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|full_id=C4293_Neutrophils_Eosinophils_spinal_CD14_substantia_thalamus_medulla
|full_id=C4293_Neutrophils_Eosinophils_spinal_CD14_substantia_thalamus_medulla
|id=C4293
|id=C4293
|ontology_enrichment_celltype=CL:0000766!1.14e-27!76;CL:0002009!6.23e-26!65;CL:0002194!6.08e-25!63;CL:0000576!6.08e-25!63;CL:0000040!6.08e-25!63;CL:0000559!6.08e-25!63;CL:0000557!1.52e-23!71;CL:0000839!2.41e-22!70;CL:0002057!3.70e-21!42;CL:0000860!1.91e-19!45;CL:0000763!2.31e-14!112;CL:0000049!2.31e-14!112;CL:0000738!2.91e-13!140;CL:0002087!1.73e-09!119;CL:0002031!1.33e-08!124
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!1.90e-34!115;UBERON:0001049!1.47e-19!57;UBERON:0005068!1.47e-19!57;UBERON:0006241!1.47e-19!57;UBERON:0007135!1.47e-19!57;UBERON:0002390!7.19e-19!102;UBERON:0003061!7.19e-19!102;UBERON:0002193!2.99e-18!112;UBERON:0002371!9.81e-18!80;UBERON:0002616!7.65e-17!59;UBERON:0003080!5.34e-16!42;UBERON:0002780!1.11e-15!41;UBERON:0001890!1.11e-15!41;UBERON:0006240!1.11e-15!41;UBERON:0001474!1.73e-15!86;UBERON:0004765!1.64e-14!101;UBERON:0001434!1.64e-14!101;UBERON:0003075!1.06e-13!86;UBERON:0007284!1.06e-13!86;UBERON:0000955!3.10e-13!69;UBERON:0006238!3.10e-13!69;UBERON:0002020!3.16e-13!34;UBERON:0003528!3.16e-13!34;UBERON:0001893!4.12e-13!34;UBERON:0002791!1.27e-12!33;UBERON:0005743!1.42e-12!86;UBERON:0001017!3.91e-12!82;UBERON:0001869!6.46e-12!32;UBERON:0002405!2.93e-11!115;UBERON:0000062!3.47e-11!511;UBERON:0002346!4.58e-11!90;UBERON:0000073!5.79e-11!94;UBERON:0001016!5.79e-11!94;UBERON:0000033!2.31e-10!123;UBERON:0000153!5.55e-10!129;UBERON:0007811!5.55e-10!129;UBERON:0002619!1.92e-09!22;UBERON:0003056!2.19e-09!61;UBERON:0004121!1.35e-08!169;UBERON:0000956!1.76e-08!25;UBERON:0000203!1.76e-08!25;UBERON:0001950!2.83e-08!20;UBERON:0002050!1.53e-07!605;UBERON:0005423!1.53e-07!605;UBERON:0000923!1.70e-07!604;UBERON:0005291!1.70e-07!604;UBERON:0006598!1.70e-07!604;UBERON:0002532!1.70e-07!604;UBERON:0000467!2.26e-07!625;UBERON:0000480!2.34e-07!626;UBERON:0000924!3.39e-07!173;UBERON:0006601!3.39e-07!173;UBERON:0000922!9.33e-07!612
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Revision as of 14:47, 21 May 2012


Full id: C4293_Neutrophils_Eosinophils_spinal_CD14_substantia_thalamus_medulla



Phase1 CAGE Peaks

Hg19::chr3:149530983..149531065,+p1@RNF13
Hg19::chr6:71998492..71998501,+p3@OGFRL1
Hg19::chr6:71998506..71998522,+p1@OGFRL1


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 organism1.90e-34115
neural tube1.47e-1957
neural rod1.47e-1957
future spinal cord1.47e-1957
neural keel1.47e-1957
hematopoietic system7.19e-19102
blood island7.19e-19102
hemolymphoid system2.99e-18112
bone marrow9.81e-1880
regional part of brain7.65e-1759
anterior neural tube5.34e-1642
regional part of forebrain1.11e-1541
forebrain1.11e-1541
future forebrain1.11e-1541
bone element1.73e-1586
skeletal element1.64e-14101
skeletal system1.64e-14101
neural plate1.06e-1386
presumptive neural plate1.06e-1386
brain3.10e-1369
future brain3.10e-1369
gray matter3.16e-1334
brain grey matter3.16e-1334
telencephalon4.12e-1334
regional part of telencephalon1.27e-1233
central nervous system3.91e-1282
cerebral hemisphere6.46e-1232
immune system2.93e-11115
organ3.47e-11511
neurectoderm4.58e-1190
regional part of nervous system5.79e-1194
nervous system5.79e-1194
head2.31e-10123
anterior region of body5.55e-10129
craniocervical region5.55e-10129
regional part of cerebral cortex1.92e-0922
pre-chordal neural plate2.19e-0961
ectoderm-derived structure1.35e-08169
cerebral cortex1.76e-0825
pallium1.76e-0825
neocortex2.83e-0820
embryonic structure1.53e-07605
developing anatomical structure1.53e-07605
germ layer1.70e-07604
embryonic tissue1.70e-07604
presumptive structure1.70e-07604
epiblast (generic)1.70e-07604
anatomical system2.26e-07625
anatomical group2.34e-07626
ectoderm3.39e-07173
presumptive ectoderm3.39e-07173
embryo9.33e-07612


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.