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Coexpression cluster:C1792: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!4.60e-32!115;UBERON:0001049!1.50e-20!57;UBERON:0005068!1.50e-20!57;UBERON:0006241!1.50e-20!57;UBERON:0007135!1.50e-20!57;UBERON:0005743!4.06e-16!86;UBERON:0002616!5.67e-16!59;UBERON:0003080!5.81e-16!42;UBERON:0002780!1.16e-15!41;UBERON:0001890!1.16e-15!41;UBERON:0006240!1.16e-15!41;UBERON:0002346!3.46e-15!90;UBERON:0003075!5.34e-15!86;UBERON:0007284!5.34e-15!86;UBERON:0001017!8.94e-15!82;UBERON:0002020!3.88e-14!34;UBERON:0003528!3.88e-14!34;UBERON:0001893!1.30e-13!34;UBERON:0002791!2.28e-13!33;UBERON:0000955!4.46e-13!69;UBERON:0006238!4.46e-13!69;UBERON:0000073!4.80e-13!94;UBERON:0001016!4.80e-13!94;UBERON:0001869!8.10e-13!32;UBERON:0003056!3.89e-12!61;UBERON:0002619!5.18e-12!22;UBERON:0000922!4.64e-11!612;UBERON:0000468!4.93e-11!659;UBERON:0001950!6.63e-11!20;UBERON:0000923!4.64e-10!604;UBERON:0005291!4.64e-10!604;UBERON:0006598!4.64e-10!604;UBERON:0002532!4.64e-10!604;UBERON:0002050!5.50e-10!605;UBERON:0005423!5.50e-10!605;UBERON:0000956!6.00e-10!25;UBERON:0000203!6.00e-10!25;UBERON:0000477!9.22e-09!286;UBERON:0004111!1.20e-08!241;UBERON:0000033!2.91e-08!123;UBERON:0000467!3.08e-08!625;UBERON:0000025!4.40e-08!194;UBERON:0000480!4.84e-08!626;UBERON:0000153!5.77e-08!129;UBERON:0007811!5.77e-08!129;UBERON:0000924!1.07e-07!173;UBERON:0006601!1.07e-07!173;UBERON:0000062!1.68e-07!511;UBERON:0004121!1.96e-07!169
|ontology_enrichment_uberon=UBERON:0007023!4.60e-32!115;UBERON:0001049!1.50e-20!57;UBERON:0005068!1.50e-20!57;UBERON:0006241!1.50e-20!57;UBERON:0007135!1.50e-20!57;UBERON:0005743!4.06e-16!86;UBERON:0002616!5.67e-16!59;UBERON:0003080!5.81e-16!42;UBERON:0002780!1.16e-15!41;UBERON:0001890!1.16e-15!41;UBERON:0006240!1.16e-15!41;UBERON:0002346!3.46e-15!90;UBERON:0003075!5.34e-15!86;UBERON:0007284!5.34e-15!86;UBERON:0001017!8.94e-15!82;UBERON:0002020!3.88e-14!34;UBERON:0003528!3.88e-14!34;UBERON:0001893!1.30e-13!34;UBERON:0002791!2.28e-13!33;UBERON:0000955!4.46e-13!69;UBERON:0006238!4.46e-13!69;UBERON:0000073!4.80e-13!94;UBERON:0001016!4.80e-13!94;UBERON:0001869!8.10e-13!32;UBERON:0003056!3.89e-12!61;UBERON:0002619!5.18e-12!22;UBERON:0000922!4.64e-11!612;UBERON:0000468!4.93e-11!659;UBERON:0001950!6.63e-11!20;UBERON:0000923!4.64e-10!604;UBERON:0005291!4.64e-10!604;UBERON:0006598!4.64e-10!604;UBERON:0002532!4.64e-10!604;UBERON:0002050!5.50e-10!605;UBERON:0005423!5.50e-10!605;UBERON:0000956!6.00e-10!25;UBERON:0000203!6.00e-10!25;UBERON:0000477!9.22e-09!286;UBERON:0004111!1.20e-08!241;UBERON:0000033!2.91e-08!123;UBERON:0000467!3.08e-08!625;UBERON:0000025!4.40e-08!194;UBERON:0000480!4.84e-08!626;UBERON:0000153!5.77e-08!129;UBERON:0007811!5.77e-08!129;UBERON:0000924!1.07e-07!173;UBERON:0006601!1.07e-07!173;UBERON:0000062!1.68e-07!511;UBERON:0004121!1.96e-07!169
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}}
}}

Revision as of 17:39, 8 August 2012


Full id: C1792_medial_Neutrophils_Whole_amygdala_occipital_spinal_brain



Phase1 CAGE Peaks

Hg19::chr17:73843026..73843066,-p4@WBP2
Hg19::chr17:73843605..73843662,-p2@WBP2
Hg19::chr17:73843947..73843961,-p3@WBP2
Hg19::chr17:73844722..73844751,-p@chr17:73844722..73844751
-
Hg19::chr17:73845785..73845824,-p@chr17:73845785..73845824
-


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 organism4.60e-32115
neural tube1.50e-2057
neural rod1.50e-2057
future spinal cord1.50e-2057
neural keel1.50e-2057
regional part of brain5.67e-1659
anterior neural tube5.81e-1642
regional part of forebrain1.16e-1541
forebrain1.16e-1541
future forebrain1.16e-1541
neurectoderm3.46e-1590
neural plate5.34e-1586
presumptive neural plate5.34e-1586
central nervous system8.94e-1582
gray matter3.88e-1434
brain grey matter3.88e-1434
telencephalon1.30e-1334
regional part of telencephalon2.28e-1333
brain4.46e-1369
future brain4.46e-1369
regional part of nervous system4.80e-1394
nervous system4.80e-1394
cerebral hemisphere8.10e-1332
pre-chordal neural plate3.89e-1261
regional part of cerebral cortex5.18e-1222
embryo4.64e-11612
multi-cellular organism4.93e-11659
neocortex6.63e-1120
germ layer4.64e-10604
embryonic tissue4.64e-10604
presumptive structure4.64e-10604
epiblast (generic)4.64e-10604
embryonic structure5.50e-10605
developing anatomical structure5.50e-10605
cerebral cortex6.00e-1025
pallium6.00e-1025
anatomical cluster9.22e-09286
anatomical conduit1.20e-08241
head2.91e-08123
anatomical system3.08e-08625
tube4.40e-08194
anatomical group4.84e-08626
anterior region of body5.77e-08129
craniocervical region5.77e-08129
ectoderm1.07e-07173
presumptive ectoderm1.07e-07173
organ1.68e-07511
ectoderm-derived structure1.96e-07169


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)

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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.