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MCL coexpression mm9:670: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0.441166642719321,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0609991031284923,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0419359757688424,0.0252234903760174,0.203041136859444,0.454499547225537,0.473804457500192,0.448791877174013,0.354084954831661,0.588277454879422,0,0,0,0,0,0,0.50859449733684,0.572584885567262,0.414659780716477,0.126730149241647,0.276299728348189,0,0,0,0.342106802711204,0.465545164942724,0.591432949050464,0.631481075754944,0.49906159088262,0.385294277714033,0.475353974867177,0.537795930106645,0.629281740158714,0.747884995716671,0.457502477344425,0.305673467386311,0.317069529519254,0.473967612650033,0.478959946720656,0.556853084659377,0.21627700046226,0,0.273002932557167,0.338160423388235,0.358190991325234,0.286006499214085,0.139448029345379,0.139204399262413,0,0,0,0,0,0,0,0,0,0,0.565378453420431,0,0,0,0,0,0,0,0,0.0301948138071966,0.0694776635602275,0.0224507851621369,0,0.0130087303360904,0.000320077108490559,0,0,0,0,0,0,0,0,0.144003633079157,0.211745123527753,0,0,0,0,0.161179842546876,0.163608743054207,0.302165236663908,0.310256870570088,0.403856780142017,0.262724437924219,0.257967923814717,0.130783953603196,0,0,0,0.385842992963619,0.283212645702645,0.187573281223881,0.114414017937594,0.207453528713667,0.179682427843873,0.193739510044836,0.0513308823660074,0,0.0653860611231393,0,0,0,0,0,0.0788315948399074,0,0,0,0.0817525223528981,0.0915002620172692,0.0719048481885784,0,0,0.0623063220167371,0,0,0,0,0,0,0,0,0,0.152465664603217,0.527218103391431,0,0,0.154295065934854,0.0906941294286938,0,0,0,0,0,0,0,0,0,0,0,0,0.24518475135791,0.163457778354187,0,0.20708313509219,0.156414679566817,0.0570083229196787,0.0266298923127834,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.19547738911348,0,0.0680912293502604,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.167464744285829,0.167204537809625,0.065928707415698,0,0.159488782825238,0.143151860801801,0.0626113300425818,0.169656096896275,0.22229914573975,0.128672390770223,0.1476178069765,0.270102430635153,0.144663790035931,0.293133511567635,0,0.0843397824625477,0.0655375003561515,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.230861490882546,0.0944513337288635,0.0843392403965415,0.0709019855629759,0.132495872273197,0.0661577744756082,0.115432414129512,0,0,0,0,0,0,0,0,0,0.136990127740213,0,0,0,0,0,0,0,0,0,0,0.230719001400175,0.100220706430496,0.0849373898696927,0.0824580172145032,0.0378146184816046,0.103710933695783,0.034489466458534,0,0,0,0,0.0605152268483434,0,0,0.0336291645514827,0,0,0,0,0,0,0,0.0801664161057822,0.00495756502591144,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.513085342652956,0.52745125525596,0.434359137099159,0.405974145903856,0.572909929793709,0.399810008829701,0.414573256824189,0.464135990795671,0.449103283876296,0.407098602473158,0.286475810074873,0.414321332463947,0.268031959483673,0.0945084131504676,0.211878289366281,0.190760324464606,0.159715578577694,0.081359932135904,0.120876255993453,0.0978461107777356,0.098117166361508,0.0750453505157095,0.170791632053301,0.0990244263857601,0.109638387271474,0,0.129578075275077,0.141706336142815,0,0.0596387295197733,0.128033729919821,0.185379913858661,0.092873634605593,0.110822898586572,0.167478880586199,0.129315349880243,0.135404897539632,0.101427320830301,0.0952848897618635,0.100460678294351,0.132229279644795,0.0780974029773103,0.0846636701322259,0.117229416500102,0.118218759958678,0.242897000144792,0.091291089277545,0.0845301845292944,0,0,0
|coexpression_dpi_cluster_scores_median=0.441166642719321,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0609991031284923,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0419359757688424,0.0252234903760174,0.203041136859444,0.454499547225537,0.473804457500192,0.448791877174013,0.354084954831661,0.588277454879422,0,0,0,0,0,0,0.50859449733684,0.572584885567262,0.414659780716477,0.126730149241647,0.276299728348189,0,0,0,0.342106802711204,0.465545164942724,0.591432949050464,0.631481075754944,0.49906159088262,0.385294277714033,0.475353974867177,0.537795930106645,0.629281740158714,0.747884995716671,0.457502477344425,0.305673467386311,0.317069529519254,0.473967612650033,0.478959946720656,0.556853084659377,0.21627700046226,0,0.273002932557167,0.338160423388235,0.358190991325234,0.286006499214085,0.139448029345379,0.139204399262413,0,0,0,0,0,0,0,0,0,0,0.565378453420431,0,0,0,0,0,0,0,0,0.0301948138071966,0.0694776635602275,0.0224507851621369,0,0.0130087303360904,0.000320077108490559,0,0,0,0,0,0,0,0,0.144003633079157,0.211745123527753,0,0,0,0,0.161179842546876,0.163608743054207,0.302165236663908,0.310256870570088,0.403856780142017,0.262724437924219,0.257967923814717,0.130783953603196,0,0,0,0.385842992963619,0.283212645702645,0.187573281223881,0.114414017937594,0.207453528713667,0.179682427843873,0.193739510044836,0.0513308823660074,0,0.0653860611231393,0,0,0,0,0,0.0788315948399074,0,0,0,0.0817525223528981,0.0915002620172692,0.0719048481885784,0,0,0.0623063220167371,0,0,0,0,0,0,0,0,0,0.152465664603217,0.527218103391431,0,0,0.154295065934854,0.0906941294286938,0,0,0,0,0,0,0,0,0,0,0,0,0.24518475135791,0.163457778354187,0,0.20708313509219,0.156414679566817,0.0570083229196787,0.0266298923127834,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.19547738911348,0,0.0680912293502604,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.167464744285829,0.167204537809625,0.065928707415698,0,0.159488782825238,0.143151860801801,0.0626113300425818,0.169656096896275,0.22229914573975,0.128672390770223,0.1476178069765,0.270102430635153,0.144663790035931,0.293133511567635,0,0.0843397824625477,0.0655375003561515,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.230861490882546,0.0944513337288635,0.0843392403965415,0.0709019855629759,0.132495872273197,0.0661577744756082,0.115432414129512,0,0,0,0,0,0,0,0,0,0.136990127740213,0,0,0,0,0,0,0,0,0,0,0.230719001400175,0.100220706430496,0.0849373898696927,0.0824580172145032,0.0378146184816046,0.103710933695783,0.034489466458534,0,0,0,0,0.0605152268483434,0,0,0.0336291645514827,0,0,0,0,0,0,0,0.0801664161057822,0.00495756502591144,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.513085342652956,0.52745125525596,0.434359137099159,0.405974145903856,0.572909929793709,0.399810008829701,0.414573256824189,0.464135990795671,0.449103283876296,0.407098602473158,0.286475810074873,0.414321332463947,0.268031959483673,0.0945084131504676,0.211878289366281,0.190760324464606,0.159715578577694,0.081359932135904,0.120876255993453,0.0978461107777356,0.098117166361508,0.0750453505157095,0.170791632053301,0.0990244263857601,0.109638387271474,0,0.129578075275077,0.141706336142815,0,0.0596387295197733,0.128033729919821,0.185379913858661,0.092873634605593,0.110822898586572,0.167478880586199,0.129315349880243,0.135404897539632,0.101427320830301,0.0952848897618635,0.100460678294351,0.132229279644795,0.0780974029773103,0.0846636701322259,0.117229416500102,0.118218759958678,0.242897000144792,0.091291089277545,0.0845301845292944,0,0,0
|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000221!5.06e-26!44;CL:0000133!5.06e-26!44;CL:0002319!3.93e-25!43;CL:0000055!3.84e-21!49;CL:0000540!7.16e-19!33;CL:0000047!7.16e-19!33;CL:0000031!7.16e-19!33;CL:0000404!7.16e-19!33;CL:0000117!1.33e-15!23;CL:0000337!1.33e-15!23;CL:0000393!4.18e-15!39;CL:0000211!4.18e-15!39;CL:0002321!2.34e-10!70;CL:0000333!4.78e-07!10;CL:0000095!4.78e-07!10;CL:0000243!4.78e-07!10;CL:0000123!4.78e-07!10;CL:0000125!4.78e-07!10;CL:0000030!4.78e-07!10;CL:0000339!4.78e-07!10
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001016!2.85e-41!75;UBERON:0001017!1.66e-40!73;UBERON:0004121!8.93e-37!95;UBERON:0000924!8.93e-37!95;UBERON:0006601!8.93e-37!95;UBERON:0002346!1.22e-30!64;UBERON:0003075!1.22e-30!64;UBERON:0007284!1.22e-30!64;UBERON:0000073!3.59e-29!54;UBERON:0001049!2.38e-27!52;UBERON:0005068!2.38e-27!52;UBERON:0006241!2.38e-27!52;UBERON:0007135!2.38e-27!52;UBERON:0010371!1.41e-26!73;UBERON:0000955!3.36e-24!47;UBERON:0006238!3.36e-24!47;UBERON:0002616!1.39e-23!46;UBERON:0003056!5.08e-23!49;UBERON:0002020!7.69e-23!34;UBERON:0010314!4.77e-21!92;UBERON:0003080!9.65e-21!40;UBERON:0002780!2.25e-20!39;UBERON:0001890!2.25e-20!39;UBERON:0006240!2.25e-20!39;UBERON:0003528!1.51e-19!29;UBERON:0002791!1.51e-19!29;UBERON:0001893!1.51e-19!29;UBERON:0000956!1.65e-16!21;UBERON:0001869!1.65e-16!21;UBERON:0000203!1.65e-16!21;UBERON:0002619!2.08e-13!17;UBERON:0002021!1.92e-08!10;UBERON:0000411!1.92e-08!10;UBERON:0001950!1.92e-08!10;UBERON:0003076!4.37e-07!12;UBERON:0003057!4.37e-07!12
}}
}}

Revision as of 21:04, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr13:78335687..78335701,-p16@Nr2f1
Mm9::chr13:78335738..78335747,-p24@Nr2f1
Mm9::chr13:78338057..78338069,-p11@Nr2f1
Mm9::chr13:78338076..78338104,-p4@Nr2f1
Mm9::chr13:78338274..78338297,+p@chr13:78338274..78338297
+
Mm9::chr13:78339382..78339420,-p3@Nr2f1
Mm9::chr13:78339428..78339466,-p2@Nr2f1
Mm9::chr13:78339476..78339515,-p1@Nr2f1
Mm9::chr13:78342691..78342713,-p@chr13:78342691..78342713
-
Mm9::chr17:56594384..56594396,-p@chr17:56594384..56594396
-
Mm9::chr1:42752559..42752566,+p3@Pou3f3


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
nervous system2.85e-4175
central nervous system1.66e-4073
ectoderm-derived structure8.93e-3795
ectoderm8.93e-3795
presumptive ectoderm8.93e-3795
neurectoderm1.22e-3064
neural plate1.22e-3064
presumptive neural plate1.22e-3064
regional part of nervous system3.59e-2954
neural tube2.38e-2752
neural rod2.38e-2752
future spinal cord2.38e-2752
neural keel2.38e-2752
ecto-epithelium1.41e-2673
brain3.36e-2447
future brain3.36e-2447
regional part of brain1.39e-2346
pre-chordal neural plate5.08e-2349
gray matter7.69e-2334
structure with developmental contribution from neural crest4.77e-2192
anterior neural tube9.65e-2140
regional part of forebrain2.25e-2039
forebrain2.25e-2039
future forebrain2.25e-2039
brain grey matter1.51e-1929
regional part of telencephalon1.51e-1929
telencephalon1.51e-1929
cerebral cortex1.65e-1621
cerebral hemisphere1.65e-1621
pallium1.65e-1621
regional part of cerebral cortex2.08e-1317
occipital lobe1.92e-0810
visual cortex1.92e-0810
neocortex1.92e-0810
posterior neural tube4.37e-0712
chordal neural plate4.37e-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}}}

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