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Coexpression cluster:C1047

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Full id: C1047_Whole_blood_CD14_Neutrophils_Eosinophils_Reticulocytes_Mast



Phase1 CAGE Peaks

Hg19::chr17:21188012..21188031,+p1@MAP2K3
Hg19::chr17:21188043..21188069,+p2@MAP2K3
Hg19::chr17:21188075..21188079,+p4@MAP2K3
Hg19::chr4:2801321..2801334,+p@chr4:2801321..2801334
+
Hg19::chr6:108882109..108882173,+p2@FOXO3
Hg19::chr6:108882364..108882391,+p4@FOXO3
Hg19::chr7:35469..35507,-p1@ENST00000469418
Hg19::chrX:67718803..67718831,-p@chrX:67718803..67718831
-


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


p.valueFDRnGenesnPathwayName
2.92938943019595e-050.01013069629868642155TGF-beta Receptor Signaling Pathway (Wikipathways):WP366
3.20085191111734e-050.01013069629868642162Insulin Signaling (Wikipathways):WP481



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:0045893positive regulation of transcription, DNA-dependent0.002668471739994
GO:0045941positive regulation of transcription0.002668471739994
GO:0045935positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.002668471739994
GO:0031325positive regulation of cellular metabolic process0.00293335680241988
GO:0009893positive regulation of metabolic process0.00293335680241988
GO:0045648positive regulation of erythrocyte differentiation0.00544534052623127
GO:0045646regulation of erythrocyte differentiation0.0079495422567252
GO:0004708MAP kinase kinase activity0.0079495422567252
GO:0004712protein serine/threonine/tyrosine kinase activity0.0079495422567252
GO:0045639positive regulation of myeloid cell differentiation0.0079495422567252
GO:0048522positive regulation of cellular process0.0079495422567252
GO:0048518positive regulation of biological process0.00903133988169789
GO:0030218erythrocyte differentiation0.0158625041483939
GO:0045637regulation of myeloid cell differentiation0.0158625041483939
GO:0045597positive regulation of cell differentiation0.0204618228353415
GO:0051094positive regulation of developmental process0.027745483969377
GO:0030099myeloid cell differentiation0.0295656607028872
GO:0019901protein kinase binding0.0300962908074367
GO:0019900kinase binding0.0340005992307244
GO:0045944positive regulation of transcription from RNA polymerase II promoter0.0393274420359954
GO:0045860positive regulation of protein kinase activity0.0393274420359954
GO:0045595regulation of cell differentiation0.0393274420359954
GO:0033674positive regulation of kinase activity0.0393274420359954
GO:0051347positive regulation of transferase activity0.0393274420359954
GO:0030097hemopoiesis0.0393274420359954
GO:0006355regulation of transcription, DNA-dependent0.0393274420359954
GO:0048534hemopoietic or lymphoid organ development0.0393274420359954
GO:0006351transcription, DNA-dependent0.0393274420359954
GO:0032774RNA biosynthetic process0.0393274420359954
GO:0002520immune system development0.0395387988639219
GO:0045449regulation of transcription0.0396816272126048
GO:0019219regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0396816272126048
GO:0006350transcription0.0396816272126048
GO:0010468regulation of gene expression0.0396816272126048
GO:0031323regulation of cellular metabolic process0.0396816272126048
GO:0050793regulation of developmental process0.0396816272126048
GO:0045859regulation of protein kinase activity0.0396816272126048
GO:0043549regulation of kinase activity0.0396816272126048
GO:0051338regulation of transferase activity0.0396816272126048
GO:0019222regulation of metabolic process0.0396816272126048
GO:0016070RNA metabolic process0.0396816272126048
GO:0043085positive regulation of catalytic activity0.0396816272126048
GO:0019899enzyme binding0.0446688293427135
GO:0004713protein-tyrosine kinase activity0.0446688293427135
GO:0016563transcription activator activity0.0446688293427135



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
hematopoietic system3.20e-23102
blood island3.20e-23102
musculoskeletal system5.13e-23167
lateral plate mesoderm2.95e-22216
hemolymphoid system6.63e-22112
bone marrow1.23e-2180
bone element3.78e-1986
mesoderm1.51e-18448
mesoderm-derived structure1.51e-18448
presumptive mesoderm1.51e-18448
skeletal element7.96e-18101
skeletal system7.96e-18101
immune system2.39e-16115
multi-cellular organism1.60e-15659
anatomical system1.64e-14625
anatomical group2.04e-14626
embryonic structure1.15e-09605
developing anatomical structure1.15e-09605
embryo1.21e-09612
germ layer1.48e-09604
embryonic tissue1.48e-09604
presumptive structure1.48e-09604
epiblast (generic)1.48e-09604
dermomyotome6.13e-0770
organ6.20e-07511
multilaminar epithelium9.76e-0782


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
CHD2#110656.465014271323040.0003676243258073190.00366078537023175
FOSL2#235536.348825226710630.009211946658641070.0348266605278485
HEY1#2346263.030083282329280.004001723466483270.0191854570839169
MAFK#7975310.16277492668620.002445573107139520.0137681639661767
NFYA#480036.909592762436450.007279727237130680.030122323015796
NFYB#480136.284922470076170.009473769012482620.0356963331371193
PBX3#509038.217942257529050.004473206582808440.0211670165512179
REST#597844.825014358064010.005720735398269540.0257873833251272
SIN3A#2594253.380552954259460.007342226961170280.0303652968596865
SP2#666839.807573935191740.002707184665085610.0148863085998461
TAF1#687262.507284714308970.01111734475613860.0408832524290973
TBP#690862.780078015322290.006390181121263010.0278030380821358



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.