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MCL coexpression mm9:278: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0.0809280611507683,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.296116036672053,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.176782520138305,0.258374096307571,0.16590242907002,0,0,0,0,0,0,0,0.0818436986734574,0.0549981337564001,0,0.268800900821362,0.328380547663965,0.0726728611156123,0.0614357617100399,0,0.597705737487668,0.603459912845655,0.704608211497874,0.269591744648757,0.327048895727981,0.310018887324488,0.499680240053599,0.611246920618536,0.752486698907916,0.36940540083124,0.432722453268321,0.241944181742968,0,0,0,0,0,0,0,0,0.0570741246689917,0,0,0,0.0463902921823653,0,0,0,0,0,0,0.0469568706916304,0,0.419736990395131,0.0994178987032863,0.160816233938295,0.196539915357397,0.221696373217319,0.199641043086082,0.138933868974914,0,0,0,0,0,0,0,0.743209199823472,0.63658181901486,0,0,0,0,0.737225225297151,0.623508158186393,0.227869092429391,0.724890514830419,0.701843578470195,0.71229276786597,0.690738281885172,0,0,0,0.21254064290909,0,0,0.0719048733411253,0.162000848159969,0.256461295239593,0.320099065493481,0.265599679938124,0.46796732120703,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.721037554914551,0.208824869640437,0,0,0,0.022429593580413,0.0499793337062755,0.0133165595177082,0,0.0152942853518557,0,0,0,0.0537405750253816,0.0386774267005042,0,0,0,0,0.046982063026719,0,0,0,0.0111954697175997,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.674575121334269,0.660066022107225,0,0,0.21245833826791,0.143151860801801,0.155593135195239,0,0,0,0,0.111348509539896,0.144663790035931,0.683058236935438,0,0,0,0,0,0,0,0.0750375819757342,0,0.116420155980149,0.0998284739419172,0.134665885471472,0.1324189587654,0.11034114426562,0,0,1.17385950880078,0,0,0.136646402331259,0.444020635650076,0.45810699768274,0.4727613446782,0.40180100060778,0,0,0,0,0,0,0,0,0,0.664632254323801,0,0,0,0,0,0,0,0,0,0,0,0,0.0079307240705543,0.0824580172145032,0.0591980521524912,0.0516489983163874,0.066440322267935,0.100975358632432,0.040404050696452,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.784235949952196,0.748440183111848,0.746880393378071,0.709405143993409,0.668411556799555,0.642738810576025,0.71841241321397,0.765186856613157,0.703980885736042,0.771812186439419,0,0.134930488971969,0.106753023589242,0.140045069894156,0.0826465040380816,0.031879670945897,0.179617535058556,0.149856261570464,0.120876255993453,0.170422865955438,0.178101321237085,0.112435133068429,0.165902331579288,0.15100240492163,0.145354282016236,0.169172763866184,0.165403796547116,0.141706336142815,0.204369058590732,0.158843797677303,0.19740310090703,0.15750501426409,0.131108301552488,0.145238369392609,0.138756502969784,0.164707557780843,0.189990830607665,0.23913192974737,0.126387342143306,0,0.112346887556877,0.144268359582519,0.148982201447044,0.161691084471876,0.141704700595215,0.209439279369182,0.102409844518356,0.155257708002722,0.140689222355642,0.0725129268540104,0.0894477506312886
|coexpression_dpi_cluster_scores_median=0.0809280611507683,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.296116036672053,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.176782520138305,0.258374096307571,0.16590242907002,0,0,0,0,0,0,0,0.0818436986734574,0.0549981337564001,0,0.268800900821362,0.328380547663965,0.0726728611156123,0.0614357617100399,0,0.597705737487668,0.603459912845655,0.704608211497874,0.269591744648757,0.327048895727981,0.310018887324488,0.499680240053599,0.611246920618536,0.752486698907916,0.36940540083124,0.432722453268321,0.241944181742968,0,0,0,0,0,0,0,0,0.0570741246689917,0,0,0,0.0463902921823653,0,0,0,0,0,0,0.0469568706916304,0,0.419736990395131,0.0994178987032863,0.160816233938295,0.196539915357397,0.221696373217319,0.199641043086082,0.138933868974914,0,0,0,0,0,0,0,0.743209199823472,0.63658181901486,0,0,0,0,0.737225225297151,0.623508158186393,0.227869092429391,0.724890514830419,0.701843578470195,0.71229276786597,0.690738281885172,0,0,0,0.21254064290909,0,0,0.0719048733411253,0.162000848159969,0.256461295239593,0.320099065493481,0.265599679938124,0.46796732120703,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.721037554914551,0.208824869640437,0,0,0,0.022429593580413,0.0499793337062755,0.0133165595177082,0,0.0152942853518557,0,0,0,0.0537405750253816,0.0386774267005042,0,0,0,0,0.046982063026719,0,0,0,0.0111954697175997,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.674575121334269,0.660066022107225,0,0,0.21245833826791,0.143151860801801,0.155593135195239,0,0,0,0,0.111348509539896,0.144663790035931,0.683058236935438,0,0,0,0,0,0,0,0.0750375819757342,0,0.116420155980149,0.0998284739419172,0.134665885471472,0.1324189587654,0.11034114426562,0,0,1.17385950880078,0,0,0.136646402331259,0.444020635650076,0.45810699768274,0.4727613446782,0.40180100060778,0,0,0,0,0,0,0,0,0,0.664632254323801,0,0,0,0,0,0,0,0,0,0,0,0,0.0079307240705543,0.0824580172145032,0.0591980521524912,0.0516489983163874,0.066440322267935,0.100975358632432,0.040404050696452,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.784235949952196,0.748440183111848,0.746880393378071,0.709405143993409,0.668411556799555,0.642738810576025,0.71841241321397,0.765186856613157,0.703980885736042,0.771812186439419,0,0.134930488971969,0.106753023589242,0.140045069894156,0.0826465040380816,0.031879670945897,0.179617535058556,0.149856261570464,0.120876255993453,0.170422865955438,0.178101321237085,0.112435133068429,0.165902331579288,0.15100240492163,0.145354282016236,0.169172763866184,0.165403796547116,0.141706336142815,0.204369058590732,0.158843797677303,0.19740310090703,0.15750501426409,0.131108301552488,0.145238369392609,0.138756502969784,0.164707557780843,0.189990830607665,0.23913192974737,0.126387342143306,0,0.112346887556877,0.144268359582519,0.148982201447044,0.161691084471876,0.141704700595215,0.209439279369182,0.102409844518356,0.155257708002722,0.140689222355642,0.0725129268540104,0.0894477506312886
|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000117!8.19e-11!23;CL:0000337!8.19e-11!23;CL:0000540!4.06e-10!33;CL:0000047!4.06e-10!33;CL:0000031!4.06e-10!33;CL:0000404!4.06e-10!33;CL:0000393!3.20e-07!39;CL:0000211!3.20e-07!39
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002346!1.09e-28!64;UBERON:0003075!1.09e-28!64;UBERON:0007284!1.09e-28!64;UBERON:0000073!2.66e-26!54;UBERON:0001017!3.58e-26!73;UBERON:0001016!7.52e-25!75;UBERON:0001049!1.15e-24!52;UBERON:0005068!1.15e-24!52;UBERON:0006241!1.15e-24!52;UBERON:0007135!1.15e-24!52;UBERON:0010371!4.61e-24!73;UBERON:0004121!2.53e-22!95;UBERON:0000924!2.53e-22!95;UBERON:0006601!2.53e-22!95;UBERON:0000955!2.99e-21!47;UBERON:0006238!2.99e-21!47;UBERON:0003056!4.53e-21!49;UBERON:0010314!5.63e-21!92;UBERON:0002616!1.98e-20!46;UBERON:0003080!8.26e-19!40;UBERON:0002780!6.16e-18!39;UBERON:0001890!6.16e-18!39;UBERON:0006240!6.16e-18!39;UBERON:0002020!3.42e-17!34;UBERON:0003528!5.54e-14!29;UBERON:0002791!5.54e-14!29;UBERON:0001893!5.54e-14!29;UBERON:0002021!3.65e-10!10;UBERON:0000411!3.65e-10!10;UBERON:0001950!3.65e-10!10;UBERON:0000956!1.09e-08!21;UBERON:0001869!1.09e-08!21;UBERON:0000203!1.09e-08!21;UBERON:0002619!2.12e-08!17;UBERON:0002420!6.80e-07!8;UBERON:0007245!6.80e-07!8;UBERON:0010009!6.80e-07!8;UBERON:0010011!6.80e-07!8;UBERON:0000454!6.80e-07!8
}}
}}

Revision as of 19:01, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:129979013..129979023,-p@chr10:129979013..129979023
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Mm9::chr14:124026253..124026279,-p4@Nalcn
Mm9::chr16:13358234..13358283,+p6@Mkl2
Mm9::chr16:95123899..95123902,-p@chr16:95123899..95123902
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Mm9::chr16:95218981..95219044,-p1@Kcnj6
Mm9::chr16:96984411..96984415,-p@chr16:96984411..96984415
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Mm9::chr16:97190540..97190542,-p@chr16:97190540..97190542
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Mm9::chr16:97201738..97201742,-p@chr16:97201738..97201742
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Mm9::chr16:97392672..97392710,-p4@Dscam
Mm9::chr17:25951087..25951092,+p@chr17:25951087..25951092
+
Mm9::chr17:8718110..8718119,+p18@Pde10a
Mm9::chr17:8963648..8963654,+p@chr17:8963648..8963654
+
Mm9::chr18:57628124..57628131,+p6@Ctxn3
Mm9::chr18:57628132..57628195,+p1@Ctxn3
Mm9::chr1:196843344..196843375,+p2@A330023F24Rik
Mm9::chr1:196843610..196843625,+p3@A330023F24Rik
Mm9::chr1:34062717..34062753,+p3@Dst
Mm9::chr2:113669172..113669225,-p1@Scg5
Mm9::chr2:132607155..132607162,+p6@Chgb
Mm9::chr2:132607185..132607196,+p5@Chgb
Mm9::chr2:132607341..132607365,+p3@Chgb
Mm9::chr2:132607372..132607386,+p2@Chgb
Mm9::chr3:31209140..31209153,-p4@Slc7a14
Mm9::chr3:31209168..31209187,-p2@Slc7a14
Mm9::chr5:117690882..117690900,+p6@Taok3
Mm9::chr5:90768749..90768827,-p4@Ankrd17
Mm9::chr5:9266097..9266202,+p1@9330182L06Rik
Mm9::chr7:116637551..116637581,-p1@Trim66
Mm9::chr8:119927722..119927758,+p@chr8:119927722..119927758
+
Mm9::chr8:9394044..9394048,-p@chr8:9394044..9394048
-


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)8.19e-1123
neuroblast (sensu Vertebrata)8.19e-1123
neuron4.06e-1033
neuronal stem cell4.06e-1033
neuroblast4.06e-1033
electrically signaling cell4.06e-1033
electrically responsive cell3.20e-0739
electrically active cell3.20e-0739

Uber Anatomy
Ontology termp-valuen
neurectoderm1.09e-2864
neural plate1.09e-2864
presumptive neural plate1.09e-2864
regional part of nervous system2.66e-2654
central nervous system3.58e-2673
nervous system7.52e-2575
neural tube1.15e-2452
neural rod1.15e-2452
future spinal cord1.15e-2452
neural keel1.15e-2452
ecto-epithelium4.61e-2473
ectoderm-derived structure2.53e-2295
ectoderm2.53e-2295
presumptive ectoderm2.53e-2295
brain2.99e-2147
future brain2.99e-2147
pre-chordal neural plate4.53e-2149
structure with developmental contribution from neural crest5.63e-2192
regional part of brain1.98e-2046
anterior neural tube8.26e-1940
regional part of forebrain6.16e-1839
forebrain6.16e-1839
future forebrain6.16e-1839
gray matter3.42e-1734
brain grey matter5.54e-1429
regional part of telencephalon5.54e-1429
telencephalon5.54e-1429
occipital lobe3.65e-1010
visual cortex3.65e-1010
neocortex3.65e-1010
cerebral cortex1.09e-0821
cerebral hemisphere1.09e-0821
pallium1.09e-0821
regional part of cerebral cortex2.12e-0817
basal ganglion6.80e-078
nuclear complex of neuraxis6.80e-078
aggregate regional part of brain6.80e-078
collection of basal ganglia6.80e-078
cerebral subcortex6.80e-078


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}}}

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