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|full_id=C951_CD14_Hepatocyte_liver_small_Monocytederived_substantia_spinal
|full_id=C951_CD14_Hepatocyte_liver_small_Monocytederived_substantia_spinal
|id=C951
|id=C951
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!1.35e-41!115;UBERON:0001049!3.14e-21!57;UBERON:0005068!3.14e-21!57;UBERON:0006241!3.14e-21!57;UBERON:0007135!3.14e-21!57;UBERON:0005743!5.32e-21!86;UBERON:0001017!1.45e-20!82;UBERON:0002616!1.91e-19!59;UBERON:0000073!1.12e-18!94;UBERON:0001016!1.12e-18!94;UBERON:0000955!4.55e-18!69;UBERON:0006238!4.55e-18!69;UBERON:0000062!9.36e-17!511;UBERON:0000468!1.25e-16!659;UBERON:0002346!2.38e-16!90;UBERON:0003075!1.01e-15!86;UBERON:0007284!1.01e-15!86;UBERON:0003080!2.40e-15!42;UBERON:0002780!8.36e-15!41;UBERON:0001890!8.36e-15!41;UBERON:0006240!8.36e-15!41;UBERON:0000153!5.30e-14!129;UBERON:0007811!5.30e-14!129;UBERON:0000924!1.15e-13!173;UBERON:0006601!1.15e-13!173;UBERON:0000033!1.29e-13!123;UBERON:0000481!2.05e-13!347;UBERON:0000475!2.19e-13!365;UBERON:0004121!4.77e-13!169;UBERON:0002020!2.78e-12!34;UBERON:0003528!2.78e-12!34;UBERON:0001893!5.96e-12!34;UBERON:0002791!1.22e-11!33;UBERON:0003056!2.42e-11!61;UBERON:0000480!3.48e-11!626;UBERON:0000922!4.07e-11!612;UBERON:0000467!5.57e-11!625;UBERON:0001869!6.62e-11!32;UBERON:0000064!2.95e-10!219;UBERON:0002050!1.31e-09!605;UBERON:0005423!1.31e-09!605;UBERON:0000923!2.60e-09!604;UBERON:0005291!2.60e-09!604;UBERON:0006598!2.60e-09!604;UBERON:0002532!2.60e-09!604;UBERON:0000477!2.65e-09!286;UBERON:0004921!3.92e-09!129;UBERON:0004185!3.92e-09!129;UBERON:0002619!8.36e-09!22;UBERON:0001007!2.28e-08!155;UBERON:0001555!2.28e-08!155;UBERON:0007026!2.28e-08!155;UBERON:0000956!3.56e-08!25;UBERON:0000203!3.56e-08!25;UBERON:0001950!4.51e-08!20;UBERON:0004119!1.05e-07!169;UBERON:0000925!1.05e-07!169;UBERON:0006595!1.05e-07!169;UBERON:0000483!3.05e-07!309;UBERON:0000119!3.06e-07!312;UBERON:0003076!3.74e-07!15;UBERON:0003057!3.74e-07!15;UBERON:0004111!3.79e-07!241
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Revision as of 14:59, 21 May 2012


Full id: C951_CD14_Hepatocyte_liver_small_Monocytederived_substantia_spinal



Phase1 CAGE Peaks

Hg19::chr5:42800558..42800572,-p@chr5:42800558..42800572
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Hg19::chr5:42800843..42800854,-p@chr5:42800843..42800854
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Hg19::chr5:42800880..42800912,-p@chr5:42800880..42800912
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Hg19::chr5:42801300..42801396,-p@chr5:42801300..42801396
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Hg19::chr5:42804827..42804883,-p@chr5:42804827..42804883
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Hg19::chr5:42807162..42807221,-p2@SEPP1
Hg19::chr5:42808287..42808317,-p5@SEPP1
Hg19::chr5:42808318..42808356,-p6@SEPP1
Hg19::chr5:42811986..42812001,-p1@SEPP1


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><br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
adult organism1.35e-41115
neural tube3.14e-2157
neural rod3.14e-2157
future spinal cord3.14e-2157
neural keel3.14e-2157
central nervous system1.45e-2082
regional part of brain1.91e-1959
regional part of nervous system1.12e-1894
nervous system1.12e-1894
brain4.55e-1869
future brain4.55e-1869
organ9.36e-17511
multi-cellular organism1.25e-16659
neurectoderm2.38e-1690
neural plate1.01e-1586
presumptive neural plate1.01e-1586
anterior neural tube2.40e-1542
regional part of forebrain8.36e-1541
forebrain8.36e-1541
future forebrain8.36e-1541
anterior region of body5.30e-14129
craniocervical region5.30e-14129
ectoderm1.15e-13173
presumptive ectoderm1.15e-13173
head1.29e-13123
multi-tissue structure2.05e-13347
organism subdivision2.19e-13365
ectoderm-derived structure4.77e-13169
gray matter2.78e-1234
brain grey matter2.78e-1234
telencephalon5.96e-1234
regional part of telencephalon1.22e-1133
pre-chordal neural plate2.42e-1161
anatomical group3.48e-11626
embryo4.07e-11612
anatomical system5.57e-11625
cerebral hemisphere6.62e-1132
organ part2.95e-10219
embryonic structure1.31e-09605
developing anatomical structure1.31e-09605
germ layer2.60e-09604
embryonic tissue2.60e-09604
presumptive structure2.60e-09604
epiblast (generic)2.60e-09604
anatomical cluster2.65e-09286
subdivision of digestive tract3.92e-09129
endodermal part of digestive tract3.92e-09129
regional part of cerebral cortex8.36e-0922
digestive system2.28e-08155
digestive tract2.28e-08155
primitive gut2.28e-08155
cerebral cortex3.56e-0825
pallium3.56e-0825
neocortex4.51e-0820
endoderm-derived structure1.05e-07169
endoderm1.05e-07169
presumptive endoderm1.05e-07169
epithelium3.05e-07309
cell layer3.06e-07312
posterior neural tube3.74e-0715
chordal neural plate3.74e-0715
anatomical conduit3.79e-07241


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.