Personal tools

Difference between revisions of "Coexpression cluster:C3251"

From FANTOM5_SSTAR

Jump to: navigation, search
(Created page with "{{Coexpression_clusters |full_id=C3251_granulocyte_Burkitt_acute_signet_diffuse_splenic_biphenotypic |id=C3251 }}")
 
Line 2: Line 2:
 
|full_id=C3251_granulocyte_Burkitt_acute_signet_diffuse_splenic_biphenotypic
 
|full_id=C3251_granulocyte_Burkitt_acute_signet_diffuse_splenic_biphenotypic
 
|id=C3251
 
|id=C3251
 +
|ontology_enrichment_celltype=CL:0000066!4.97e-10!254;CL:0000945!3.45e-08!24;CL:0000826!3.45e-08!24
 +
|ontology_enrichment_disease=DOID:162!5.86e-27!235;DOID:14566!4.98e-26!239;DOID:2531!2.08e-20!51;DOID:0060083!2.08e-20!51;DOID:305!1.45e-17!106;DOID:1240!4.86e-16!39;DOID:0050687!3.31e-15!143;DOID:0050686!6.64e-15!137;DOID:8692!1.55e-12!31;DOID:0060058!6.51e-07!10
 +
|ontology_enrichment_uberon=UBERON:0001049!2.55e-09!57;UBERON:0005068!2.55e-09!57;UBERON:0006241!2.55e-09!57;UBERON:0007135!2.55e-09!57;UBERON:0001893!5.93e-09!34;UBERON:0002020!8.60e-09!34;UBERON:0003528!8.60e-09!34;UBERON:0002791!1.31e-08!33;UBERON:0001869!1.41e-08!32;UBERON:0000064!1.65e-08!219;UBERON:0002780!2.91e-08!41;UBERON:0001890!2.91e-08!41;UBERON:0006240!2.91e-08!41;UBERON:0003075!4.28e-08!86;UBERON:0007284!4.28e-08!86;UBERON:0002346!7.47e-08!90;UBERON:0003056!8.60e-08!61;UBERON:0003080!1.15e-07!42;UBERON:0000955!2.10e-07!69;UBERON:0006238!2.10e-07!69;UBERON:0000956!2.52e-07!25;UBERON:0000203!2.52e-07!25;UBERON:0000073!4.02e-07!94;UBERON:0001016!4.02e-07!94;UBERON:0005743!5.29e-07!86;UBERON:0002616!5.66e-07!59;UBERON:0001017!8.06e-07!82;UBERON:0002619!8.32e-07!22
 
}}
 
}}

Revision as of 05:34, 21 May 2012


Full id: C3251_granulocyte_Burkitt_acute_signet_diffuse_splenic_biphenotypic



Phase1 CAGE Peaks

Hg19::chr12:125478179..125478208,+p1@BRI3BP
Hg19::chr12:125478212..125478235,+p3@BRI3BP
Hg19::chr12:125478241..125478260,+p2@BRI3BP


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
epithelial cell4.97e-10254
lymphocyte of B lineage3.45e-0824
pro-B cell3.45e-0824
Uber Anatomy
Ontology termp-valuen
neural tube2.55e-0957
neural rod2.55e-0957
future spinal cord2.55e-0957
neural keel2.55e-0957
telencephalon5.93e-0934
gray matter8.60e-0934
brain grey matter8.60e-0934
regional part of telencephalon1.31e-0833
cerebral hemisphere1.41e-0832
organ part1.65e-08219
regional part of forebrain2.91e-0841
forebrain2.91e-0841
future forebrain2.91e-0841
neural plate4.28e-0886
presumptive neural plate4.28e-0886
neurectoderm7.47e-0890
pre-chordal neural plate8.60e-0861
anterior neural tube1.15e-0742
brain2.10e-0769
future brain2.10e-0769
cerebral cortex2.52e-0725
pallium2.52e-0725
regional part of nervous system4.02e-0794
nervous system4.02e-0794
regional part of brain5.66e-0759
central nervous system8.06e-0782
regional part of cerebral cortex8.32e-0722
Disease
Ontology termp-valuen
cancer5.86e-27235
disease of cellular proliferation4.98e-26239
hematologic cancer2.08e-2051
immune system cancer2.08e-2051
carcinoma1.45e-17106
leukemia4.86e-1639
cell type cancer3.31e-15143
organ system cancer6.64e-15137
myeloid leukemia1.55e-1231
lymphoma6.51e-0710


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.