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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
leukocyte8.86e-48136
nongranular leukocyte7.22e-40115
hematopoietic lineage restricted progenitor cell4.31e-38120
hematopoietic stem cell2.62e-33168
angioblastic mesenchymal cell2.62e-33168
hematopoietic oligopotent progenitor cell4.76e-30161
hematopoietic multipotent progenitor cell4.76e-30161
hematopoietic cell4.08e-29177
myeloid leukocyte1.32e-2772
defensive cell2.49e-2448
phagocyte2.49e-2448
granulocyte monocyte progenitor cell5.73e-2467
macrophage dendritic cell progenitor2.37e-2361
classical monocyte3.56e-2342
CD14-positive, CD16-negative classical monocyte3.56e-2342
monopoietic cell1.61e-2259
monocyte1.61e-2259
monoblast1.61e-2259
promonocyte1.61e-2259
myeloid lineage restricted progenitor cell2.63e-2166
lymphoid lineage restricted progenitor cell2.47e-1552
lymphocyte4.13e-1553
common lymphoid progenitor4.13e-1553
myeloid cell5.46e-15108
common myeloid progenitor5.46e-15108
nucleate cell6.83e-1455
mature alpha-beta T cell2.23e-1118
alpha-beta T cell2.23e-1118
immature T cell2.23e-1118
mature T cell2.23e-1118
immature alpha-beta T cell2.23e-1118
T cell1.33e-0925
pro-T cell1.33e-0925
stuff accumulating cell1.87e-0887
CD8-positive, alpha-beta T cell2.16e-0711
Uber Anatomy
Ontology termp-valuen
hematopoietic system5.32e-2898
blood island5.32e-2898
hemolymphoid system1.95e-25108
adult organism5.46e-24114
bone marrow1.14e-2076
immune system2.69e-2093
bone element6.39e-1982
skeletal element6.53e-1790
skeletal system1.50e-14100
regional part of forebrain5.64e-0941
forebrain5.64e-0941
anterior neural tube5.64e-0941
future forebrain5.64e-0941
neural tube5.85e-0956
neural rod5.85e-0956
future spinal cord5.85e-0956
neural keel5.85e-0956
regional part of nervous system1.23e-0853
regional part of brain1.23e-0853
brain grey matter4.61e-0834
gray matter4.61e-0834
telencephalon6.81e-0834
regional part of telencephalon1.77e-0732
cerebral hemisphere1.92e-0732
regional part of cerebral cortex3.50e-0722


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.