,0.00400298816533973,0,0.0206291243722488,0.0802151268900158,0.0242197662118635,0.098514232005992,0.109813392994768,0.21206889443673,0.0718321922122871,0.386977062110387,0.192120607019931,0.143630372894253,0.0703696134092282,0,0,0.363423840386974,-0.067790550060422,-0.033672479764195,0,0,0.0957177406672796,0.225296015556006,0.163425832261611,0.250038696524536,0.224484952729517,0.243363676809991,0.320432673578803,0.334132217135777,0.279861245435839,0.931435707728433,1.02494083047763,0.0716760170267468,0.122690371707268,0,-0.0652274022888229,-0.203166130169297,0.0680915086553373,-0.091159136129157,-0.018163794570256,0,0,0,0,-0.0447229182312464,0,-0.0514230605747811,-0.0614314693070901,0.0563284124011882,0.00794421473898854,0,0.176397149114515,0,-0.0734962363817817,-0.0632390110909692,-0.0476804801743747,0.0752641004229301,0.01981293914464,0.0652285870013356,0.112606010776186,0,0.072239492965668,0,0,-0.0874015261615655,-0.0712473686534414,0,0,-0.0779362512064676,-0.00994835336213412,-0.00270695600762416,0,0.0915514965999916,-0.000259857786057083,0,0.101884711473079,0.0650059127791652,0.000862589904960465,-0.000627082732590711,-0.0351814381735585,0.0767852743172429,0,0.384765374964182,0.209289928385081,0.191893350882575,0.23384787021513,0.331603960677122,0.348542322929356,0.318832068381244,0.320949741524965,0.337811195715362,0,-0.132794176816799,-0.02432425331135,-0.0950677911105092,-0.0371163740451575,-0.0573753147025067,0,0.0358218736867703,0.0363844222647935,0,0.0927363205676219,-0.205414215686311,-0.0826366339534575,-0.101844761540112,-0.0815036763472627,-0.00863927764949923,-0.1149053174281,-0.0686780069485106,-0.0719040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|coexpression_dpi_cluster_scores_median=-0.128581538312666,-0.133428863758294,0,-0.196086850610712,-0.100534820121801,0,-0.0462224118648004,0.687858766284809,0.333885207342093,0.369731694620629,0.127893569522672,0.0649013181965294,0.638704132210884,0.659870565773688,0.300249281763686,0.289562517118512,0.142981779596723,0.708775037660058,0.640466009142189,0.530252522294619,0.0672635927311764,0.291880607581561,0.317582984573239,0.29224599754879,0.290298783727395,0,0,0.0847446845832032,-0.15376688957156,-0.0937758136316402,0.0161351108121695,-0.053308595260546,-0.0283772204727167,-0.343583024762704,-0.0354212655589763,-0.0637726561757277,-0.105048357738837,0.936811392837821,0.754960509080355,0.750996557289418,0.906269184425653,0.810525794932964,0.80213130728895,-0.0569352014375358,0,0,0.0127149282237886,-0.0574956027476456,0,-0.0284648049415475,0,-0.143151860801801,0.568473668996045,0.683232886086979,0.673893835723029,0,0.156534517998826,0.0294879473542291,-0.183983090388056,-0.0924804189843046,-0.102270902098764,0,0,1.03738254392338,1.03697458171985,1.08531210049307,0.632516729472937,0.519595643970425,-0.193309581534965,-0.208434762384046,-0.151792140112695,-0.0518976149864148,0,-0.228320844469951,-0.181511270886109,-0.180035407311149,-0.143151860801801,-0.0490032313374413,-0.111620225763683,-0.144280099622389,-0.143151860801801,-0.143151860801801,0,-0.0666433699178848,0,-0.062238716436988,-0.0683554828145461,-0.137152607370607,-0.0928608436913061,-0.0544082982147067,0.1771496139494,0,-0.237858022280525,-0.196086850610712,-0.063022569056871,-0.102656270184292,0.0570741246689917,-0.00920880800434987,0,-0.011745079109921,-0.181787203910269,0,0,0,-0.120644582134994,-0.0980110668063307,-0.0724669433150755,0.0469568706916304,0.613551625079963,0.147642918047921,-0.0189838725874829,0,-0.0311797535912941,0,0,-0.00904353949917946,0,0.195928170476557,0.457358487459159,0.0981487244137691,0.22076806852419,0.272186763511546,0,-0.15124117170439,-0.13183790123495,0.1792397770908,0.468634049675341,0.351707060452094,0.370421799021391,-0.0595402833706155,0,-0.166068430569554,-0.0829690725818377,-0.0971956103426619,-0.00486670764337704,-0.0347014347885331,0.00767474968900267,0.261022566345495,0,0,-0.143151860801801,-0.150947334333926,-0.125960104793412,-0.0816728326731181,-0.0711075882194165,-0.12218976409914,-0.104252963886881,-0.0767871125180022,-0.119942180558236,-0.0682757081836665,-0.080256761663407,-0.0214858681989527,-0.0115444596318978,0,0,-0.0238709119079061,0.580794183103832,0.463691927318088,0.432164218352352,-0.0978519579104834,-0.0552653279880524,-0.0615616537762147,-0.0303773075397223,-0.0273807758488476,-0.011877494736202,-0.0759236840665538,-0.032185809250318,-0.00955982706020153,0,0.0206563885909555,0.0338533374824575,0.0422102014902486,0.158091042771083,0.108327558991915,-0.0529682242676361,-0.143151860801801,0.123988367667141,-0.0344976569636281,-0.143732629122485,-0.0900673876431067,-0.0413558280237908,-0.0482259945082513,-0.0395680745033644,-0.0469902488046816,0.0169534357739238,-0.0231908524970401,0.0508209461208384,0,0.0763987844867433,0.0150507660402509,0.0509217220267399,0.0407062067672211,-0.0677261169828655,-0.0537777516196763,-0.0474955517445554,-0.0695992570237334,-0.0562072149623642,-0.0115297602727426,-0.0387372726482794,-0.023212999080348,-0.0279707628062753,-0.0453464048014174,0,0.00400298816533973,0,0.0206291243722488,0.0802151268900158,0.0242197662118635,0.098514232005992,0.109813392994768,0.21206889443673,0.0718321922122871,0.386977062110387,0.192120607019931,0.143630372894253,0.0703696134092282,0,0,0.363423840386974,-0.067790550060422,-0.033672479764195,0,0,0.0957177406672796,0.225296015556006,0.163425832261611,0.250038696524536,0.224484952729517,0.243363676809991,0.320432673578803,0.334132217135777,0.279861245435839,0.931435707728433,1.02494083047763,0.0716760170267468,0.122690371707268,0,-0.0652274022888229,-0.203166130169297,0.0680915086553373,-0.091159136129157,-0.018163794570256,0,0,0,0,-0.0447229182312464,0,-0.0514230605747811,-0.0614314693070901,0.0563284124011882,0.00794421473898854,0,0.176397149114515,0,-0.0734962363817817,-0.0632390110909692,-0.0476804801743747,0.0752641004229301,0.01981293914464,0.0652285870013356,0.112606010776186,0,0.072239492965668,0,0,-0.0874015261615655,-0.0712473686534414,0,0,-0.0779362512064676,-0.00994835336213412,-0.00270695600762416,0,0.0915514965999916,-0.000259857786057083,0,0.101884711473079,0.0650059127791652,0.000862589904960465,-0.000627082732590711,-0.0351814381735585,0.0767852743172429,0,0.384765374964182,0.209289928385081,0.191893350882575,0.23384787021513,0.331603960677122,0.348542322929356,0.318832068381244,0.320949741524965,0.337811195715362,0,-0.132794176816799,-0.02432425331135,-0.0950677911105092,-0.0371163740451575,-0.0573753147025067,0,0.0358218736867703,0.0363844222647935,0,0.0927363205676219,-0.205414215686311,-0.0826366339534575,-0.101844761540112,-0.0815036763472627,-0.00863927764949923,-0.1149053174281,-0.0686780069485106,-0.0719040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|gostat_on_MCL_coexpression=GO:0048002;antigen processing and presentation of peptide antigen;0.0208037826654645;54445,14964!GO:0019882;antigen processing and presentation;0.0294189354332319;54445,14964!
|gostat_on_MCL_coexpression=GO:0048002;antigen processing and presentation of peptide antigen;0.0208037826654645;54445,14964!GO:0019882;antigen processing and presentation;0.0294189354332319;54445,14964!
|ontology_enrichment_celltype=CL:0000988!3.14e-11!32;CL:0002032!3.14e-11!32;CL:0000037!3.14e-11!32;CL:0000566!3.14e-11!32;CL:0000837!3.14e-11!32;CL:0002031!3.27e-09!25;CL:0002320!1.90e-08!46;CL:0000134!1.90e-08!46;CL:0000738!5.13e-08!17;CL:0002087!5.13e-08!17;CL:0000838!6.49e-07!12;CL:0000049!7.52e-07!19
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002193!1.38e-21!48;UBERON:0002405!1.38e-21!48;UBERON:0002390!4.84e-20!45;UBERON:0003061!4.84e-20!45;UBERON:0003081!1.47e-13!87;UBERON:0000077!8.77e-11!35;UBERON:0004177!1.01e-10!29;UBERON:0005057!1.01e-10!29;UBERON:0002371!2.32e-10!16;UBERON:0002204!1.33e-09!32;UBERON:0000926!1.94e-09!120;UBERON:0004120!1.94e-09!120;UBERON:0006603!1.94e-09!120;UBERON:0001474!5.67e-09!22;UBERON:0004765!5.67e-09!22;UBERON:0001434!5.67e-09!22;UBERON:0003408!1.51e-08!24;UBERON:0002384!1.90e-08!46;UBERON:0002370!2.21e-08!23;UBERON:0000974!2.21e-08!23;UBERON:0004807!2.21e-08!23;UBERON:0005058!2.21e-08!23;UBERON:0003351!2.21e-08!23;UBERON:0009113!2.21e-08!23;UBERON:0003295!2.21e-08!23;UBERON:0009722!2.21e-08!23;UBERON:0005562!2.21e-08!23;UBERON:0007690!2.21e-08!23;UBERON:0006562!4.10e-08!24;UBERON:0001557!4.10e-08!24;UBERON:0001042!4.10e-08!24;UBERON:0008814!4.10e-08!24;UBERON:0009145!4.10e-08!24;UBERON:0001004!4.99e-08!42;UBERON:0000065!7.74e-08!41;UBERON:0001041!9.78e-08!80
}}
}}

Revision as of 19:37, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:127962917..127962936,-p1@Esyt1
Mm9::chr11:68245614..68245672,+p1@Pik3r5
Mm9::chr12:87027598..87027652,+p1@Batf
Mm9::chr15:6530936..6530950,+p@chr15:6530936..6530950
+
Mm9::chr15:6530960..6530979,+p@chr15:6530960..6530979
+
Mm9::chr15:78391895..78391920,-p@chr15:78391895..78391920
-
Mm9::chr15:78396374..78396387,-p@chr15:78396374..78396387
-
Mm9::chr15:78427542..78427551,+p2@Cyth4
Mm9::chr15:78427563..78427582,+p1@Cyth4
Mm9::chr15:79572948..79572992,-p2@Sun2
Mm9::chr16:91485540..91485554,+p3@Ifnar1
Mm9::chr17:35400991..35401003,+p7@H2-D1
Mm9::chr17:36004124..36004178,+p@chr17:36004124..36004178
+
Mm9::chr19:3907087..3907117,-p2@Tcirg1
Mm9::chr19:3935252..3935261,+p2@Unc93b1
Mm9::chr1:34529559..34529602,+p1@Ptpn18
Mm9::chr2:167328914..167328961,+p1@Rnf114
Mm9::chr3:90070429..90070488,+p1@Dennd4b
Mm9::chr4:130469179..130469263,+p1@Laptm5
Mm9::chr4:149072707..149072726,-p1@Pik3cd
Mm9::chr5:138070397..138070430,+p1@Lrch4-sap25
p1@Lrch4
Mm9::chr5:139848167..139848196,-p@chr5:139848167..139848196
-
Mm9::chr6:124678463..124678472,-p@chr6:124678463..124678472
-
Mm9::chr7:108510511..108510558,+p4@Arap1
Mm9::chr7:31827125..31827193,-p1@Fxyd5


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:0048002antigen processing and presentation of peptide antigen0.0208037826654645
GO:0019882antigen processing and presentation0.0294189354332319



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
hemolymphoid system1.38e-2148
immune system1.38e-2148
hematopoietic system4.84e-2045
blood island4.84e-2045
lateral plate mesoderm1.47e-1387
mixed endoderm/mesoderm-derived structure8.77e-1135
hemopoietic organ1.01e-1029
immune organ1.01e-1029
bone marrow2.32e-1016
musculoskeletal system1.33e-0932
mesoderm1.94e-09120
mesoderm-derived structure1.94e-09120
presumptive mesoderm1.94e-09120
bone element5.67e-0922
skeletal element5.67e-0922
skeletal system5.67e-0922
gland of gut1.51e-0824
connective tissue1.90e-0846
thymus2.21e-0823
neck2.21e-0823
respiratory system epithelium2.21e-0823
hemolymphoid system gland2.21e-0823
pharyngeal epithelium2.21e-0823
thymic region2.21e-0823
pharyngeal gland2.21e-0823
entire pharyngeal arch endoderm2.21e-0823
thymus primordium2.21e-0823
early pharyngeal endoderm2.21e-0823
pharynx4.10e-0824
upper respiratory tract4.10e-0824
chordate pharynx4.10e-0824
pharyngeal arch system4.10e-0824
pharyngeal region of foregut4.10e-0824
respiratory system4.99e-0842
respiratory tract7.74e-0841
foregut9.78e-0880


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)

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