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Coexpression cluster:C1849: Difference between revisions

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|full_id=C1849_anaplastic_cord_hairy_mycosis_adult_myeloma_NK
|full_id=C1849_anaplastic_cord_hairy_mycosis_adult_myeloma_NK
|id=C1849
|id=C1849
|ontology_enrichment_celltype=
|ontology_enrichment_celltype=CL:0002541!2.78e-20!3;CL:0000080!7.28e-11!6;CL:0000946!1.18e-07!1;CL:0000786!1.18e-07!1;CL:0000980!1.18e-07!1
|ontology_enrichment_disease=
|ontology_enrichment_disease=DOID:0060060!3.32e-08!1;DOID:0060061!3.32e-08!1;DOID:8691!3.32e-08!1;DOID:178!7.97e-08!1;DOID:326!7.97e-08!1;DOID:3978!7.97e-08!1;DOID:3394!7.97e-08!1;DOID:5844!7.97e-08!1
|ontology_enrichment_uberon=UBERON:0002020!4.19e-10!34;UBERON:0003528!4.19e-10!34;UBERON:0001893!4.56e-10!34;UBERON:0002791!8.50e-10!33;UBERON:0001017!9.23e-10!82;UBERON:0001049!1.26e-09!57;UBERON:0005068!1.26e-09!57;UBERON:0006241!1.26e-09!57;UBERON:0007135!1.26e-09!57;UBERON:0007023!2.19e-09!115;UBERON:0003080!2.35e-09!42;UBERON:0001869!3.15e-09!32;UBERON:0002780!3.43e-09!41;UBERON:0001890!3.43e-09!41;UBERON:0006240!3.43e-09!41;UBERON:0002616!1.03e-08!59;UBERON:0005743!1.49e-08!86;UBERON:0000955!3.65e-08!69;UBERON:0006238!3.65e-08!69;UBERON:0000073!5.10e-08!94;UBERON:0001016!5.10e-08!94;UBERON:0003075!1.11e-07!86;UBERON:0007284!1.11e-07!86;UBERON:0002346!6.91e-07!90
|ontology_enrichment_uberon=UBERON:0000476!2.78e-20!3;UBERON:0000920!2.78e-20!3;UBERON:0003124!5.08e-15!7;UBERON:0000478!1.06e-12!24;UBERON:0005705!5.70e-08!1;UBERON:0008193!5.70e-08!1;UBERON:0010912!5.70e-08!1;UBERON:0002514!5.70e-08!1;UBERON:0003457!5.70e-08!1;UBERON:0008907!5.70e-08!1;UBERON:0008001!5.70e-08!1;UBERON:0007213!5.70e-08!1;UBERON:0009891!5.70e-08!1;UBERON:0007914!5.70e-08!1;UBERON:0009292!5.70e-08!1;UBERON:0003099!5.70e-08!1;UBERON:0007375!5.70e-08!1;UBERON:0003323!5.70e-08!1;UBERON:0010258!5.70e-08!1;UBERON:0007842!5.70e-08!1;UBERON:0009494!5.70e-08!1;UBERON:0010042!5.70e-08!1;UBERON:0010045!5.70e-08!1;UBERON:0010259!5.70e-08!1;UBERON:0010359!5.70e-08!1;UBERON:0009526!5.70e-08!1;UBERON:0002397!5.70e-08!1;UBERON:0003113!5.70e-08!1;UBERON:0003277!5.70e-08!1;UBERON:0001709!5.70e-08!1;UBERON:0004066!5.70e-08!1;UBERON:0002244!5.70e-08!1;UBERON:0005620!5.70e-08!1;UBERON:0004362!5.70e-08!1;UBERON:0010364!5.70e-08!1;UBERON:0010046!5.70e-08!1;UBERON:0005868!5.70e-08!1;UBERON:0007238!5.70e-08!1;UBERON:0004288!5.70e-08!1;UBERON:0004068!5.70e-08!1;UBERON:0010334!5.70e-08!1;UBERON:0003852!5.70e-08!1;UBERON:0010253!5.70e-08!1;UBERON:0005631!1.41e-07!14;UBERON:0000158!1.41e-07!14;UBERON:0002372!1.87e-07!1;UBERON:0001961!1.87e-07!1;UBERON:0001744!1.87e-07!1;UBERON:0001735!1.87e-07!1;UBERON:0002370!2.84e-07!4;UBERON:0005058!2.84e-07!4;UBERON:0009113!2.84e-07!4;UBERON:0003295!2.84e-07!4;UBERON:0005562!2.84e-07!4
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}}
}}

Revision as of 11:46, 19 October 2012


Full id: C1849_anaplastic_cord_hairy_mycosis_adult_myeloma_NK



Phase1 CAGE Peaks

Hg19::chr1:212873200..212873230,-p5@BATF3
Hg19::chr1:212873267..212873332,-p1@BATF3
Hg19::chr3:118905564..118905595,+p4@UPK1B
Hg19::chr3:16563124..16563137,+p@chr3:16563124..16563137
+
Hg19::chr3:186150363..186150372,+p@chr3:186150363..186150372
+


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
chorionic membrane mesenchymal stem cell2.78e-203
circulating cell7.28e-116
antibody secreting cell1.18e-071
plasma cell1.18e-071
plasmablast1.18e-071
Uber Anatomy
Ontology termp-valuen
acellular anatomical structure2.78e-203
egg chorion2.78e-203
chorion5.08e-157
extraembryonic structure1.06e-1224
primary palate mesenchyme5.70e-081
pneumatized bone5.70e-081
subdivision of skeleton5.70e-081
intramembranous bone5.70e-081
head bone5.70e-081
dermal bone5.70e-081
irregular bone5.70e-081
mesenchyme derived from head neural crest5.70e-081
facial mesenchyme5.70e-081
head or neck bone5.70e-081
embryonic nasal process5.70e-081
cranial neural crest5.70e-081
roof of mouth5.70e-081
mesenchyme of upper jaw5.70e-081
mesenchyme from rhombencephalic neural crest5.70e-081
membrane bone5.70e-081
pharyngeal arch mesenchymal region5.70e-081
1st arch mesenchyme5.70e-081
1st arch maxillary mesenchyme5.70e-081
1st arch mesenchyme from neural crest5.70e-081
pharyngeal arch mesenchyme from neural crest5.70e-081
maxillary process mesenchyme5.70e-081
maxilla5.70e-081
dermatocranium5.70e-081
skeleton of upper jaw5.70e-081
upper jaw region5.70e-081
frontonasal prominence5.70e-081
premaxilla5.70e-081
primary palate5.70e-081
pharyngeal arch 15.70e-081
dermal skeleton5.70e-081
entire pharyngeal arch associated mesenchyme5.70e-081
maxillary prominence5.70e-081
1st arch maxillary component5.70e-081
skeleton5.70e-081
medial nasal prominence5.70e-081
maxillary process mesenchyme from neural crest5.70e-081
rhombencephalon neural crest5.70e-081
1st arch maxillary mesenchyme from neural crest5.70e-081
extraembryonic membrane1.41e-0714
membranous layer1.41e-0714
tonsil1.87e-071
mucosa-associated lymphoid tissue1.87e-071
lymphoid tissue1.87e-071
tonsillar ring1.87e-071
thymus2.84e-074
hemolymphoid system gland2.84e-074
thymic region2.84e-074
pharyngeal gland2.84e-074
thymus primordium2.84e-074
Disease
Ontology termp-valuen
non-Hodgkin lymphoma3.32e-081
cutaneous T cell lymphoma3.32e-081
mycosis fungoides3.32e-081
vascular disease7.97e-081
ischemia7.97e-081
extrinsic cardiomyopathy7.97e-081
myocardial ischemia7.97e-081
myocardial infarction7.97e-081


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.

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C1849&oldid=2247890"