Personal tools

MCL coexpression mm9:573: 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=0.292147138257866,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0354470656487682,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.583689151459811,0.219861712554198,0.335774608412112,0.152275885725811,0.588277454879422,0,0,0,0,0,0,0.736473165531812,0.791940285879021,0.62004825170176,0.126730149241647,0,0,0,0,0.342106802711204,0.804756433408931,0.561045122906736,0.57155352626954,0.595997405852357,0.24995427051514,0.216562425627822,0.47127011133168,0.648402653351375,0.574917061061619,0,0.0987733636723519,0.116346380288332,0.626650915916734,0.535864208706909,0.556853084659377,0.0734473567415215,0,0.122101005470487,0.201194179703458,0.195350749478557,0.433549649420945,0,0,0,0,0,0,0,0,0,0,0,0,0.35556468210084,0,0,0,0,0,0,0,0,0,0.129358133846345,0.115432590314795,0.0483482950986521,0,0.00180137743580461,0,0,0,0,0,0,0,0,0.111524892460631,0.0825867363219064,0,0,0,0,0.161179842546876,0,0.302165236663908,0.0278290185180086,0,0.150933218241173,0.122046233034924,0.115782894547554,0,0,0.21254064290909,0.774120944603947,0.675911753459451,0.71284960313513,0.554119437071954,0.775731614046136,0.777893136986855,0.761836758711291,0.493320745628228,0.113906817378258,0.162307482175885,0.0703892716151147,0,0.106546909924599,0,0.000876823322195408,0.145528461145601,0,0,0,0.0817525223528981,0.0915002620172692,0,0,0,0,0,0,0,0,0,0,0,0,0,0.066786908881865,0.284688191079466,0,0,0.154295065934854,0.0906941294286938,0.0526429550379996,0.0380160221301968,0.0721447834611486,0,0,0,0,0,0,0,0,0,0.153849883727206,0.226726457359759,0.286009199645709,0.106613422416561,0.142359732304287,0.193426984489104,0.0266298923127834,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.139558856685035,0.0655666358230307,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0646640766951323,0.132891923510811,0,0,0.21245833826791,0.208859959393243,0.228232180068583,0.169656096896275,0.15160489082533,0.194834203794845,0.0919089950572468,0.199895454695966,0,0.169332598881751,0,0.0711694759496908,0.0655375003561515,0,0,0.171890569083022,0,0,0,0,0,0,0,0,0,0,0.12724725138213,0.627478481236267,0.626747478458381,0.433721247851683,0.314718404397151,0.385060925870741,0.380732073252649,0.390771577232219,0,0,0,0,0,0,0,0,0,0.136990127740213,0,0.0397125162715109,0,0,0,0,0,0,0,0,0.253056782280667,0.038606857912108,0.0637708046266347,0,0,0,0,0,0,0,0,0.071846129806256,0.0664968100861445,0.172099664345204,0.100452481090633,0.0677982110636083,0.147281584002925,0.143206333286023,0.0433069931089932,0,0,0,0.0801664161057822,0.0424616899933645,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0270991189548435,0,0,0.182246560401432,0,0,0,0.457605230610651,0.551352557973338,0.400960984254652,0.14433154209985,0.152051658298929,0.044113822767154,0,0.081359932135904,0,0,0.175325145219851,0.0395078000803443,0.138165606837579,0.10968570203837,0.0898139621139603,0,0.12362971174829,0.0766073954291401,0.0232550846195542,0.0702936948401013,0.0491053825657755,0.157020979662033,0.13821596580808,0.15587044184241,0.104571000523976,0.0678996586311492,0.0729583017401753,0.0173251510043791,0.104353329269123,0,0.0924644954689594,0.112441925220423,0,0.117229416500102,0.0766064454112358,0.351999668610516,0.000367804622176393,0.0845301845292944,0,0,0
|coexpression_dpi_cluster_scores_median=0.292147138257866,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0354470656487682,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.583689151459811,0.219861712554198,0.335774608412112,0.152275885725811,0.588277454879422,0,0,0,0,0,0,0.736473165531812,0.791940285879021,0.62004825170176,0.126730149241647,0,0,0,0,0.342106802711204,0.804756433408931,0.561045122906736,0.57155352626954,0.595997405852357,0.24995427051514,0.216562425627822,0.47127011133168,0.648402653351375,0.574917061061619,0,0.0987733636723519,0.116346380288332,0.626650915916734,0.535864208706909,0.556853084659377,0.0734473567415215,0,0.122101005470487,0.201194179703458,0.195350749478557,0.433549649420945,0,0,0,0,0,0,0,0,0,0,0,0,0.35556468210084,0,0,0,0,0,0,0,0,0,0.129358133846345,0.115432590314795,0.0483482950986521,0,0.00180137743580461,0,0,0,0,0,0,0,0,0.111524892460631,0.0825867363219064,0,0,0,0,0.161179842546876,0,0.302165236663908,0.0278290185180086,0,0.150933218241173,0.122046233034924,0.115782894547554,0,0,0.21254064290909,0.774120944603947,0.675911753459451,0.71284960313513,0.554119437071954,0.775731614046136,0.777893136986855,0.761836758711291,0.493320745628228,0.113906817378258,0.162307482175885,0.0703892716151147,0,0.106546909924599,0,0.000876823322195408,0.145528461145601,0,0,0,0.0817525223528981,0.0915002620172692,0,0,0,0,0,0,0,0,0,0,0,0,0,0.066786908881865,0.284688191079466,0,0,0.154295065934854,0.0906941294286938,0.0526429550379996,0.0380160221301968,0.0721447834611486,0,0,0,0,0,0,0,0,0,0.153849883727206,0.226726457359759,0.286009199645709,0.106613422416561,0.142359732304287,0.193426984489104,0.0266298923127834,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.139558856685035,0.0655666358230307,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0646640766951323,0.132891923510811,0,0,0.21245833826791,0.208859959393243,0.228232180068583,0.169656096896275,0.15160489082533,0.194834203794845,0.0919089950572468,0.199895454695966,0,0.169332598881751,0,0.0711694759496908,0.0655375003561515,0,0,0.171890569083022,0,0,0,0,0,0,0,0,0,0,0.12724725138213,0.627478481236267,0.626747478458381,0.433721247851683,0.314718404397151,0.385060925870741,0.380732073252649,0.390771577232219,0,0,0,0,0,0,0,0,0,0.136990127740213,0,0.0397125162715109,0,0,0,0,0,0,0,0,0.253056782280667,0.038606857912108,0.0637708046266347,0,0,0,0,0,0,0,0,0.071846129806256,0.0664968100861445,0.172099664345204,0.100452481090633,0.0677982110636083,0.147281584002925,0.143206333286023,0.0433069931089932,0,0,0,0.0801664161057822,0.0424616899933645,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0270991189548435,0,0,0.182246560401432,0,0,0,0.457605230610651,0.551352557973338,0.400960984254652,0.14433154209985,0.152051658298929,0.044113822767154,0,0.081359932135904,0,0,0.175325145219851,0.0395078000803443,0.138165606837579,0.10968570203837,0.0898139621139603,0,0.12362971174829,0.0766073954291401,0.0232550846195542,0.0702936948401013,0.0491053825657755,0.157020979662033,0.13821596580808,0.15587044184241,0.104571000523976,0.0678996586311492,0.0729583017401753,0.0173251510043791,0.104353329269123,0,0.0924644954689594,0.112441925220423,0,0.117229416500102,0.0766064454112358,0.351999668610516,0.000367804622176393,0.0845301845292944,0,0,0
|gostat_on_MCL_coexpression=GO:0008266;poly(U) binding;0.0438140055848092;17690!GO:0005844;polysome;0.0438140055848092;17690!
|gostat_on_MCL_coexpression=GO:0008266;poly(U) binding;0.0438140055848092;17690!GO:0005844;polysome;0.0438140055848092;17690!
|ontology_enrichment_celltype=CL:0000221!1.02e-18!44;CL:0000133!1.02e-18!44;CL:0002319!4.83e-18!43;CL:0000540!9.50e-16!33;CL:0000047!9.50e-16!33;CL:0000031!9.50e-16!33;CL:0000404!9.50e-16!33;CL:0000055!6.08e-14!49;CL:0000117!3.24e-12!23;CL:0000337!3.24e-12!23;CL:0000393!1.93e-11!39;CL:0000211!1.93e-11!39
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004121!1.09e-24!95;UBERON:0000924!1.09e-24!95;UBERON:0006601!1.09e-24!95;UBERON:0001017!5.82e-24!73;UBERON:0002346!7.42e-23!64;UBERON:0003075!7.42e-23!64;UBERON:0007284!7.42e-23!64;UBERON:0001016!1.13e-22!75;UBERON:0010371!1.01e-19!73;UBERON:0003056!1.65e-16!49;UBERON:0010314!5.75e-15!92;UBERON:0001049!2.84e-14!52;UBERON:0005068!2.84e-14!52;UBERON:0006241!2.84e-14!52;UBERON:0007135!2.84e-14!52;UBERON:0000073!6.24e-14!54;UBERON:0000955!1.10e-11!47;UBERON:0006238!1.10e-11!47;UBERON:0002616!3.05e-11!46;UBERON:0003080!3.75e-10!40;UBERON:0002780!9.91e-10!39;UBERON:0001890!9.91e-10!39;UBERON:0006240!9.91e-10!39;UBERON:0000970!1.22e-08!9;UBERON:0000019!1.22e-08!9;UBERON:0000047!1.22e-08!9;UBERON:0010312!1.22e-08!9;UBERON:0004088!1.22e-08!9;UBERON:0002104!1.22e-08!9;UBERON:0001456!1.22e-08!9;UBERON:0003072!1.22e-08!9;UBERON:0004128!1.22e-08!9;UBERON:0003071!1.22e-08!9;UBERON:0000020!1.26e-08!12;UBERON:0001032!1.26e-08!12;UBERON:0004456!1.26e-08!12;UBERON:0000033!1.31e-07!13;UBERON:0005085!1.31e-07!13;UBERON:0002020!3.42e-07!34;UBERON:0001894!3.48e-07!10;UBERON:0006222!3.48e-07!10
}}
}}

Revision as of 20:54, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr14:52630523..52630538,-p@chr14:52630523..52630538
-
Mm9::chr14:52630543..52630580,-p@chr14:52630543..52630580
-
Mm9::chr14:52634234..52634281,-p3@Zfp219
Mm9::chr17:34162431..34162458,-p1@Mir219-1
Mm9::chr17:35840916..35840939,-p9@Ddr1
Mm9::chr17:35840945..35841036,-p2@Ddr1
Mm9::chr4:97248389..97248402,+p21@Nfia
Mm9::chr5:115879631..115879692,+p1@Msi1
Mm9::chr5:115880326..115880345,+p10@Msi1
Mm9::chr5:115885254..115885265,+p13@Msi1
Mm9::chr5:115885491..115885507,+p7@Msi1
Mm9::chr5:115904186..115904197,+p@chr5:115904186..115904197
+
Mm9::chr5:115905342..115905374,+p@chr5:115905342..115905374
+


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:0008266poly(U) binding0.0438140055848092
GO:0005844polysome0.0438140055848092



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
ectoderm-derived structure1.09e-2495
ectoderm1.09e-2495
presumptive ectoderm1.09e-2495
central nervous system5.82e-2473
neurectoderm7.42e-2364
neural plate7.42e-2364
presumptive neural plate7.42e-2364
nervous system1.13e-2275
ecto-epithelium1.01e-1973
pre-chordal neural plate1.65e-1649
structure with developmental contribution from neural crest5.75e-1592
neural tube2.84e-1452
neural rod2.84e-1452
future spinal cord2.84e-1452
neural keel2.84e-1452
regional part of nervous system6.24e-1454
brain1.10e-1147
future brain1.10e-1147
regional part of brain3.05e-1146
anterior neural tube3.75e-1040
regional part of forebrain9.91e-1039
forebrain9.91e-1039
future forebrain9.91e-1039
eye1.22e-089
camera-type eye1.22e-089
simple eye1.22e-089
immature eye1.22e-089
ocular region1.22e-089
visual system1.22e-089
face1.22e-089
optic cup1.22e-089
optic vesicle1.22e-089
eye primordium1.22e-089
sense organ1.26e-0812
sensory system1.26e-0812
entire sense organ system1.26e-0812
head1.31e-0713
ectodermal placode1.31e-0713
gray matter3.42e-0734
diencephalon3.48e-0710
future diencephalon3.48e-0710


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_mm9:573&oldid=2156361"