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Coexpression cluster:C2055

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Full id: C2055_NK_CD4_Natural_CD8_CD19_blood_Whole



Phase1 CAGE Peaks

Hg19::chr10:30818569..30818604,+p@chr10:30818569..30818604
+
Hg19::chr6:31560704..31560716,-p3@NCR3
Hg19::chr6:31560729..31560768,-p1@NCR3
Hg19::chr6:31560772..31560795,-p2@NCR3


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
lymphoid lineage restricted progenitor cell4.05e-4852
lymphocyte7.30e-4753
common lymphoid progenitor7.30e-4753
nucleate cell2.75e-4655
hematopoietic stem cell5.72e-41168
angioblastic mesenchymal cell5.72e-41168
hematopoietic cell2.67e-38177
leukocyte1.16e-36136
hematopoietic oligopotent progenitor cell1.43e-36161
hematopoietic multipotent progenitor cell1.43e-36161
nongranular leukocyte2.64e-29115
hematopoietic lineage restricted progenitor cell1.16e-27120
mature alpha-beta T cell5.65e-2318
alpha-beta T cell5.65e-2318
immature T cell5.65e-2318
mature T cell5.65e-2318
immature alpha-beta T cell5.65e-2318
lymphocyte of B lineage1.54e-2224
pro-B cell1.54e-2224
T cell3.13e-2225
pro-T cell3.13e-2225
B cell1.36e-1514
CD8-positive, alpha-beta T cell3.51e-1511
CD4-positive, alpha-beta T cell4.77e-086
mesenchymal cell1.43e-07354
connective tissue cell5.35e-07361
Uber Anatomy
Ontology termp-valuen
blood9.39e-1315
haemolymphatic fluid9.39e-1315
organism substance9.39e-1315
connective tissue7.51e-07371
Disease
Ontology termp-valuen
hematologic cancer1.68e-0851
immune system cancer1.68e-0851


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


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
EBF1#187948.9064668465690.00015887907472010.00199269505040141
EGR1#195844.988179094810140.001615011500076050.0101212232857152
ELF1#199744.258097958807540.003041525565781240.0160496103761432
POU2F2#545249.106124057742520.000145395665174930.00187979424055515
ZBTB7A#5134135.513931980906920.009038352821081090.0342186808627887
ZNF263#1012736.166381227758010.006539814347975980.0279556184793821



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.