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MCL coexpression mm9:657: Difference between revisions

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{{MCL_coexpression_mm9
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biogenesis and assembly;0.0396803442286198;20111,14300!GO:0008228;opsonization;0.0396803442286198;16423!GO:0022613;ribonucleoprotein complex biogenesis and assembly;0.0396803442286198;20111,14300!GO:0019903;protein phosphatase binding;0.0396803442286198;232413!GO:0008631;induction of apoptosis by oxidative stress;0.0396803442286198;14775!GO:0042744;hydrogen peroxide catabolic process;0.0396803442286198;14775!GO:0019902;phosphatase binding;0.0396803442286198;232413!GO:0042743;hydrogen peroxide metabolic process;0.0396803442286198;14775!GO:0004602;glutathione peroxidase activity;0.0396803442286198;14775!GO:0042542;response to hydrogen peroxide;0.0396803442286198;14775!GO:0000302;response to reactive oxygen species;0.0488052468365194;14775!GO:0050766;positive regulation of phagocytosis;0.0488052468365194;16423!GO:0050764;regulation of 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|coexpression_dpi_cluster_scores_median=0,0.0145716182526404,0,0,0,0,0,0.0527413783866199,0.0572052190895671,0,0,0,0.0335939332523002,0,0.0195051423352721,0.206130935280821,0.230336981122899,0.232329404334265,0.150398621339518,0.153628809860867,0.0354470656487682,0.529299793422889,0.468248582317413,0.0994034076513076,0.170531380134087,0.0607944321407949,0.0401349817885693,0,0.0427881664886028,0,0.106031779563833,0,0,0,0,0,0,0.931130722397205,0.945141187146805,0.920610194705098,0.801368058246229,0.814675743302078,0.942908745924653,0,0,0,0,0,0,0,0,0,0.0673620022139481,0,0.125836948423969,0.0212039571820358,0.0525214005102176,0,0,0,0,0,0,0.265679295825712,0.183173188527572,0.127757263433936,0.0884704270074744,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0317017435824471,0,0,0,0,0,0,0,0.0570741246689917,0,0,0,0,0,0,0,0,0,0,0.0893284091371433,0.203364004584858,0.0601091194109999,0.0125779850731388,0,0,0.0040709794666912,0.0482820047261801,0.0514097768499148,0.0959343498639139,0.00175381908195097,0.562748534089377,0.111350605076319,0.169573976697691,0.389985287491827,0,0,0,0.098801861608942,0.829376212017055,0.973064933350561,0.884438022878674,0,0,0,0,0,0,0,0.032972003981687,0.396702008746204,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1.05495485299473,1.09970328114532,1.06122809135314,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0756292965920817,0,0.00822257735697608,0,0.0788034163803455,0,0,0.040594330825206,0,0,0,0,0,0,0,0,0,0,0,0,0.125054963696189,0.0858764726210787,0.167007865018061,0.206442762994762,0.170952023220814,0.309280275631077,0.281758554072986,0.257840777288607,0.257401004059227,0.099994520288529,0.137398724818722,0.0250354347463451,0,0.0715782020898176,0,0.134623871770548,0,0.00866695733594197,0,0.0604491304227563,0,0.0932148609388866,0.0774164737207147,0.0527424497934748,0.086880916817156,0.0642538110976656,0.103484508980642,0.128841727545421,0.120914686750877,0.599784806040661,0.501828902533295,0,0.048929466578521,0,0,0,0.0977676536600382,0,0,0,0,0,0,0,0,0,0,0.0576433181427177,0,0.0655375003561515,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0617625450505093,0,0,0,0,0,0,0,0,0,0.226218939530362,0.150072612586664,0.255679527000036,0.255843461405986,0.226205675252187,0.282194334666274,0.550188769273851,0.639370415109125,0.487562504724675,0,0,0,0,0,0.0857765460992942,0,0.039301114719834,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.00382714506259427,0.100972714636825,0.179998145643094,0.0860409007262408,0,0.0787037500278776,0,0.0598244186619439,0.0558510373847982,0.083770338392499,0.041718751492076,0.0773372897074742,0.0398944891531444,0.0123543957647007,0,0,0,0,0,0.0747003483965965,0.0730404042754446,0.0843504501108034,0,0,0,0,0,0,0,0,0,0,0,0,0,0.012147647869087,0.0945084131504676,0.0826465040380816,0,0,0,0,0,0,0.0181456720286207,0.0388749848471105,0.0269518943326477,0.0242538736058389,0,0.0905291472420136,0.0262739220133026,0,0.0596387295197733,0,0.0709519923534245,0,0.00546213232689254,0.0390607415003592,0.0212441216117716,0,0.0681617969596185,0,0,0.0152841906956445,0.0408018333703219,0,0.0457428558717153,0,0,0,0.0845301845292944,0,0.0865703124974023,0.113891891979057
|gostat_on_MCL_coexpression=GO:0042254;ribosome biogenesis and assembly;0.0396803442286198;20111,14300!GO:0008228;opsonization;0.0396803442286198;16423!GO:0022613;ribonucleoprotein complex biogenesis and assembly;0.0396803442286198;20111,14300!GO:0019903;protein phosphatase binding;0.0396803442286198;232413!GO:0008631;induction of apoptosis by oxidative stress;0.0396803442286198;14775!GO:0042744;hydrogen peroxide catabolic process;0.0396803442286198;14775!GO:0019902;phosphatase binding;0.0396803442286198;232413!GO:0042743;hydrogen peroxide metabolic process;0.0396803442286198;14775!GO:0004602;glutathione peroxidase activity;0.0396803442286198;14775!GO:0042542;response to hydrogen peroxide;0.0396803442286198;14775!GO:0000302;response to reactive oxygen species;0.0488052468365194;14775!GO:0050766;positive regulation of phagocytosis;0.0488052468365194;16423!GO:0050764;regulation of phagocytosis;0.0488052468365194;16423!
|ontology_enrichment_celltype=CL:0000049!3.80e-08!19;CL:0000988!1.82e-07!32;CL:0002032!1.82e-07!32;CL:0000037!1.82e-07!32;CL:0000566!1.82e-07!32;CL:0000837!1.82e-07!32
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002193!1.93e-13!48;UBERON:0002405!1.93e-13!48;UBERON:0002390!8.46e-12!45;UBERON:0003061!8.46e-12!45;UBERON:0002204!3.38e-11!32;UBERON:0001474!6.01e-11!22;UBERON:0004765!6.01e-11!22;UBERON:0001434!6.01e-11!22;UBERON:0002371!3.96e-10!16
}}

Latest revision as of 15:40, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:62416617..62416668,+p1@Snord49b
Mm9::chr14:28192808..28192821,+p@chr14:28192808..28192821
+
Mm9::chr15:97191697..97191715,+p5@Fam113b
Mm9::chr16:49855202..49855213,+p@chr16:49855202..49855213
+
Mm9::chr16:49855232..49855243,+p7@Cd47
Mm9::chr2:163244850..163244902,-p2@3230401D17Rik
Mm9::chr4:133430573..133430584,-p7@Rps6ka1
Mm9::chr6:129300366..129300392,+p4@Clec12a
Mm9::chr6:129300395..129300409,+p5@Clec12a
Mm9::chr8:42502347..42502390,-p2@Frg1
Mm9::chr9:108241379..108241401,+p1@Gpx1


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:0042254ribosome biogenesis and assembly0.0396803442286198
GO:0008228opsonization0.0396803442286198
GO:0022613ribonucleoprotein complex biogenesis and assembly0.0396803442286198
GO:0019903protein phosphatase binding0.0396803442286198
GO:0008631induction of apoptosis by oxidative stress0.0396803442286198
GO:0042744hydrogen peroxide catabolic process0.0396803442286198
GO:0019902phosphatase binding0.0396803442286198
GO:0042743hydrogen peroxide metabolic process0.0396803442286198
GO:0004602glutathione peroxidase activity0.0396803442286198
GO:0042542response to hydrogen peroxide0.0396803442286198
GO:0000302response to reactive oxygen species0.0488052468365194
GO:0050766positive regulation of phagocytosis0.0488052468365194
GO:0050764regulation of phagocytosis0.0488052468365194



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 system1.93e-1348
immune system1.93e-1348
hematopoietic system8.46e-1245
blood island8.46e-1245
musculoskeletal system3.38e-1132
bone element6.01e-1122
skeletal element6.01e-1122
skeletal system6.01e-1122
bone marrow3.96e-1016


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)
MA0003.10.0832519
MA0004.10.330313
MA0006.10.547312
MA0007.10.316976
MA0009.10.743257
MA0014.10.00333639
MA0017.10.598706
MA0019.10.567591
MA0024.10.70077
MA0025.10.971686
MA0027.12.37948
MA0028.10.194782
MA0029.10.679737
MA0030.10.686088
MA0031.11.56948
MA0038.10.462726
MA0040.11.78483
MA0041.10.263922
MA0042.10.252679
MA0043.11.95413
MA0046.10.778239
MA0048.10.199479
MA0050.10.365212
MA0051.12.06488
MA0052.10.76328
MA0055.10.0494654
MA0056.10
MA0057.10.048013
MA0058.10.246908
MA0059.10.257372
MA0060.10.12537
MA0061.10.147394
MA0063.10
MA0066.10.452472
MA0067.11.08124
MA0068.10.0500842
MA0069.10.76361
MA0070.10.75417
MA0071.10.955636
MA0072.10.745922
MA0073.13.31286e-06
MA0074.10.419185
MA0076.10.223625
MA0077.10.724865
MA0078.10.502121
MA0081.10.760108
MA0083.10.836845
MA0084.11.4063
MA0087.10.794721
MA0088.10.12124
MA0089.10
MA0090.10.299987
MA0091.10.342071
MA0092.10.812369
MA0093.10.20148
MA0095.10
MA0098.10
MA0100.10.408523
MA0101.10.265031
MA0103.10.216742
MA0105.10.26272
MA0106.10.509454
MA0107.10.211681
MA0108.20.589413
MA0109.10
MA0111.10.312463
MA0113.10.482899
MA0114.10.876865
MA0115.11.95975
MA0116.10.186271
MA0117.10.808813
MA0119.10.265536
MA0122.10.828211
MA0124.11.02871
MA0125.10.955734
MA0130.10
MA0131.10.563262
MA0132.10
MA0133.10
MA0135.10.873285
MA0136.11.95245
MA0139.10.338099
MA0140.10.408417
MA0141.10.658164
MA0142.10.63775
MA0143.10.49828
MA0144.10.147954
MA0145.10.133285
MA0146.10.529624
MA0147.10.157258
MA0148.11.63329
MA0149.10.269772
MA0062.20.573094
MA0035.21.06146
MA0039.20.0156442
MA0138.20.555696
MA0002.20.105469
MA0137.20.230686
MA0104.20.11535
MA0047.21.16804
MA0112.20.313687
MA0065.20.574339
MA0150.10.849777
MA0151.10
MA0152.10.46211
MA0153.10.889592
MA0154.10.434137
MA0155.10.637282
MA0156.11.18738
MA0157.10.606944
MA0158.10
MA0159.11.52694
MA0160.10.347545
MA0161.10
MA0162.10.103104
MA0163.10.198448
MA0164.10.437937
MA0080.21.14688
MA0018.20.446948
MA0099.20.549696
MA0079.24.95466e-05
MA0102.23.21282
MA0258.10.421574
MA0259.10.14914
MA0442.10
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