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Coexpression cluster:C871: Difference between revisions

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|gostat_on_coexpression_clusters=GO:0043124!negative regulation of I-kappaB kinase/NF-kappaB cascade!0.0384038116999737!399$GO:0005095!GTPase inhibitor activity!0.0384038116999737!399
|gostat_on_coexpression_clusters=GO:0043124!negative regulation of I-kappaB kinase/NF-kappaB cascade!0.0384038116999737!399$GO:0005095!GTPase inhibitor activity!0.0384038116999737!399
|id=C871
|id=C871
|ontology_enrichment_celltype=CL:0000037!9.36e-57!172;CL:0000566!9.36e-57!172;CL:0002032!3.33e-52!165;CL:0000837!3.33e-52!165;CL:0000988!3.83e-52!182;CL:0000738!2.32e-49!140;CL:0002031!2.73e-41!124;CL:0002087!4.99e-39!119;CL:0000542!6.25e-29!53;CL:0000051!6.25e-29!53;CL:0000838!1.19e-28!52;CL:0000763!3.66e-23!112;CL:0000049!3.66e-23!112;CL:0000766!2.75e-16!76;CL:0000084!1.95e-14!25;CL:0000827!1.95e-14!25;CL:0000557!5.25e-14!71;CL:0000839!1.37e-13!70;CL:0000945!2.37e-13!24;CL:0000826!2.37e-13!24;CL:0002057!5.44e-13!42;CL:0000860!7.66e-13!45;CL:0000791!4.20e-12!18;CL:0000789!4.20e-12!18;CL:0002420!4.20e-12!18;CL:0002419!4.20e-12!18;CL:0000790!4.20e-12!18;CL:0002009!1.23e-11!65;CL:0002194!6.46e-11!63;CL:0000576!6.46e-11!63;CL:0000040!6.46e-11!63;CL:0000559!6.46e-11!63;CL:0000236!1.12e-09!14;CL:0000625!4.80e-08!11
|ontology_enrichment_disease=DOID:2531!4.31e-11!51;DOID:0060083!4.31e-11!51;DOID:1240!2.72e-08!39
|ontology_enrichment_uberon=UBERON:0002390!2.54e-18!102;UBERON:0003061!2.54e-18!102;UBERON:0002193!9.92e-17!112;UBERON:0007023!2.20e-13!115;UBERON:0002371!3.83e-10!80;UBERON:0001474!1.80e-09!86;UBERON:0002405!1.75e-08!115;UBERON:0000178!6.90e-08!15;UBERON:0000179!6.90e-08!15;UBERON:0000463!6.90e-08!15
}}
}}

Revision as of 14:58, 21 May 2012


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>disease_data<br>


Cell Type
Ontology termp-valuen
hematopoietic stem cell9.36e-57172
angioblastic mesenchymal cell9.36e-57172
hematopoietic oligopotent progenitor cell3.33e-52165
hematopoietic multipotent progenitor cell3.33e-52165
hematopoietic cell3.83e-52182
leukocyte2.32e-49140
hematopoietic lineage restricted progenitor cell2.73e-41124
nongranular leukocyte4.99e-39119
lymphocyte6.25e-2953
common lymphoid progenitor6.25e-2953
lymphoid lineage restricted progenitor cell1.19e-2852
myeloid cell3.66e-23112
common myeloid progenitor3.66e-23112
myeloid leukocyte2.75e-1676
T cell1.95e-1425
pro-T cell1.95e-1425
granulocyte monocyte progenitor cell5.25e-1471
myeloid lineage restricted progenitor cell1.37e-1370
lymphocyte of B lineage2.37e-1324
pro-B cell2.37e-1324
CD14-positive, CD16-negative classical monocyte5.44e-1342
classical monocyte7.66e-1345
mature alpha-beta T cell4.20e-1218
alpha-beta T cell4.20e-1218
immature T cell4.20e-1218
mature T cell4.20e-1218
immature alpha-beta T cell4.20e-1218
macrophage dendritic cell progenitor1.23e-1165
monopoietic cell6.46e-1163
monocyte6.46e-1163
monoblast6.46e-1163
promonocyte6.46e-1163
B cell1.12e-0914
CD8-positive, alpha-beta T cell4.80e-0811
Uber Anatomy
Ontology termp-valuen
hematopoietic system2.54e-18102
blood island2.54e-18102
hemolymphoid system9.92e-17112
adult organism2.20e-13115
bone marrow3.83e-1080
bone element1.80e-0986
immune system1.75e-08115
blood6.90e-0815
haemolymphatic fluid6.90e-0815
organism substance6.90e-0815
Disease
Ontology termp-valuen
hematologic cancer4.31e-1151
immune system cancer4.31e-1151
leukemia2.72e-0839


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.