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Coexpression cluster:C1809

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Full id: C1809_CD4_Peripheral_normal_Neutrophils_CD8_Natural_CD14



Phase1 CAGE Peaks

Hg19::chr19:12902603..12902655,-p@chr19:12902603..12902655
-
Hg19::chr19:12902681..12902688,-p@chr19:12902681..12902688
-
Hg19::chr19:12903127..12903178,-p1@CU678639
p1@CU679368
Hg19::chr19:12903214..12903252,-p3@CU678639
p3@CU679368
Hg19::chr19:12903367..12903458,-p2@CU678639
p2@CU679368


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>


Uber Anatomy
Ontology termp-valuen
hematopoietic system8.01e-25102
blood island8.01e-25102
hemolymphoid system1.35e-21112
bone marrow3.07e-1880
bone element4.63e-1686
skeletal element5.09e-13101
skeletal system5.09e-13101
immune system1.55e-12115
blood1.01e-0715
haemolymphatic fluid1.01e-0715
organism substance1.01e-0715


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
ETS1#211359.728760922202341.14685159850452e-050.000292207938756315
GABPB1#255357.067683836182175.6685482528729e-050.000948290102485652
MAX#414945.16204440720570.002526309009485180.0139985773897295
NANOG#79923317.54686708860760.0003794200090681830.00376139025411219
NR2C2#7182319.56876654314450.0002750171700966610.00293146746557717
TAF7#687936.859841642954350.005843286407019040.0262469136408181
TCF12#693836.380678941311850.007185168653258840.0298315177490638
TCF7L2#693436.462105937882410.006930108755689190.0293227577010664
USF1#739145.089199421766370.00266867775360040.0147195160236743
USF2#7392410.39375790805570.0001646179728687530.00202646587322486



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.