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Coexpression cluster:C838

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Full id: C838_Eosinophils_CD4_Neutrophils_CD8_CD14_Natural_CD19



Phase1 CAGE Peaks

Hg19::chr15:93443871..93443879,+p5@CHD2
Hg19::chr16:4466565..4466605,-p1@CORO7
Hg19::chr16:50776021..50776045,+p2@CYLD
Hg19::chr17:76778320..76778331,-p6@CYTH1
Hg19::chr3:156877232..156877257,-p7@CCNL1
Hg19::chr3:71774516..71774587,-p1@EIF4E3
Hg19::chr6:139456226..139456300,+p1@HECA
Hg19::chr6:139499652..139499656,+p@chr6:139499652..139499656
+
Hg19::chr6:143266297..143266356,-p1@HIVEP2
Hg19::chr6:33378780..33378838,+p1@PHF1


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
leukocyte7.20e-43140
nongranular leukocyte1.05e-34119
hematopoietic lineage restricted progenitor cell3.05e-33124
hematopoietic stem cell7.71e-28172
angioblastic mesenchymal cell7.71e-28172
hematopoietic oligopotent progenitor cell4.28e-25165
hematopoietic multipotent progenitor cell4.28e-25165
myeloid leukocyte8.16e-2576
hematopoietic cell1.88e-24182
CD14-positive, CD16-negative classical monocyte1.34e-2342
granulocyte monocyte progenitor cell2.54e-2171
macrophage dendritic cell progenitor2.78e-2065
classical monocyte1.53e-1945
monopoietic cell2.07e-1963
monocyte2.07e-1963
monoblast2.07e-1963
promonocyte2.07e-1963
myeloid lineage restricted progenitor cell4.14e-1870
lymphoid lineage restricted progenitor cell7.13e-1452
lymphocyte2.53e-1353
common lymphoid progenitor2.53e-1353
myeloid cell2.72e-12112
common myeloid progenitor2.72e-12112
mature alpha-beta T cell2.78e-1118
alpha-beta T cell2.78e-1118
immature T cell2.78e-1118
mature T cell2.78e-1118
immature alpha-beta T cell2.78e-1118
T cell6.50e-1025
pro-T cell6.50e-1025
CD8-positive, alpha-beta T cell2.60e-0711
Uber Anatomy
Ontology termp-valuen
adult organism3.60e-26115
hematopoietic system2.83e-25102
blood island2.83e-25102
hemolymphoid system1.58e-23112
bone marrow7.72e-1880
bone element5.82e-1686
immune system4.89e-14115
skeletal element1.94e-12101
skeletal system1.94e-12101
neural tube1.96e-1057
neural rod1.96e-1057
future spinal cord1.96e-1057
neural keel1.96e-1057
anterior neural tube1.12e-0942
regional part of forebrain2.38e-0941
forebrain2.38e-0941
future forebrain2.38e-0941
regional part of brain1.33e-0859
gray matter6.65e-0834
brain grey matter6.65e-0834
telencephalon9.03e-0834
regional part of telencephalon1.44e-0733
cerebral hemisphere3.16e-0732


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
E2F1#186973.435172450415530.0009731854789143080.00699652496952788
EGR1#195862.992907456886080.006446587185075730.0280134442465725
HEY1#2346272.8280777301740.003295391007019310.0170489592996527
IRF1#365953.818581876781950.005465628575453730.0247581880114422
SIN3A#2594263.245330836089080.004223840630485730.0201036180835482
TAF1#687272.34013240002170.01040839844348330.0386394172338161
USF1#739163.816899566324770.001780928663791640.0109288682482952
YY1#752862.946702449912310.006987247873951880.0295405894307437



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.