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Coexpression cluster:C280: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002390!1.44e-20!102;UBERON:0003061!1.44e-20!102;UBERON:0002193!1.15e-17!112;UBERON:0002371!2.94e-14!80;UBERON:0001474!4.73e-14!86;UBERON:0007023!3.73e-10!115;UBERON:0002405!6.52e-10!115;UBERON:0004765!6.35e-09!101;UBERON:0001434!6.35e-09!101
|ontology_enrichment_uberon=UBERON:0002390!1.44e-20!102;UBERON:0003061!1.44e-20!102;UBERON:0002193!1.15e-17!112;UBERON:0002371!2.94e-14!80;UBERON:0001474!4.73e-14!86;UBERON:0007023!3.73e-10!115;UBERON:0002405!6.52e-10!115;UBERON:0004765!6.35e-09!101;UBERON:0001434!6.35e-09!101
|pathway_enrichment=6.17544927282532e-06;0.00390905938969842;3;162;TNF alpha/NF-kB down reg. targets (Netpath):NetPath_9
}}
}}

Revision as of 15:00, 13 July 2012


Full id: C280_Mast_Natural_CD19_CD8_Eosinophils_CD34_CD4



Phase1 CAGE Peaks

Hg19::chr10:3827417..3827428,-p3@KLF6
Hg19::chr11:62323018..62323031,-p@chr11:62323018..62323031
-
Hg19::chr11:65657918..65657945,-p@chr11:65657918..65657945
-
Hg19::chr11:66610757..66610775,-p3@CU688443
Hg19::chr12:25539082..25539099,-p@chr12:25539082..25539099
-
Hg19::chr12:9913489..9913506,-p1@CD69
Hg19::chr14:105947382..105947418,+p@chr14:105947382..105947418
+
Hg19::chr14:105947980..105947997,-p@chr14:105947980..105947997
-
Hg19::chr14:60715694..60715716,-p1@ENST00000529171
Hg19::chr14:75725656..75725708,-p@chr14:75725656..75725708
-
Hg19::chr14:75761343..75761358,+p@chr14:75761343..75761358
+
Hg19::chr17:17586443..17586462,-p@chr17:17586443..17586462
-
Hg19::chr17:17739693..17739737,+p@chr17:17739693..17739737
+
Hg19::chr17:38478879..38478895,-p@chr17:38478879..38478895
-
Hg19::chr17:62972061..62972090,-p7@AMZ2P1
Hg19::chr19:14117737..14117757,+p@chr19:14117737..14117757
+
Hg19::chr19:39892410..39892428,+p@chr19:39892410..39892428
+
Hg19::chr19:39892441..39892455,+p@chr19:39892441..39892455
+
Hg19::chr19:45954222..45954237,+p@chr19:45954222..45954237
+
Hg19::chr19:45954249..45954276,+p@chr19:45954249..45954276
+
Hg19::chr19:45954279..45954294,+p@chr19:45954279..45954294
+
Hg19::chr19:45972701..45972774,+p2@FOSB
Hg19::chr19:50554282..50554297,-p@chr19:50554282..50554297
-
Hg19::chr19:58609835..58609860,+p@chr19:58609835..58609860
+
Hg19::chr1:150207241..150207263,+p@chr1:150207241..150207263
+
Hg19::chr1:150584212..150584225,+p@chr1:150584212..150584225
+
Hg19::chr1:156076042..156076062,-p@chr1:156076042..156076062
-
Hg19::chr1:171455188..171455201,-p3@BC007549
Hg19::chr1:19923143..19923206,-p1@ENST00000416470
Hg19::chr1:245132972..245133020,+p2@EFCAB2
Hg19::chr1:245133062..245133098,+p3@EFCAB2
Hg19::chr20:34384518..34384529,-p@chr20:34384518..34384529
-
Hg19::chr21:44847380..44847401,+p@chr21:44847380..44847401
+
Hg19::chr22:42078575..42078594,+p@chr22:42078575..42078594
+
Hg19::chr2:157189859..157189868,+p@chr2:157189859..157189868
+
Hg19::chr2:201729344..201729359,-p3@CLK1
Hg19::chr2:24149009..24149030,+p@chr2:24149009..24149030
+
Hg19::chr2:25195035..25195063,+p2@DNAJC27-AS1
Hg19::chr3:20227985..20227998,+p@chr3:20227985..20227998
+
Hg19::chr6:116575441..116575452,+p4@uc003pwo.1
Hg19::chr6:157342586..157342600,-p@chr6:157342586..157342600
-
Hg19::chr6:16129308..16129327,+p1@MYLIP
Hg19::chr8:101964446..101964498,+p@chr8:101964446..101964498
+
Hg19::chr9:3525727..3525828,-p2@RFX3
Hg19::chr9:3526503..3526519,+p2@ENST00000423112
Hg19::chr9:91933575..91933588,-p@chr9:91933575..91933588
-


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

p.valueFDRnGenesnPathwayName
6.17544927282532e-060.003909059389698423162TNF alpha/NF-kB down reg. targets (Netpath):NetPath_9



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>

Cell Type
Ontology termp-valuen
hematopoietic stem cell7.05e-45172
angioblastic mesenchymal cell7.05e-45172
leukocyte2.04e-44140
hematopoietic cell4.70e-41182
hematopoietic oligopotent progenitor cell4.78e-41165
hematopoietic multipotent progenitor cell4.78e-41165
hematopoietic lineage restricted progenitor cell4.02e-35124
nongranular leukocyte9.96e-34119
CD14-positive, CD16-negative classical monocyte1.49e-2342
classical monocyte1.27e-2145
lymphocyte2.46e-2053
common lymphoid progenitor2.46e-2053
myeloid cell3.71e-20112
common myeloid progenitor3.71e-20112
lymphoid lineage restricted progenitor cell4.25e-2052
myeloid leukocyte1.36e-1876
granulocyte monocyte progenitor cell6.71e-1671
myeloid lineage restricted progenitor cell2.61e-1470
macrophage dendritic cell progenitor2.63e-1365
monopoietic cell2.13e-1263
monocyte2.13e-1263
monoblast2.13e-1263
promonocyte2.13e-1263
T cell9.75e-1125
pro-T cell9.75e-1125
mature alpha-beta T cell1.34e-1018
alpha-beta T cell1.34e-1018
immature T cell1.34e-1018
mature T cell1.34e-1018
immature alpha-beta T cell1.34e-1018
lymphocyte of B lineage9.11e-0924
pro-B cell9.11e-0924
B cell1.98e-0714
CD8-positive, alpha-beta T cell9.13e-0711
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.44e-20102
blood island1.44e-20102
hemolymphoid system1.15e-17112
bone marrow2.94e-1480
bone element4.73e-1486
adult organism3.73e-10115
immune system6.52e-10115
skeletal element6.35e-09101
skeletal system6.35e-09101


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

"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.

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