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|full_id=C2979_Neutrophils_parietal_brain_occipital_CD4_CD14CD16_temporal
|full_id=C2979_Neutrophils_parietal_brain_occipital_CD4_CD14CD16_temporal
|id=C2979
|id=C2979
|ontology_enrichment_celltype=CL:0000037!1.06e-44!172;CL:0000566!1.06e-44!172;CL:0002032!2.91e-41!165;CL:0000837!2.91e-41!165;CL:0000988!8.85e-41!182;CL:0000738!6.52e-38!140;CL:0002087!4.82e-29!119;CL:0002031!3.60e-28!124;CL:0000763!9.45e-22!112;CL:0000049!9.45e-22!112;CL:0000542!2.00e-18!53;CL:0000051!2.00e-18!53;CL:0000838!3.73e-18!52;CL:0000766!6.17e-15!76;CL:0000084!3.17e-12!25;CL:0000827!3.17e-12!25;CL:0000557!1.23e-11!71;CL:0000839!6.48e-11!70;CL:0000791!7.49e-11!18;CL:0000789!7.49e-11!18;CL:0002420!7.49e-11!18;CL:0002419!7.49e-11!18;CL:0000790!7.49e-11!18;CL:0002009!3.15e-10!65;CL:0002194!4.94e-10!63;CL:0000576!4.94e-10!63;CL:0000040!4.94e-10!63;CL:0000559!4.94e-10!63;CL:0002057!1.78e-09!42;CL:0000860!7.51e-08!45;CL:0002393!5.39e-07!9;CL:0002397!5.39e-07!9;CL:0000625!9.13e-07!11
|ontology_enrichment_disease=DOID:1240!1.46e-08!39;DOID:2531!2.58e-07!51;DOID:0060083!2.58e-07!51;DOID:8692!6.39e-07!31
|ontology_enrichment_uberon=UBERON:0007023!5.46e-26!115;UBERON:0002390!2.23e-16!102;UBERON:0003061!2.23e-16!102;UBERON:0001049!2.81e-16!57;UBERON:0005068!2.81e-16!57;UBERON:0006241!2.81e-16!57;UBERON:0007135!2.81e-16!57;UBERON:0002193!7.82e-16!112;UBERON:0003080!9.56e-16!42;UBERON:0002780!1.22e-15!41;UBERON:0001890!1.22e-15!41;UBERON:0006240!1.22e-15!41;UBERON:0001893!3.54e-14!34;UBERON:0002020!6.47e-14!34;UBERON:0003528!6.47e-14!34;UBERON:0002791!7.19e-14!33;UBERON:0001869!1.04e-13!32;UBERON:0002616!4.10e-12!59;UBERON:0002619!1.29e-11!22;UBERON:0000956!3.02e-11!25;UBERON:0000203!3.02e-11!25;UBERON:0001017!5.62e-11!82;UBERON:0003075!1.10e-10!86;UBERON:0007284!1.10e-10!86;UBERON:0001950!1.29e-10!20;UBERON:0000955!2.87e-10!69;UBERON:0006238!2.87e-10!69;UBERON:0005743!5.78e-10!86;UBERON:0002346!6.91e-10!90;UBERON:0002371!8.49e-09!80;UBERON:0003056!1.01e-08!61;UBERON:0000178!2.88e-08!15;UBERON:0000179!2.88e-08!15;UBERON:0000463!2.88e-08!15;UBERON:0000073!4.55e-08!94;UBERON:0001016!4.55e-08!94;UBERON:0001474!4.44e-07!86
}}
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Revision as of 14:30, 21 May 2012


Full id: C2979_Neutrophils_parietal_brain_occipital_CD4_CD14CD16_temporal



Phase1 CAGE Peaks

Hg19::chr10:11228276..11228288,+p@chr10:11228276..11228288
+
Hg19::chr10:11254721..11254723,+p@chr10:11254721..11254723
+
Hg19::chr10:11293261..11293262,+p@chr10:11293261..11293262
+


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>disease_data<br>


Cell Type
Ontology termp-valuen
hematopoietic stem cell1.06e-44172
angioblastic mesenchymal cell1.06e-44172
hematopoietic oligopotent progenitor cell2.91e-41165
hematopoietic multipotent progenitor cell2.91e-41165
hematopoietic cell8.85e-41182
leukocyte6.52e-38140
nongranular leukocyte4.82e-29119
hematopoietic lineage restricted progenitor cell3.60e-28124
myeloid cell9.45e-22112
common myeloid progenitor9.45e-22112
lymphocyte2.00e-1853
common lymphoid progenitor2.00e-1853
lymphoid lineage restricted progenitor cell3.73e-1852
myeloid leukocyte6.17e-1576
T cell3.17e-1225
pro-T cell3.17e-1225
granulocyte monocyte progenitor cell1.23e-1171
myeloid lineage restricted progenitor cell6.48e-1170
mature alpha-beta T cell7.49e-1118
alpha-beta T cell7.49e-1118
immature T cell7.49e-1118
mature T cell7.49e-1118
immature alpha-beta T cell7.49e-1118
macrophage dendritic cell progenitor3.15e-1065
monopoietic cell4.94e-1063
monocyte4.94e-1063
monoblast4.94e-1063
promonocyte4.94e-1063
CD14-positive, CD16-negative classical monocyte1.78e-0942
classical monocyte7.51e-0845
intermediate monocyte5.39e-079
CD14-positive, CD16-positive monocyte5.39e-079
CD8-positive, alpha-beta T cell9.13e-0711
Uber Anatomy
Ontology termp-valuen
adult organism5.46e-26115
hematopoietic system2.23e-16102
blood island2.23e-16102
neural tube2.81e-1657
neural rod2.81e-1657
future spinal cord2.81e-1657
neural keel2.81e-1657
hemolymphoid system7.82e-16112
anterior neural tube9.56e-1642
regional part of forebrain1.22e-1541
forebrain1.22e-1541
future forebrain1.22e-1541
telencephalon3.54e-1434
gray matter6.47e-1434
brain grey matter6.47e-1434
regional part of telencephalon7.19e-1433
cerebral hemisphere1.04e-1332
regional part of brain4.10e-1259
regional part of cerebral cortex1.29e-1122
cerebral cortex3.02e-1125
pallium3.02e-1125
central nervous system5.62e-1182
neural plate1.10e-1086
presumptive neural plate1.10e-1086
neocortex1.29e-1020
brain2.87e-1069
future brain2.87e-1069
neurectoderm6.91e-1090
bone marrow8.49e-0980
pre-chordal neural plate1.01e-0861
blood2.88e-0815
haemolymphatic fluid2.88e-0815
organism substance2.88e-0815
regional part of nervous system4.55e-0894
nervous system4.55e-0894
bone element4.44e-0786
Disease
Ontology termp-valuen
leukemia1.46e-0839
hematologic cancer2.58e-0751
immune system cancer2.58e-0751
myeloid leukemia6.39e-0731


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.