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Coexpression cluster:C871

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Full id: C871_CD19_Mast_CD4_CD8_Natural_Peripheral_Basophils



Phase1 CAGE Peaks

Hg19::chr10:27531947..27531980,-p@chr10:27531947..27531980
-
Hg19::chr15:52471650..52471680,+p@chr15:52471650..52471680
+
Hg19::chr1:231473624..231473639,-p2@EXOC8
Hg19::chr1:31191601..31191660,+p1@LOC100129196
Hg19::chr2:202123066..202123088,-p@chr2:202123066..202123088
-
Hg19::chr4:40198642..40198689,+p1@RHOH
Hg19::chr5:43484423..43484517,-p2@C5orf28
Hg19::chr8:41998304..41998320,-p@chr8:41998304..41998320
-
Hg19::chr9:6757183..6757204,+p9@KDM4C


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


GO IDGO nameFDR corrected p-value
GO:0043124negative regulation of I-kappaB kinase/NF-kappaB cascade0.0384038116999737
GO:0005095GTPase inhibitor activity0.0384038116999737



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
leukocyte1.45e-40136
hematopoietic stem cell2.64e-40168
angioblastic mesenchymal cell2.64e-40168
hematopoietic cell6.23e-37177
hematopoietic oligopotent progenitor cell1.07e-35161
hematopoietic multipotent progenitor cell1.07e-35161
hematopoietic lineage restricted progenitor cell7.45e-33120
nucleate cell8.92e-3355
lymphocyte9.33e-3253
common lymphoid progenitor9.33e-3253
lymphoid lineage restricted progenitor cell1.16e-3152
nongranular leukocyte3.17e-30115
T cell2.66e-1525
pro-T cell2.66e-1525
lymphocyte of B lineage4.10e-1524
pro-B cell4.10e-1524
mature alpha-beta T cell3.29e-1418
alpha-beta T cell3.29e-1418
immature T cell3.29e-1418
mature T cell3.29e-1418
immature alpha-beta T cell3.29e-1418
B cell1.36e-1114
myeloid cell3.01e-10108
common myeloid progenitor3.01e-10108
CD8-positive, alpha-beta T cell2.31e-0911
myeloid leukocyte2.02e-0872
granulocyte monocyte progenitor cell5.55e-0767
intermediate monocyte8.06e-079
CD14-positive, CD16-positive monocyte8.06e-079
Uber Anatomy
Ontology termp-valuen
hematopoietic system5.17e-1398
blood island5.17e-1398
adult organism2.28e-12114
hemolymphoid system8.52e-12108
blood3.65e-0915
haemolymphatic fluid3.65e-0915
organism substance3.65e-0915
immune system9.93e-0793


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
BRF2#552901119.3972868217050.008344470633487870.0328553503672324
E2F6#187673.902232235764630.0003067423599492730.00316153807665471
ELF1#199773.311853967961420.0008960205810173620.00666853085305154
GTF2F1#296245.662071500781180.00346420020706550.0176014403028807
HEY1#2346262.693407362070470.009487643473762270.0357421634295083
IRF4#366237.304837562248040.006482999615409630.0281459094127771
MAX#414975.018654284783325.77474544696214e-050.000962049194026605
MEF2A#420536.247743636548020.01000005008462560.0374966872792234
MXI1#460144.427365168337470.008444657415134930.0327765562575917
MYC#460984.642028330319471.34916872863392e-050.000327155404805661
NFKB1#479063.658708949462560.001850649648602720.0109327449884281
POLR2A#543092.147453176558070.001029412892608020.00728343967827989
POU2F2#545266.070749371828350.0001095272295875280.00152356344311292
SIN3A#2594274.206910343078440.0001867843656174470.00225991338747922
SMC3#912646.686636819970150.001873161593351730.0110420005445652
TAF1#687293.343046285745291.91655056102793e-050.000433346230879403
TBP#690872.883043867741630.002187802002126050.0126147989455111
TCF12#693844.726428845416190.006680355302603970.0284179718727814
YY1#752873.819799472108550.0003529672812141940.00353539367821322



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.