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Coexpression cluster:C2055

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Full id: C2055_NK_CD4_Natural_CD8_CD19_blood_Whole



Phase1 CAGE Peaks

Hg19::chr10:30818569..30818604,+p@chr10:30818569..30818604
+
Hg19::chr6:31560704..31560716,-p3@NCR3
Hg19::chr6:31560729..31560768,-p1@NCR3
Hg19::chr6:31560772..31560795,-p2@NCR3


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>disease_data<br>


Cell Type
Ontology termp-valuen
hematopoietic stem cell1.77e-60172
angioblastic mesenchymal cell1.77e-60172
hematopoietic cell3.44e-58182
hematopoietic oligopotent progenitor cell1.20e-56165
hematopoietic multipotent progenitor cell1.20e-56165
leukocyte4.00e-54140
nongranular leukocyte5.53e-46119
hematopoietic lineage restricted progenitor cell5.53e-44124
lymphoid lineage restricted progenitor cell1.67e-3952
lymphocyte2.64e-3853
common lymphoid progenitor2.64e-3853
myeloid cell4.71e-21112
common myeloid progenitor4.71e-21112
T cell5.87e-2025
pro-T cell5.87e-2025
lymphocyte of B lineage1.70e-1724
pro-B cell1.70e-1724
mature alpha-beta T cell7.06e-1718
alpha-beta T cell7.06e-1718
immature T cell7.06e-1718
mature T cell7.06e-1718
immature alpha-beta T cell7.06e-1718
myeloid leukocyte1.43e-1476
CD14-positive, CD16-negative classical monocyte2.79e-1342
mesenchymal cell1.00e-12358
connective tissue cell4.88e-12365
classical monocyte1.27e-1145
myeloid lineage restricted progenitor cell2.07e-1170
CD8-positive, alpha-beta T cell2.25e-1111
B cell2.56e-1114
granulocyte monocyte progenitor cell2.08e-1071
monopoietic cell2.57e-1063
monocyte2.57e-1063
monoblast2.57e-1063
promonocyte2.57e-1063
macrophage dendritic cell progenitor1.30e-0965
motile cell3.13e-08390
Uber Anatomy
Ontology termp-valuen
hematopoietic system5.38e-19102
blood island5.38e-19102
hemolymphoid system5.54e-17112
connective tissue1.09e-11375
blood1.28e-1115
haemolymphatic fluid1.28e-1115
organism substance1.28e-1115
bone marrow2.80e-0880
adult organism7.58e-08115
immune system8.00e-08115
bone element2.85e-0786
Disease
Ontology termp-valuen
hematologic cancer1.44e-1251
immune system cancer1.44e-1251
leukemia6.63e-0939
myeloid leukemia3.29e-0731


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
EBF1#187948.9064668465690.00015887907472010.00199269505040141
EGR1#195844.988179094810140.001615011500076050.0101212232857152
ELF1#199744.258097958807540.003041525565781240.0160496103761432
POU2F2#545249.106124057742520.000145395665174930.00187979424055515
ZBTB7A#5134135.513931980906920.009038352821081090.0342186808627887
ZNF263#1012736.166381227758010.006539814347975980.0279556184793821



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.