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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C290_Eosinophils_CD14_Basophils_Mast_CD4_CD8_immature
|full_id=C290_Eosinophils_CD14_Basophils_Mast_CD4_CD8_immature
|gostat_on_coexpression_clusters=GO:0050789!regulation of biological process!0.0148046825618672!7187;11177;63925;5734;5991;7128;10260;10209;22882$GO:0065007!biological regulation!0.0157128152988876!7187;11177;63925;5734;5991;7128;10260;10209;22882$GO:0050794!regulation of cellular process!0.0247774628528408!63925;5991;7128;22882;7187;10209;10260;11177$GO:0000228!nuclear chromosome!0.0273609379661523!3020;11177$GO:0044424!intracellular part!0.0273609379661523!10730;3020;7187;11177;63925;5991;7128;22882;10260;10209;57132$GO:0003677!DNA binding!0.0273609379661523!63925;3020;5991;7128;22882;10260$GO:0001740!Barr body!0.0273609379661523!3020$GO:0000805!X chromosome!0.0273609379661523!3020$GO:0043231!intracellular membrane-bound organelle!0.0273609379661523!10730;3020;11177;63925;5991;7128;10260;22882;57132$GO:0043227!membrane-bound organelle!0.0273609379661523!10730;3020;11177;63925;5991;7128;10260;22882;57132$GO:0010468!regulation of gene expression!0.0292000980264414!63925;5991;22882;10209;10260;11177$GO:0000803!sex chromosome!0.0292000980264414!3020$GO:0001739!sex chromatin!0.0292000980264414!3020$GO:0031323!regulation of cellular metabolic process!0.0292000980264414!63925;5991;22882;10209;10260;11177$GO:0043124!negative regulation of I-kappaB kinase/NF-kappaB cascade!0.0313510836916462!7128$GO:0019222!regulation of metabolic process!0.0322328454910958!63925;5991;22882;10209;10260;11177$GO:0008270!zinc ion binding!0.0322328454910958!63925;10730;7128;22882;7187;11177$GO:0005634!nucleus!0.0388675441935308!63925;3020;5991;7128;22882;10260;11177$GO:0043283!biopolymer metabolic process!0.0388675441935308!10730;3020;11177;63925;5991;7128;10260;22882$GO:0005720!nuclear heterochromatin!0.0452201402484462!3020$GO:0003676!nucleic acid binding!0.0452201402484462!63925;3020;5991;7128;22882;10209;10260$GO:0016481!negative regulation of transcription!0.0452201402484462!5991;22882$GO:0043229!intracellular organelle!0.0452201402484462!10730;3020;11177;63925;5991;7128;10260;22882;57132$GO:0043226!organelle!0.0452201402484462!10730;3020;11177;63925;5991;7128;10260;22882;57132$GO:0006355!regulation of transcription, DNA-dependent!0.0452201402484462!63925;5991;22882;10260;11177$GO:0046914!transition metal ion binding!0.0452201402484462!63925;10730;7128;22882;7187;11177$GO:0044464!cell part!0.0452201402484462!10730;3020;7187;51249;11177;63925;5734;5991;7128;22882;10260;10209;57132$GO:0045934!negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process!0.0452201402484462!5991;22882$GO:0004957!prostaglandin E receptor activity!0.0452201402484462!5734$GO:0006351!transcription, DNA-dependent!0.0452201402484462!63925;5991;22882;10260;11177$GO:0032774!RNA biosynthetic process!0.0452201402484462!63925;5991;22882;10260;11177$GO:0030278!regulation of ossification!0.0455985375246441!5734$GO:0005622!intracellular!0.0455985375246441!10730;3020;7187;11177;63925;5991;7128;22882;10260;10209;57132$GO:0000792!heterochromatin!0.0459337836461696!3020$GO:0048523!negative regulation of cellular process!0.0459337836461696!5991;7128;22882$GO:0004955!prostaglandin receptor activity!0.0459337836461696!5734$GO:0000790!nuclear chromatin!0.0459337836461696!3020$GO:0045449!regulation of transcription!0.0459337836461696!63925;5991;22882;10260;11177$GO:0031324!negative regulation of cellular metabolic process!0.0459337836461696!5991;22882$GO:0046850!regulation of bone remodeling!0.0459337836461696!5734$GO:0048519!negative regulation of biological process!0.0459337836461696!5991;7128;22882$GO:0019219!regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process!0.0459337836461696!63925;5991;22882;10260;11177$GO:0004953!icosanoid receptor activity!0.0459337836461696!5734$GO:0003705!RNA polymerase II transcription factor activity, enhancer binding!0.0459337836461696!5991$GO:0004954!prostanoid receptor activity!0.0459337836461696!5734$GO:0006350!transcription!0.0459337836461696!63925;5991;22882;10260;11177$GO:0010467!gene expression!0.0459337836461696!63925;5991;22882;10209;10260;11177$GO:0006402!mRNA catabolic process!0.0471613307300842!22882$GO:0009892!negative regulation of metabolic process!0.0488373563300737!5991;22882
|id=C290
|id=C290
}}
}}

Revision as of 17:38, 18 May 2012


Full id: C290_Eosinophils_CD14_Basophils_Mast_CD4_CD8_immature



Phase1 CAGE Peaks

Hg19::chr10:104155305..104155351,-p@chr10:104155305..104155351
-
Hg19::chr10:27444072..27444081,-p9@YME1L1
Hg19::chr10:27444113..27444140,-p3@YME1L1
Hg19::chr11:35068956..35068967,-p@chr11:35068956..35068967
-
Hg19::chr11:35068999..35069019,-p@chr11:35068999..35069019
-
Hg19::chr11:35104126..35104150,-p@chr11:35104126..35104150
-
Hg19::chr12:31945225..31945237,-p1@H3F3C
Hg19::chr12:62996849..62996863,+p@chr12:62996849..62996863
+
Hg19::chr14:103243813..103243954,+p1@TRAF3
Hg19::chr14:24711615..24711644,+p@chr14:24711615..24711644
+
Hg19::chr14:24711941..24711990,+p@chr14:24711941..24711990
+
Hg19::chr14:35344580..35344591,-p3@BAZ1A
Hg19::chr15:45003493..45003500,-p5@PATL2
Hg19::chr15:66084428..66084478,-p1@DENND4A
Hg19::chr17:39845134..39845142,+p1@EIF1
Hg19::chr17:56415424..56415454,-p@chr17:56415424..56415454
-
Hg19::chr17:63053123..63053164,+p@chr17:63053123..63053164
+
Hg19::chr17:73775848..73775868,-p1@H3F3A
p1@H3F3B
Hg19::chr18:11851403..11851428,+p1@CHMP1B
Hg19::chr18:48405312..48405340,-p@chr18:48405312..48405340
-
Hg19::chr19:47616682..47616696,+p@chr19:47616682..47616696
+
Hg19::chr19:48825442..48825465,+p@chr19:48825442..48825465
+
Hg19::chr1:181057828..181057846,+p1@IER5
Hg19::chr1:203274370..203274382,-p3@ENST00000432511
Hg19::chr1:204380531..204380560,+p1@BC009873
Hg19::chr1:45275366..45275381,-p@chr1:45275366..45275381
-
Hg19::chr1:46153015..46153034,+p2@TMEM69
Hg19::chr1:66801861..66801890,-p@chr1:66801861..66801890
-
Hg19::chr20:44600810..44600853,-p1@ZNF335
Hg19::chr2:128145779..128145837,+p@chr2:128145779..128145837
+
Hg19::chr3:195269598..195269612,+p@chr3:195269598..195269612
+
Hg19::chr4:80993447..80993469,+p@chr4:80993447..80993469
+
Hg19::chr5:40680009..40680062,+p1@PTGER4
Hg19::chr6:138188378..138188415,+p1@TNFAIP3
Hg19::chr6:143267648..143267661,-p@chr6:143267648..143267661
-
Hg19::chr6:16760246..16760257,+p@chr6:16760246..16760257
+
Hg19::chr6:31240053..31240069,+p@chr6:31240053..31240069
+
Hg19::chr6:43192145..43192186,-p@chr6:43192145..43192186
-
Hg19::chr7:115851107..115851141,-p2@uc003vhn.1
Hg19::chr8:101962922..101962946,+p@chr8:101962922..101962946
+
Hg19::chr8:123793988..123794016,+p1@ZHX2
Hg19::chr9:3526360..3526421,-p5@RFX3
Hg19::chr9:91925676..91925735,-p@chr9:91925676..91925735
-
Hg19::chr9:96329032..96329074,+p@chr9:96329032..96329074
+


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:0050789regulation of biological process0.0148046825618672
GO:0065007biological regulation0.0157128152988876
GO:0050794regulation of cellular process0.0247774628528408
GO:0000228nuclear chromosome0.0273609379661523
GO:0044424intracellular part0.0273609379661523
GO:0003677DNA binding0.0273609379661523
GO:0001740Barr body0.0273609379661523
GO:0000805X chromosome0.0273609379661523
GO:0043231intracellular membrane-bound organelle0.0273609379661523
GO:0043227membrane-bound organelle0.0273609379661523
GO:0010468regulation of gene expression0.0292000980264414
GO:0000803sex chromosome0.0292000980264414
GO:0001739sex chromatin0.0292000980264414
GO:0031323regulation of cellular metabolic process0.0292000980264414
GO:0043124negative regulation of I-kappaB kinase/NF-kappaB cascade0.0313510836916462
GO:0019222regulation of metabolic process0.0322328454910958
GO:0008270zinc ion binding0.0322328454910958
GO:0005634nucleus0.0388675441935308
GO:0043283biopolymer metabolic process0.0388675441935308
GO:0005720nuclear heterochromatin0.0452201402484462
GO:0003676nucleic acid binding0.0452201402484462
GO:0016481negative regulation of transcription0.0452201402484462
GO:0043229intracellular organelle0.0452201402484462
GO:0043226organelle0.0452201402484462
GO:0006355regulation of transcription, DNA-dependent0.0452201402484462
GO:0046914transition metal ion binding0.0452201402484462
GO:0044464cell part0.0452201402484462
GO:0045934negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0452201402484462
GO:0004957prostaglandin E receptor activity0.0452201402484462
GO:0006351transcription, DNA-dependent0.0452201402484462
GO:0032774RNA biosynthetic process0.0452201402484462
GO:0030278regulation of ossification0.0455985375246441
GO:0005622intracellular0.0455985375246441
GO:0000792heterochromatin0.0459337836461696
GO:0048523negative regulation of cellular process0.0459337836461696
GO:0004955prostaglandin receptor activity0.0459337836461696
GO:0000790nuclear chromatin0.0459337836461696
GO:0045449regulation of transcription0.0459337836461696
GO:0031324negative regulation of cellular metabolic process0.0459337836461696
GO:0046850regulation of bone remodeling0.0459337836461696
GO:0048519negative regulation of biological process0.0459337836461696
GO:0019219regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0459337836461696
GO:0004953icosanoid receptor activity0.0459337836461696
GO:0003705RNA polymerase II transcription factor activity, enhancer binding0.0459337836461696
GO:0004954prostanoid receptor activity0.0459337836461696
GO:0006350transcription0.0459337836461696
GO:0010467gene expression0.0459337836461696
GO:0006402mRNA catabolic process0.0471613307300842
GO:0009892negative regulation of metabolic process0.0488373563300737



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


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

"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.

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