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Coexpression cluster:C2437

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Full id: C2437_Basophils_CD19_CD14_Eosinophils_CD14CD16_CD34_Neutrophils



Phase1 CAGE Peaks

Hg19::chr17:7475729..7475754,-p@chr17:7475729..7475754
-
Hg19::chr1:161015811..161015837,+p@chr1:161015811..161015837
+
Hg19::chr1:161015838..161015845,+p@chr1:161015838..161015845
+
Hg19::chr6:109704071..109704117,+p1@BC030091


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


No GOStat results

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>


Cell Type
Ontology termp-valuen
leukocyte2.03e-43140
hematopoietic stem cell3.66e-39172
angioblastic mesenchymal cell3.66e-39172
hematopoietic cell2.91e-37182
hematopoietic oligopotent progenitor cell1.20e-35165
hematopoietic multipotent progenitor cell1.20e-35165
hematopoietic lineage restricted progenitor cell3.56e-35124
nongranular leukocyte3.64e-33119
CD14-positive, CD16-negative classical monocyte4.54e-2642
classical monocyte3.02e-2545
myeloid leukocyte3.80e-2576
myeloid cell5.74e-22112
common myeloid progenitor5.74e-22112
granulocyte monocyte progenitor cell1.08e-2171
myeloid lineage restricted progenitor cell6.74e-2170
macrophage dendritic cell progenitor4.28e-2065
monopoietic cell3.47e-1963
monocyte3.47e-1963
monoblast3.47e-1963
promonocyte3.47e-1963
lymphoid lineage restricted progenitor cell6.06e-1352
lymphocyte1.63e-1253
common lymphoid progenitor1.63e-1253
lymphocyte of B lineage9.62e-0824
pro-B cell9.62e-0824
mature alpha-beta T cell1.20e-0718
alpha-beta T cell1.20e-0718
immature T cell1.20e-0718
mature T cell1.20e-0718
immature alpha-beta T cell1.20e-0718
intermediate monocyte2.51e-079
CD14-positive, CD16-positive monocyte2.51e-079
motile cell3.55e-07390
B cell3.79e-0714
mesenchymal cell7.22e-07358
Uber Anatomy
Ontology termp-valuen
hematopoietic system2.32e-24102
blood island2.32e-24102
hemolymphoid system4.49e-22112
bone marrow1.69e-2080
bone element9.68e-1886
immune system4.23e-13115
skeletal element4.38e-12101
skeletal system4.38e-12101
neural tube1.47e-0857
neural rod1.47e-0857
future spinal cord1.47e-0857
neural keel1.47e-0857
central nervous system9.98e-0882
regional part of brain4.48e-0759
brain4.61e-0769
future brain4.61e-0769
regional part of forebrain8.44e-0741
forebrain8.44e-0741
future forebrain8.44e-0741


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
ATF3#467211.23158726300440.01119559039922220.0411275506754965
BRCA1#672210.09211532161190.0137713969900260.0484723284659384
E2F6#187645.017155731697390.00157802193473060.00996716255466156
ELF1#199744.258097958807540.003041525565781240.0160861846642339
ELK4#2005416.2356816584681.43847748454449e-050.000343233150578803
GABPB1#255347.067683836182170.0004006876864423170.00390258521722924
GATA3#2625213.6182581786030.00769665208093340.0316917933559614
GTF2F1#296239.554745657568240.001820362319304780.0108993189397393
HEY1#2346244.040111043105710.00375304636917980.0185994310406553
IRF1#365947.63716375356390.0002938853996185490.0030745364370191
MYC#460945.22228187160940.001344309395272740.00887529735968704
NANOG#79923214.62238924050630.006698757715363760.028488132463347
REST#597837.237521537096020.004104697304192610.0195784838213633
SETDB1#9869220.16001308900520.00356908685407640.0180850934914796
SIN3A#2594245.408884726815140.001168172384885160.00796102810473219
SIX5#147912417.0867153554591.17257016123224e-050.00029752685876806
SP1#666745.69838137814090.0009482606065333980.00683993297090556
SPI1#668848.204323508522730.000220661881527680.0024946640230428
TAF1#687243.343046285745290.008005664898701650.032211104378607
TAF7#687938.574802053692940.00250055433515240.0140315599725436
TBP#690843.706770687096390.005296377814784350.0244129403565303
TCF7L2#693438.077632422353010.002978381685834620.0158630835273029
THAP1#55145323.52685845213850.0001264251491159520.00168393268059188
TRIM28#10155313.94289378394690.0005972858184258420.00499359058522066
YY1#752844.911170749853860.00171871838055440.0106826893380183



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.