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Coexpression cluster:C431

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Full id: C431_acute_leukemia_Mast_leiomyoblastoma_chronic_immature_CD34



Phase1 CAGE Peaks

Hg19::chr11:58611957..58611975,-p2@GLYATL2
Hg19::chr12:116985635..116985640,-p@chr12:116985635..116985640
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Hg19::chr12:116985694..116985708,-p@chr12:116985694..116985708
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Hg19::chr18:45479920..45479950,-p@chr18:45479920..45479950
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Hg19::chr1:230410128..230410174,+p@chr1:230410128..230410174
+
Hg19::chr1:230410177..230410188,+p@chr1:230410177..230410188
+
Hg19::chr1:246345465..246345467,-p@chr1:246345465..246345467
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Hg19::chr1:246347752..246347761,-p@chr1:246347752..246347761
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Hg19::chr1:246347797..246347809,-p@chr1:246347797..246347809
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Hg19::chr1:246347830..246347835,-p@chr1:246347830..246347835
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Hg19::chr1:246347998..246348004,-p@chr1:246347998..246348004
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Hg19::chr1:246350179..246350186,-p@chr1:246350179..246350186
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Hg19::chr1:246350204..246350229,-p@chr1:246350204..246350229
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Hg19::chr1:246350240..246350281,-p@chr1:246350240..246350281
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Hg19::chr1:246350393..246350413,-p@chr1:246350393..246350413
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Hg19::chr1:3105351..3105356,-p@chr1:3105351..3105356
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Hg19::chr2:105277766..105277771,+p@chr2:105277766..105277771
+
Hg19::chr4:54966328..54966335,+p1@GSX2
Hg19::chr4:57522753..57522760,-p18@HOPX
Hg19::chr4:96210568..96210572,+p@chr4:96210568..96210572
+
Hg19::chr7:142411990..142411991,+p@chr7:142411990..142411991
+
Hg19::chr7:1894156..1894165,-p@chr7:1894156..1894165
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Hg19::chr7:26591452..26591463,+p1@ENST00000457000


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:0043416regulation of skeletal muscle regeneration0.00153655951960438
GO:0051153regulation of striated muscle cell differentiation0.00153655951960438
GO:0043415positive regulation of skeletal muscle regeneration0.00153655951960438
GO:0051149positive regulation of muscle cell differentiation0.00153655951960438
GO:0051155positive regulation of striated muscle cell differentiation0.00153655951960438
GO:0047961glycine N-acyltransferase activity0.00384105956936706
GO:0051147regulation of muscle cell differentiation0.00384105956936706
GO:0043403skeletal muscle regeneration0.00384105956936706
GO:0051146striated muscle cell differentiation0.012287049121659
GO:0042246tissue regeneration0.012287049121659
GO:0031099regeneration0.0125655603112768
GO:0043565sequence-specific DNA binding0.0140697158532347
GO:0048589developmental growth0.0218432594422842
GO:0042692muscle cell differentiation0.0240401833615157
GO:0045597positive regulation of cell differentiation0.0240401833615157
GO:0003700transcription factor activity0.0306706194259049
GO:0051094positive regulation of developmental process0.0306706194259049
GO:0014706striated muscle development0.0358946964492108
GO:0016410N-acyltransferase activity0.0358946964492108
GO:0007507heart development0.0360103844931409
GO:0000122negative regulation of transcription from RNA polymerase II promoter0.0455727226273163
GO:0042060wound healing0.0455727226273163
GO:0045595regulation of cell differentiation0.0475396809385267
GO:0007275multicellular organismal development0.0475396809385267



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><br>disease_data<br>

Cell Type
Ontology termp-valuen
myeloid cell4.22e-08108
common myeloid progenitor4.22e-08108
Disease
Ontology termp-valuen
myeloid leukemia2.93e-2631
leukemia4.38e-2139
hematologic cancer2.36e-1651
immune system cancer2.36e-1651


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

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
GATA2#262463.324764800057560.007322245068391930.0302838568310544



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.

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