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MCL coexpression mm9:366: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0.064513712786576,0.311102189727974,0.200866605247643,0.400075138318148,0.322381917995367,0.223110820673195,0.286557635189855,0.279902884023853,0.153011413271348,0.0913378685245542,0,0,0.0686313343811508,0.0594304838693171,0,0,0,0,0.0250810235420161,0,0.0354470656487682,0.0411126530948397,0,0,0,0.197068726315728,0,0.15562217221269,0,0,0,0.213525904512698,0,0,0.74986194265644,0.300466757177931,0.755561989569943,0.110120272743666,0,0,0.266581807797932,0,0,0,0.0676668207908573,0.035253346583928,0,0,0,0,0,0,0.0968930555241724,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1.03889620755247,0,0,0,0,0,0,0,0,0,0.110752907743889,0,0,0,0.0851089148667383,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.170044660063349,0.204093579732844,0.178482233814886,0,0,0,0,0,0,0,0,0.0509235292940968,0,0,0,0,0,0,0.0285860945550467,0,0,0,0,0,0,0,0,0,0,0,0,0.248474432959756,0.108620321524749,0,0,0,0,0,0,0,0,0,0,0,0,0.0402274649448034,0,0,0,0.0107515240534403,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0659019793256198,0,0.0169536039319973,0,0,0,0,0,0.0481354699899057,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0173402147929238,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0662835200988411,0,0.0254340553719351,0,0,0,0,0,0,0,0,0,0,0.178958335501038,0.25508681547166,0.15063362961962,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0114382364015301,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0045608;negative regulation of auditory receptor cell differentiation;0.00258274569346722;15205!GO:0045605;negative regulation of epidermal cell differentiation;0.00258274569346722;15205!GO:0045632;negative regulation of mechanoreceptor differentiation;0.00258274569346722;15205!GO:0045683;negative regulation of epidermis development;0.00258274569346722;15205!GO:0042668;auditory receptor cell fate determination;0.00258274569346722;15205!GO:0045607;regulation of auditory receptor cell differentiation;0.00258274569346722;15205!GO:0045631;regulation of mechanoreceptor differentiation;0.00258274569346722;15205!GO:0009912;auditory receptor cell fate commitment;0.00273927573549553;15205!GO:0048505;regulation of timing of cell differentiation;0.00273927573549553;15205!GO:0040034;regulation of development, heterochronic;0.00273927573549553;15205!GO:0060120;inner ear receptor cell fate commitment;0.00273927573549553;15205!GO:0045604;regulation of epidermal cell differentiation;0.00301320330904509;15205!GO:0045682;regulation of epidermis development;0.00370855791882473;15205!GO:0045665;negative regulation of neuron differentiation;0.00688732184924592;15205!GO:0021983;pituitary gland development;0.00723168794170821;15205!GO:0021536;diencephalon development;0.0074443846458761;15205!GO:0001889;liver development;0.0074443846458761;15205!GO:0042491;auditory receptor cell differentiation;0.00761230309653496;15205!GO:0001709;cell fate determination;0.00761230309653496;15205!GO:0045664;regulation of neuron differentiation;0.00774823708040166;15205!GO:0060113;inner ear receptor cell differentiation;0.00774823708040166;15205!GO:0042490;mechanoreceptor differentiation;0.00903960992713526;15205!GO:0009913;epidermal cell differentiation;0.00917061876665896;15205!GO:0035270;endocrine system development;0.0118117569714568;15205!GO:0048730;epidermis morphogenesis;0.0118117569714568;15205!GO:0030324;lung development;0.0143127157179642;15205!GO:0030323;respiratory tube development;0.0143127157179642;15205!GO:0048839;inner ear development;0.0143127157179642;15205!GO:0048732;gland development;0.0143127157179642;15205!GO:0048469;cell maturation;0.0143127157179642;15205!GO:0048729;tissue morphogenesis;0.0143127157179642;15205!GO:0043583;ear development;0.0143127157179642;15205!GO:0045596;negative regulation of cell differentiation;0.0155225625011414;15205!GO:0021700;developmental maturation;0.0160175544322923;15205!GO:0008544;epidermis development;0.0160175544322923;15205!GO:0030900;forebrain development;0.0160175544322923;15205!GO:0045165;cell fate commitment;0.0160175544322923;15205!GO:0007398;ectoderm development;0.0160175544322923;15205!GO:0051093;negative regulation of developmental process;0.0160704176482405;15205!GO:0000122;negative regulation of transcription from RNA polymerase II promoter;0.0210924231633156;15205!GO:0045595;regulation of cell differentiation;0.0219533383944714;15205!GO:0016564;transcription repressor activity;0.0219533383944714;15205!GO:0008284;positive regulation of cell proliferation;0.0244986529909318;15205!GO:0007420;brain development;0.0244986529909318;15205!GO:0007423;sensory organ development;0.0244986529909318;15205!GO:0045892;negative regulation of transcription, DNA-dependent;0.0244986529909318;15205!GO:0035295;tube development;0.025772504898641;15205!GO:0007417;central nervous system development;0.029002081849559;15205!GO:0016481;negative regulation of transcription;0.0292711178592952;15205!GO:0045934;negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;0.0302501979260997;15205!GO:0050793;regulation of developmental process;0.0302501979260997;15205!GO:0030182;neuron differentiation;0.0319513256544026;15205!GO:0009888;tissue development;0.0319513256544026;15205!GO:0031324;negative regulation of cellular metabolic process;0.0325872357867099;15205!GO:0048699;generation of neurons;0.0341137660345462;15205!GO:0042127;regulation of cell proliferation;0.0341137660345462;15205!GO:0009892;negative regulation of metabolic process;0.0348897225257852;15205!GO:0022008;neurogenesis;0.0351194040847324;15205!GO:0006357;regulation of transcription from RNA polymerase II promoter;0.0388141443199028;15205!GO:0006366;transcription from RNA polymerase II promoter;0.0422852864369327;15205!GO:0008283;cell proliferation;0.0456426206156994;15205!GO:0009887;organ morphogenesis;0.0484056531582082;15205!
|gostat_on_MCL_coexpression=GO:0045608;negative regulation of auditory receptor cell differentiation;0.00258274569346722;15205!GO:0045605;negative regulation of epidermal cell differentiation;0.00258274569346722;15205!GO:0045632;negative regulation of mechanoreceptor differentiation;0.00258274569346722;15205!GO:0045683;negative regulation of epidermis development;0.00258274569346722;15205!GO:0042668;auditory receptor cell fate determination;0.00258274569346722;15205!GO:0045607;regulation of auditory receptor cell differentiation;0.00258274569346722;15205!GO:0045631;regulation of mechanoreceptor differentiation;0.00258274569346722;15205!GO:0009912;auditory receptor cell fate commitment;0.00273927573549553;15205!GO:0048505;regulation of timing of cell differentiation;0.00273927573549553;15205!GO:0040034;regulation of development, heterochronic;0.00273927573549553;15205!GO:0060120;inner ear receptor cell fate commitment;0.00273927573549553;15205!GO:0045604;regulation of epidermal cell differentiation;0.00301320330904509;15205!GO:0045682;regulation of epidermis development;0.00370855791882473;15205!GO:0045665;negative regulation of neuron differentiation;0.00688732184924592;15205!GO:0021983;pituitary gland development;0.00723168794170821;15205!GO:0021536;diencephalon development;0.0074443846458761;15205!GO:0001889;liver development;0.0074443846458761;15205!GO:0042491;auditory receptor cell differentiation;0.00761230309653496;15205!GO:0001709;cell fate determination;0.00761230309653496;15205!GO:0045664;regulation of neuron differentiation;0.00774823708040166;15205!GO:0060113;inner ear receptor cell differentiation;0.00774823708040166;15205!GO:0042490;mechanoreceptor differentiation;0.00903960992713526;15205!GO:0009913;epidermal cell differentiation;0.00917061876665896;15205!GO:0035270;endocrine system development;0.0118117569714568;15205!GO:0048730;epidermis morphogenesis;0.0118117569714568;15205!GO:0030324;lung development;0.0143127157179642;15205!GO:0030323;respiratory tube development;0.0143127157179642;15205!GO:0048839;inner ear development;0.0143127157179642;15205!GO:0048732;gland development;0.0143127157179642;15205!GO:0048469;cell maturation;0.0143127157179642;15205!GO:0048729;tissue morphogenesis;0.0143127157179642;15205!GO:0043583;ear development;0.0143127157179642;15205!GO:0045596;negative regulation of cell differentiation;0.0155225625011414;15205!GO:0021700;developmental maturation;0.0160175544322923;15205!GO:0008544;epidermis development;0.0160175544322923;15205!GO:0030900;forebrain development;0.0160175544322923;15205!GO:0045165;cell fate commitment;0.0160175544322923;15205!GO:0007398;ectoderm development;0.0160175544322923;15205!GO:0051093;negative regulation of developmental process;0.0160704176482405;15205!GO:0000122;negative regulation of transcription from RNA polymerase II promoter;0.0210924231633156;15205!GO:0045595;regulation of cell differentiation;0.0219533383944714;15205!GO:0016564;transcription repressor activity;0.0219533383944714;15205!GO:0008284;positive regulation of cell proliferation;0.0244986529909318;15205!GO:0007420;brain development;0.0244986529909318;15205!GO:0007423;sensory organ development;0.0244986529909318;15205!GO:0045892;negative regulation of transcription, DNA-dependent;0.0244986529909318;15205!GO:0035295;tube development;0.025772504898641;15205!GO:0007417;central nervous system development;0.029002081849559;15205!GO:0016481;negative regulation of transcription;0.0292711178592952;15205!GO:0045934;negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;0.0302501979260997;15205!GO:0050793;regulation of developmental process;0.0302501979260997;15205!GO:0030182;neuron differentiation;0.0319513256544026;15205!GO:0009888;tissue development;0.0319513256544026;15205!GO:0031324;negative regulation of cellular metabolic process;0.0325872357867099;15205!GO:0048699;generation of neurons;0.0341137660345462;15205!GO:0042127;regulation of cell proliferation;0.0341137660345462;15205!GO:0009892;negative regulation of metabolic process;0.0348897225257852;15205!GO:0022008;neurogenesis;0.0351194040847324;15205!GO:0006357;regulation of transcription from RNA polymerase II promoter;0.0388141443199028;15205!GO:0006366;transcription from RNA polymerase II promoter;0.0422852864369327;15205!GO:0008283;cell proliferation;0.0456426206156994;15205!GO:0009887;organ morphogenesis;0.0484056531582082;15205!
}}
}}

Revision as of 12:40, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:61142788..61142812,-p@chr10:61142788..61142812
-
Mm9::chr11:120210728..120210741,-p@chr11:120210728..120210741
-
Mm9::chr11:69231755..69231768,+p@chr11:69231755..69231768
+
Mm9::chr11:70034726..70034742,+p@chr11:70034726..70034742
+
Mm9::chr12:40950158..40950203,+p@chr12:40950158..40950203
+
Mm9::chr13:64255017..64255028,+p@chr13:64255017..64255028
+
Mm9::chr15:79158013..79158024,+p@chr15:79158013..79158024
+
Mm9::chr15:85465336..85465350,+p@chr15:85465336..85465350
+
Mm9::chr16:30064250..30064282,+p6@Hes1
Mm9::chr18:6136418..6136425,+p@chr18:6136418..6136425
+
Mm9::chr1:174430288..174430293,-p@chr1:174430288..174430293
-
Mm9::chr1:90966570..90966579,-p@chr1:90966570..90966579
-
Mm9::chr3:131067652..131067658,-p@chr3:131067652..131067658
-
Mm9::chr4:134409493..134409529,+p@chr4:134409493..134409529
+
Mm9::chr6:48504716..48504730,-p@chr6:48504716..48504730
-
Mm9::chr7:117308382..117308389,-p@chr7:117308382..117308389
-
Mm9::chr7:19912585..19912612,-p@chr7:19912585..19912612
-
Mm9::chr7:26540490..26540493,+p@chr7:26540490..26540493
+
Mm9::chr7:52105222..52105237,-p@chr7:52105222..52105237
-
Mm9::chr8:73222216..73222226,-p@chr8:73222216..73222226
-
Mm9::chrX:71211824..71211845,+p@chrX:71211824..71211845
+


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:0045608negative regulation of auditory receptor cell differentiation0.00258274569346722
GO:0045605negative regulation of epidermal cell differentiation0.00258274569346722
GO:0045632negative regulation of mechanoreceptor differentiation0.00258274569346722
GO:0045683negative regulation of epidermis development0.00258274569346722
GO:0042668auditory receptor cell fate determination0.00258274569346722
GO:0045607regulation of auditory receptor cell differentiation0.00258274569346722
GO:0045631regulation of mechanoreceptor differentiation0.00258274569346722
GO:0009912auditory receptor cell fate commitment0.00273927573549553
GO:0048505regulation of timing of cell differentiation0.00273927573549553
GO:0040034regulation of development, heterochronic0.00273927573549553
GO:0060120inner ear receptor cell fate commitment0.00273927573549553
GO:0045604regulation of epidermal cell differentiation0.00301320330904509
GO:0045682regulation of epidermis development0.00370855791882473
GO:0045665negative regulation of neuron differentiation0.00688732184924592
GO:0021983pituitary gland development0.00723168794170821
GO:0021536diencephalon development0.0074443846458761
GO:0001889liver development0.0074443846458761
GO:0042491auditory receptor cell differentiation0.00761230309653496
GO:0001709cell fate determination0.00761230309653496
GO:0045664regulation of neuron differentiation0.00774823708040166
GO:0060113inner ear receptor cell differentiation0.00774823708040166
GO:0042490mechanoreceptor differentiation0.00903960992713526
GO:0009913epidermal cell differentiation0.00917061876665896
GO:0035270endocrine system development0.0118117569714568
GO:0048730epidermis morphogenesis0.0118117569714568
GO:0030324lung development0.0143127157179642
GO:0030323respiratory tube development0.0143127157179642
GO:0048839inner ear development0.0143127157179642
GO:0048732gland development0.0143127157179642
GO:0048469cell maturation0.0143127157179642
GO:0048729tissue morphogenesis0.0143127157179642
GO:0043583ear development0.0143127157179642
GO:0045596negative regulation of cell differentiation0.0155225625011414
GO:0021700developmental maturation0.0160175544322923
GO:0008544epidermis development0.0160175544322923
GO:0030900forebrain development0.0160175544322923
GO:0045165cell fate commitment0.0160175544322923
GO:0007398ectoderm development0.0160175544322923
GO:0051093negative regulation of developmental process0.0160704176482405
GO:0000122negative regulation of transcription from RNA polymerase II promoter0.0210924231633156
GO:0045595regulation of cell differentiation0.0219533383944714
GO:0016564transcription repressor activity0.0219533383944714
GO:0008284positive regulation of cell proliferation0.0244986529909318
GO:0007420brain development0.0244986529909318
GO:0007423sensory organ development0.0244986529909318
GO:0045892negative regulation of transcription, DNA-dependent0.0244986529909318
GO:0035295tube development0.025772504898641
GO:0007417central nervous system development0.029002081849559
GO:0016481negative regulation of transcription0.0292711178592952
GO:0045934negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0302501979260997
GO:0050793regulation of developmental process0.0302501979260997
GO:0030182neuron differentiation0.0319513256544026
GO:0009888tissue development0.0319513256544026
GO:0031324negative regulation of cellular metabolic process0.0325872357867099
GO:0048699generation of neurons0.0341137660345462
GO:0042127regulation of cell proliferation0.0341137660345462
GO:0009892negative regulation of metabolic process0.0348897225257852
GO:0022008neurogenesis0.0351194040847324
GO:0006357regulation of transcription from RNA polymerase II promoter0.0388141443199028
GO:0006366transcription from RNA polymerase II promoter0.0422852864369327
GO:0008283cell proliferation0.0456426206156994
GO:0009887organ morphogenesis0.0484056531582082



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>disease_data<br>

Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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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