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{{Coexpression_clusters
{{Coexpression_clusters
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.406428443653453,0.908938465626565,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0283076897745917,0,0,0,0,0,0,0,0,0,0,0,0
|full_id=C210_Burkitt_lymphoma_appendix_acute_diffuse_CD19_tonsil
|full_id=C210_Burkitt_lymphoma_appendix_acute_diffuse_CD19_tonsil
|id=C210
|id=C210

Revision as of 14:47, 12 September 2012


Full id: C210_Burkitt_lymphoma_appendix_acute_diffuse_CD19_tonsil



Phase1 CAGE Peaks

Hg19::chr10:135303603..135303618,+p@chr10:135303603..135303618
+
Hg19::chr10:22897333..22897359,-p@chr10:22897333..22897359
-
Hg19::chr11:11283171..11283182,-p@chr11:11283171..11283182
-
Hg19::chr11:128132520..128132527,-p@chr11:128132520..128132527
-
Hg19::chr11:128132940..128132950,+p@chr11:128132940..128132950
+
Hg19::chr11:27719240..27719248,+p3@BDNF-AS1
Hg19::chr12:120972848..120972851,-p@chr12:120972848..120972851
-
Hg19::chr12:2296630..2296642,+p@chr12:2296630..2296642
+
Hg19::chr12:24514988..24515011,-p@chr12:24514988..24515011
-
Hg19::chr12:45746341..45746345,-p@chr12:45746341..45746345
-
Hg19::chr12:45820229..45820249,-p@chr12:45820229..45820249
-
Hg19::chr12:45820263..45820279,-p@chr12:45820263..45820279
-
Hg19::chr12:45820291..45820337,-p@chr12:45820291..45820337
-
Hg19::chr12:45820371..45820378,-p@chr12:45820371..45820378
-
Hg19::chr13:27239109..27239118,+p18@WASF3
Hg19::chr13:27239129..27239135,+p20@WASF3
Hg19::chr14:106367355..106367369,-p@chr14:106367355..106367369
-
Hg19::chr14:106692294..106692298,+p@chr14:106692294..106692298
+
Hg19::chr14:107283278..107283282,-p1@IGHV7-81
Hg19::chr14:94942577..94942588,-p3@SERPINA9
Hg19::chr15:101459149..101459160,+p7@LRRK1
Hg19::chr16:25122760..25122779,-p@chr16:25122760..25122779
-
Hg19::chr16:72863895..72863905,-p@chr16:72863895..72863905
-
Hg19::chr17:38029166..38029196,+p@chr17:38029166..38029196
+
Hg19::chr1:109240181..109240184,+p15@PRPF38B
Hg19::chr1:154687293..154687306,-p@chr1:154687293..154687306
-
Hg19::chr1:154838149..154838194,+p@chr1:154838149..154838194
+
Hg19::chr1:174242560..174242587,+p@chr1:174242560..174242587
+
Hg19::chr1:174244231..174244244,+p14@RABGAP1L
Hg19::chr22:17286728..17286732,-p@chr22:17286728..17286732
-
Hg19::chr22:22400891..22400899,-p@chr22:22400891..22400899
-
Hg19::chr2:159842651..159842671,+p@chr2:159842651..159842671
+
Hg19::chr2:61198713..61198728,-p@chr2:61198713..61198728
-
Hg19::chr3:114168260..114168264,+p@chr3:114168260..114168264
+
Hg19::chr3:114168924..114168928,+p@chr3:114168924..114168928
+
Hg19::chr3:182129942..182129947,-p@chr3:182129942..182129947
-
Hg19::chr3:187694166..187694181,-p1@ENST00000446091
p1@uc003frr.1
Hg19::chr3:187694197..187694208,-p3@ENST00000446091
p3@uc003frr.1
Hg19::chr3:187694215..187694226,-p2@ENST00000446091
p2@uc003frr.1
Hg19::chr3:36966509..36966515,-p@chr3:36966509..36966515
-
Hg19::chr3:96336749..96336764,-p@chr3:96336749..96336764
-
Hg19::chr4:172396445..172396474,+p@chr4:172396445..172396474
+
Hg19::chr5:53467645..53467648,-p@chr5:53467645..53467648
-
Hg19::chr5:5739493..5739498,-p@chr5:5739493..5739498
-
Hg19::chr6:157999774..157999779,+p@chr6:157999774..157999779
+
Hg19::chr6:161590361..161590366,+p@chr6:161590361..161590366
+
Hg19::chr6:6587418..6587427,-p8@LY86-AS1
Hg19::chr6:6587629..6587640,-p4@LY86-AS1
Hg19::chr6:71567823..71567834,+p@chr6:71567823..71567834
+
Hg19::chr6:88630940..88630960,-p@chr6:88630940..88630960
-
Hg19::chr6:91012903..91012921,+p@chr6:91012903..91012921
+
Hg19::chr6:91012993..91013003,+p@chr6:91012993..91013003
+
Hg19::chr6:91013009..91013026,+p@chr6:91013009..91013026
+
Hg19::chr6:91085662..91085676,+p@chr6:91085662..91085676
+
Hg19::chr6:91085680..91085705,+p@chr6:91085680..91085705
+
Hg19::chr6:91085725..91085738,+p@chr6:91085725..91085738
+
Hg19::chr6:91085838..91085849,+p@chr6:91085838..91085849
+
Hg19::chr6:91086164..91086168,+p@chr6:91086164..91086168
+
Hg19::chr7:28609735..28609737,-p@chr7:28609735..28609737
-
Hg19::chr7:50191009..50191027,+p@chr7:50191009..50191027
+
Hg19::chr7:50191034..50191048,+p@chr7:50191034..50191048
+
Hg19::chr7:50191051..50191060,+p@chr7:50191051..50191060
+
Hg19::chr7:55996143..55996147,+p@chr7:55996143..55996147
+
Hg19::chr8:119294370..119294381,+p4@ENST00000366457
Hg19::chr8:128685152..128685161,-p@chr8:128685152..128685161
-
Hg19::chr8:128723579..128723583,-p@chr8:128723579..128723583
-
Hg19::chr8:67039167..67039176,+p7@TRIM55
Hg19::chr8:93029879..93029904,-p30@RUNX1T1
Hg19::chrX:19902375..19902384,-p@chrX:19902375..19902384
-
Hg19::chrX:20033553..20033556,-p@chrX:20033553..20033556
-
Hg19::chrX:20033585..20033604,-p@chrX:20033585..20033604
-


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
adult organism5.72e-13115
hematopoietic system2.72e-10102
blood island2.72e-10102
hemolymphoid system3.08e-09112


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
POLR2A#5430481.451799330630810.0002797849223209270.00297803276623271



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

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