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Coexpression cluster:C1321: Difference between revisions

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|gostat_on_coexpression_clusters=GO:0017162!aryl hydrocarbon receptor binding!0.00223713646532438!9915$GO:0005061!aryl hydrocarbon receptor nuclear translocator activity!0.00223713646532438!9915$GO:0001666!response to hypoxia!0.0279642058165548!9915$GO:0001701!in utero embryonic development!0.0279642058165548!9915$GO:0009792!embryonic development ending in birth or egg hatching!0.0335570469798658!9915$GO:0043009!chordate embryonic development!0.0335570469798658!9915$GO:0046982!protein heterodimerization activity!0.0335570469798658!9915$GO:0045944!positive regulation of transcription from RNA polymerase II promoter!0.0388702460850112!9915$GO:0005057!receptor signaling protein activity!0.0404405437962485!9915$GO:0005667!transcription factor complex!0.0404405437962485!9915$GO:0045893!positive regulation of transcription, DNA-dependent!0.0404405437962485!9915$GO:0007417!central nervous system development!0.0404405437962485!9915$GO:0009790!embryonic development!0.0404405437962485!9915$GO:0045941!positive regulation of transcription!0.0431021625652498!9915$GO:0045935!positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process!0.0431021625652498!9915$GO:0031325!positive regulation of cellular metabolic process!0.0481516991584106!9915$GO:0046983!protein dimerization activity!0.0481516991584106!9915$GO:0009893!positive regulation of metabolic process!0.0481516991584106!9915$GO:0006357!regulation of transcription from RNA polymerase II promoter!0.0481516991584106!9915$GO:0008134!transcription factor binding!0.0481516991584106!9915$GO:0044451!nucleoplasm part!0.0481516991584106!9915
|gostat_on_coexpression_clusters=GO:0017162!aryl hydrocarbon receptor binding!0.00223713646532438!9915$GO:0005061!aryl hydrocarbon receptor nuclear translocator activity!0.00223713646532438!9915$GO:0001666!response to hypoxia!0.0279642058165548!9915$GO:0001701!in utero embryonic development!0.0279642058165548!9915$GO:0009792!embryonic development ending in birth or egg hatching!0.0335570469798658!9915$GO:0043009!chordate embryonic development!0.0335570469798658!9915$GO:0046982!protein heterodimerization activity!0.0335570469798658!9915$GO:0045944!positive regulation of transcription from RNA polymerase II promoter!0.0388702460850112!9915$GO:0005057!receptor signaling protein activity!0.0404405437962485!9915$GO:0005667!transcription factor complex!0.0404405437962485!9915$GO:0045893!positive regulation of transcription, DNA-dependent!0.0404405437962485!9915$GO:0007417!central nervous system development!0.0404405437962485!9915$GO:0009790!embryonic development!0.0404405437962485!9915$GO:0045941!positive regulation of transcription!0.0431021625652498!9915$GO:0045935!positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process!0.0431021625652498!9915$GO:0031325!positive regulation of cellular metabolic process!0.0481516991584106!9915$GO:0046983!protein dimerization activity!0.0481516991584106!9915$GO:0009893!positive regulation of metabolic process!0.0481516991584106!9915$GO:0006357!regulation of transcription from RNA polymerase II promoter!0.0481516991584106!9915$GO:0008134!transcription factor binding!0.0481516991584106!9915$GO:0044451!nucleoplasm part!0.0481516991584106!9915
|id=C1321
|id=C1321
|ontology_enrichment_celltype=CL:0000055!1.11e-17!180;CL:0000183!4.23e-15!59;CL:0000187!3.29e-14!54;CL:0000680!3.80e-14!57;CL:0000056!3.80e-14!57;CL:0000355!3.80e-14!57;CL:0000393!1.42e-11!60;CL:0000211!1.42e-11!60;CL:0000192!5.67e-11!42;CL:0000514!5.67e-11!42;CL:0000057!9.19e-11!75;CL:0000359!1.87e-08!32
|ontology_enrichment_celltype=CL:0000183!1.02e-16!59;CL:0000187!2.43e-15!55;CL:0000680!3.94e-14!58;CL:0000056!3.94e-14!58;CL:0000355!3.94e-14!58;CL:0000393!4.77e-13!61;CL:0000211!4.77e-13!61;CL:0000057!5.16e-13!76;CL:0000055!2.59e-10!106;CL:0002620!3.03e-10!23;CL:0000192!7.00e-10!43;CL:0000514!7.00e-10!43;CL:0000708!4.95e-07!3;CL:0002590!8.03e-07!3
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002616!1.20e-27!59;UBERON:0003075!4.25e-26!86;UBERON:0007284!4.25e-26!86;UBERON:0001049!4.31e-26!57;UBERON:0005068!4.31e-26!57;UBERON:0006241!4.31e-26!57;UBERON:0007135!4.31e-26!57;UBERON:0000119!1.12e-25!312;UBERON:0000475!6.03e-25!365;UBERON:0000483!4.09e-24!309;UBERON:0002346!2.57e-23!90;UBERON:0007023!1.38e-22!115;UBERON:0000955!1.61e-22!69;UBERON:0006238!1.61e-22!69;UBERON:0000025!3.87e-21!194;UBERON:0001017!4.84e-21!82;UBERON:0005743!7.73e-21!86;UBERON:0000481!1.14e-20!347;UBERON:0000073!4.04e-19!94;UBERON:0001016!4.04e-19!94;UBERON:0000477!5.98e-19!286;UBERON:0003080!8.64e-18!42;UBERON:0002780!1.16e-17!41;UBERON:0001890!1.16e-17!41;UBERON:0006240!1.16e-17!41;UBERON:0000033!1.50e-17!123;UBERON:0000153!2.58e-17!129;UBERON:0007811!2.58e-17!129;UBERON:0001893!3.40e-17!34;UBERON:0002020!3.44e-17!34;UBERON:0003528!3.44e-17!34;UBERON:0003056!4.63e-17!61;UBERON:0002791!1.17e-16!33;UBERON:0004290!5.64e-16!70;UBERON:0001869!6.47e-16!32;UBERON:0004111!9.18e-16!241;UBERON:0000914!1.67e-15!83;UBERON:0002329!1.67e-15!83;UBERON:0003077!1.67e-15!83;UBERON:0003059!1.67e-15!83;UBERON:0007282!1.67e-15!83;UBERON:0009618!1.67e-15!83;UBERON:0007285!1.67e-15!83;UBERON:0002385!3.53e-15!63;UBERON:0001015!3.53e-15!63;UBERON:0000383!3.53e-15!63;UBERON:0004121!7.12e-15!169;UBERON:0001134!7.88e-15!61;UBERON:0002036!7.88e-15!61;UBERON:0003082!7.88e-15!61;UBERON:0000467!3.70e-14!625;UBERON:0000480!3.99e-14!626;UBERON:0000062!1.01e-13!511;UBERON:0000468!1.21e-13!659;UBERON:0000924!1.32e-13!173;UBERON:0006601!1.32e-13!173;UBERON:0005256!3.95e-13!143;UBERON:0000956!2.09e-12!25;UBERON:0000203!2.09e-12!25;UBERON:0000486!1.05e-11!82;UBERON:0002619!3.15e-11!22;UBERON:0000064!1.41e-10!219;UBERON:0001950!1.77e-10!20;UBERON:0003076!1.30e-09!15;UBERON:0003057!1.30e-09!15;UBERON:0007100!1.47e-09!27;UBERON:0000922!1.56e-09!612;UBERON:0002050!2.14e-09!605;UBERON:0005423!2.14e-09!605;UBERON:0000923!3.00e-09!604;UBERON:0005291!3.00e-09!604;UBERON:0006598!3.00e-09!604;UBERON:0002532!3.00e-09!604;UBERON:0000948!3.04e-09!24;UBERON:0005498!3.04e-09!24;UBERON:0004140!3.04e-09!24;UBERON:0009881!3.04e-09!24;UBERON:0004141!3.04e-09!24;UBERON:0003084!3.04e-09!24;UBERON:0007005!3.04e-09!24;UBERON:0004139!3.04e-09!24;UBERON:0004291!3.04e-09!24;UBERON:0004732!2.06e-08!13;UBERON:0003103!5.83e-08!69;UBERON:0004733!9.55e-08!12;UBERON:0002028!9.55e-08!12;UBERON:0007277!9.55e-08!12;UBERON:0000479!1.41e-07!787;UBERON:0002200!2.79e-07!11;UBERON:0006876!2.79e-07!11;UBERON:0003914!4.39e-07!118
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}}
}}

Revision as of 11:08, 19 October 2012


Full id: C1321_Meningeal_Pericytes_Smooth_Hepatic_spinal_Ciliary_corpus



Phase1 CAGE Peaks

Hg19::chr10:74020629..74020634,-p@chr10:74020629..74020634
-
Hg19::chr15:80842979..80842998,+p20@ARNT2
Hg19::chr15:80843484..80843499,+p5@ARNT2
Hg19::chr1:7740930..7740951,-p@chr1:7740930..7740951
-
Hg19::chr20:36889098..36889118,-p2@KIAA1755
Hg19::chr8:36519052..36519065,+p@chr8:36519052..36519065
+


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

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data


GO IDGO nameFDR corrected p-value
GO:0017162aryl hydrocarbon receptor binding0.00223713646532438
GO:0005061aryl hydrocarbon receptor nuclear translocator activity0.00223713646532438
GO:0001666response to hypoxia0.0279642058165548
GO:0001701in utero embryonic development0.0279642058165548
GO:0009792embryonic development ending in birth or egg hatching0.0335570469798658
GO:0043009chordate embryonic development0.0335570469798658
GO:0046982protein heterodimerization activity0.0335570469798658
GO:0045944positive regulation of transcription from RNA polymerase II promoter0.0388702460850112
GO:0005057receptor signaling protein activity0.0404405437962485
GO:0005667transcription factor complex0.0404405437962485
GO:0045893positive regulation of transcription, DNA-dependent0.0404405437962485
GO:0007417central nervous system development0.0404405437962485
GO:0009790embryonic development0.0404405437962485
GO:0045941positive regulation of transcription0.0431021625652498
GO:0045935positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0431021625652498
GO:0031325positive regulation of cellular metabolic process0.0481516991584106
GO:0046983protein dimerization activity0.0481516991584106
GO:0009893positive regulation of metabolic process0.0481516991584106
GO:0006357regulation of transcription from RNA polymerase II promoter0.0481516991584106
GO:0008134transcription factor binding0.0481516991584106
GO:0044451nucleoplasm part0.0481516991584106



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>



Overrepresented TFBS (DNA) motifs on this co-expression cluster<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}}}



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data


No analysis results for this cluster

Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data


This analysis result is provided for C0 - C305 clusters.