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Coexpression cluster:C2460

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Full id: C2460_CD19_Natural_Mast_Basophils_CD8_CD14_immature



Phase1 CAGE Peaks

Hg19::chr18:46467359..46467364,+p@chr18:46467359..46467364
+
Hg19::chr2:25585090..25585112,+p@chr2:25585090..25585112
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Hg19::chr2:25585680..25585691,-p@chr2:25585680..25585691
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Hg19::chrX:9645659..9645666,+p@chrX:9645659..9645666
+


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
leukocyte6.68e-74136
hematopoietic stem cell9.21e-58168
angioblastic mesenchymal cell9.21e-58168
hematopoietic lineage restricted progenitor cell5.37e-57120
nongranular leukocyte2.26e-55115
hematopoietic cell8.37e-54177
hematopoietic oligopotent progenitor cell1.97e-53161
hematopoietic multipotent progenitor cell1.97e-53161
myeloid leukocyte4.18e-3272
classical monocyte1.92e-2942
CD14-positive, CD16-negative classical monocyte1.92e-2942
defensive cell6.85e-2948
phagocyte6.85e-2948
granulocyte monocyte progenitor cell1.46e-2867
lymphoid lineage restricted progenitor cell2.98e-2752
lymphocyte1.43e-2653
common lymphoid progenitor1.43e-2653
macrophage dendritic cell progenitor9.87e-2661
myeloid cell1.20e-25108
common myeloid progenitor1.20e-25108
myeloid lineage restricted progenitor cell2.49e-2566
nucleate cell2.78e-2555
monopoietic cell4.49e-2359
monocyte4.49e-2359
monoblast4.49e-2359
promonocyte4.49e-2359
mesenchymal cell1.66e-18354
intermediate monocyte8.76e-189
CD14-positive, CD16-positive monocyte8.76e-189
connective tissue cell9.23e-18361
motile cell3.82e-15386
CD4-positive, alpha-beta T cell1.35e-126
multi fate stem cell1.45e-12427
lymphocyte of B lineage2.12e-1224
pro-B cell2.12e-1224
stuff accumulating cell3.11e-1287
stem cell3.49e-12441
somatic stem cell4.04e-12433
T cell2.75e-1125
pro-T cell2.75e-1125
mature alpha-beta T cell2.95e-1018
alpha-beta T cell2.95e-1018
immature T cell2.95e-1018
mature T cell2.95e-1018
immature alpha-beta T cell2.95e-1018
Langerhans cell3.44e-105
natural killer cell2.69e-083
pro-NK cell2.69e-083
dendritic cell3.83e-0810
basophil4.66e-083
conventional dendritic cell1.42e-078
single nucleate cell2.95e-073
mononuclear cell2.95e-073
granulocyte3.21e-078
B cell4.96e-0714
naive T cell5.89e-073
Uber Anatomy
Ontology termp-valuen
hematopoietic system2.55e-3098
blood island2.55e-3098
hemolymphoid system1.08e-27108
immune system3.44e-2793
bone marrow5.29e-2476
bone element1.59e-2182
skeletal element9.54e-1990
connective tissue9.57e-17371
skeletal system6.48e-16100
lateral plate mesoderm1.64e-10203
hemopoietic organ6.32e-097
immune organ6.32e-097
thymus1.28e-074
hemolymphoid system gland1.28e-074
thymic region1.28e-074
pharyngeal gland1.28e-074
thymus primordium1.28e-074


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
BATF#10538212.17890089615180.009566758805047810.036016824297624
BCL11A#53335214.18472755180350.007108328585298740.029623188584654
BCL3#602217.27355140186920.004834494208076070.0226742294142831
IRF4#3662210.95725634337210.01174530180688030.0428395465324012
PAX5#507935.002174148383370.01196533174786410.0434932229714317



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.