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Coexpression cluster:C682

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Full id: C682_Burkitt_lymphoma_CD19_appendix_tonsil_spleen_diffuse



Phase1 CAGE Peaks

Hg19::chr11:113848216..113848228,+p2@HTR3A
Hg19::chr11:64900812..64900834,-p5@SYVN1
Hg19::chr12:27977018..27977041,-p@chr12:27977018..27977041
-
Hg19::chr12:32418225..32418236,+p@chr12:32418225..32418236
+
Hg19::chr15:89191020..89191067,+p13@ISG20
Hg19::chr1:155953595..155953599,-p@chr1:155953595..155953599
-
Hg19::chr20:43214306..43214347,-p@chr20:43214306..43214347
-
Hg19::chr20:57698461..57698483,+p@chr20:57698461..57698483
+
Hg19::chr22:22398325..22398339,-p1@PRAMEL
Hg19::chr2:220142973..220142983,-p26@TUBA4A
Hg19::chr2:65257848..65257867,+p@chr2:65257848..65257867
+
Hg19::chr2:65257873..65257887,+p@chr2:65257873..65257887
+


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:0008310single-stranded DNA specific 3'-5' exodeoxyribonuclease activity0.0101844084028938
GO:0008859exoribonuclease II activity0.0101844084028938
GO:0005232serotonin-activated cation-selective channel activity0.0101844084028938
GO:0008297single-stranded DNA specific exodeoxyribonuclease activity0.0101844084028938
GO:00082963'-5'-exodeoxyribonuclease activity0.0122207504459862
GO:0000738DNA catabolic process, exonucleolytic0.0135780120329791
GO:0016895exodeoxyribonuclease activity, producing 5'-phosphomonoesters0.0187936840949419
GO:0004529exodeoxyribonuclease activity0.0187936840949419
GO:0043285biopolymer catabolic process0.0187936840949419
GO:0030433ER-associated protein catabolic process0.0187936840949419
GO:0006515misfolded or incompletely synthesized protein catabolic process0.0187936840949419
GO:0044265cellular macromolecule catabolic process0.0187936840949419
GO:00001753'-5'-exoribonuclease activity0.0187936840949419
GO:0004993serotonin receptor activity0.0189047164366943
GO:0016896exoribonuclease activity, producing 5'-phosphomonoesters0.019014415156573
GO:0004532exoribonuclease activity0.019014415156573
GO:0016605PML body0.019014415156573
GO:0009057macromolecule catabolic process0.019014415156573
GO:0016796exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters0.0234024274421159
GO:0043161proteasomal ubiquitin-dependent protein catabolic process0.0234024274421159
GO:00084083'-5' exonuclease activity0.0258852662218033
GO:0044248cellular catabolic process0.0258852662218033
GO:0006308DNA catabolic process0.0309508886207327
GO:0009056catabolic process0.0341070749707598
GO:0006401RNA catabolic process0.0374058692672204
GO:0004536deoxyribonuclease activity0.0390878569504989
GO:0044446intracellular organelle part0.0403333517367145
GO:0044422organelle part0.0403333517367145
GO:0008227amine receptor activity0.0469240956780526
GO:0004527exonuclease activity0.0471621932387917
GO:0005231excitatory extracellular ligand-gated ion channel activity0.0471621932387917



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
lymphocyte of B lineage2.37e-9324
pro-B cell2.37e-9324
B cell4.93e-6914
lymphocyte2.98e-4453
common lymphoid progenitor2.98e-4453
nucleate cell1.76e-4255
lymphoid lineage restricted progenitor cell8.62e-4152
nongranular leukocyte7.05e-24115
leukocyte1.91e-19136
single nucleate cell2.82e-173
mononuclear cell2.82e-173
hematopoietic lineage restricted progenitor cell4.52e-15120
hematopoietic stem cell8.30e-15168
angioblastic mesenchymal cell8.30e-15168
hematopoietic cell8.36e-14177
mature B cell2.57e-122
pre-B-II cell2.57e-122
transitional stage B cell2.57e-122
small pre-B-II cell2.57e-122
immature B cell2.57e-122
hematopoietic oligopotent progenitor cell1.89e-11161
hematopoietic multipotent progenitor cell1.89e-11161
circulating cell6.67e-096
precursor B cell1.68e-083
B-1 B cell4.06e-071
antibody secreting cell7.29e-071
plasma cell7.29e-071
plasmablast7.29e-071
Uber Anatomy
Ontology termp-valuen
blood4.29e-0915
haemolymphatic fluid4.29e-0915
organism substance4.29e-0915
spleen1.44e-083
gastrointestinal system mesentery1.44e-083
stomach region1.44e-083
mesentery1.44e-083
gastrointestinal system serosa1.44e-083
mesentery of stomach1.44e-083
gut mesentery1.44e-083
dorsal mesentery1.44e-083
dorsal mesogastrium1.44e-083
peritoneal cavity1.44e-083
spleen primordium1.44e-083
vermiform appendix2.52e-071
caecum2.52e-071
midgut2.52e-071
tonsil3.01e-071
mucosa-associated lymphoid tissue3.01e-071
lymphoid tissue3.01e-071
tonsillar ring3.01e-071
lymph node4.85e-071
Disease
Ontology termp-valuen
lymphoma8.76e-1010
acute leukemia3.82e-071
lymphatic system cancer4.06e-071
lymphosarcoma4.06e-071
genetic disease5.45e-071
monogenic disease5.45e-071
xeroderma pigmentosum5.45e-071


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

No analysis results for this cluster

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.

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