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Coexpression cluster:C487

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Full id: C487_CD4_Peripheral_CD8_Natural_CD14_immature_Basophils



Phase1 CAGE Peaks

Hg19::chr10:116285481..116285484,-p@chr10:116285481..116285484
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Hg19::chr10:116301431..116301440,+p@chr10:116301431..116301440
+
Hg19::chr10:22053811..22053858,-p@chr10:22053811..22053858
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Hg19::chr12:52980179..52980184,+p@chr12:52980179..52980184
+
Hg19::chr12:53039248..53039257,-p@chr12:53039248..53039257
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Hg19::chr12:53039641..53039647,+p@chr12:53039641..53039647
+
Hg19::chr12:53039683..53039695,+p@chr12:53039683..53039695
+
Hg19::chr13:100024364..100024401,-p@chr13:100024364..100024401
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Hg19::chr16:22546145..22546152,+p@chr16:22546145..22546152
+
Hg19::chr17:2166589..2166595,-p@chr17:2166589..2166595
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Hg19::chr17:44342424..44342435,+p@chr17:44342424..44342435
+
Hg19::chr17:80085902..80085908,+p@chr17:80085902..80085908
+
Hg19::chr20:1267390..1267394,-p@chr20:1267390..1267394
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Hg19::chr2:238616388..238616397,+p@chr2:238616388..238616397
+
Hg19::chr3:59996534..59996538,-p@chr3:59996534..59996538
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Hg19::chr3:71527852..71527877,-p@chr3:71527852..71527877
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Hg19::chr5:141484393..141484402,+p@chr5:141484393..141484402
+
Hg19::chr6:90981633..90981642,-p@chr6:90981633..90981642
-
Hg19::chr7:3501786..3501792,+p@chr7:3501786..3501792
+


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><br><br>


Cell Type
Ontology termp-valuen
CD4-positive, alpha-beta T cell1.14e-336
mature alpha-beta T cell1.52e-2418
alpha-beta T cell1.52e-2418
immature T cell1.52e-2418
mature T cell1.52e-2418
immature alpha-beta T cell1.52e-2418
naive T cell5.50e-183
T cell1.31e-1725
pro-T cell1.31e-1725
single nucleate cell1.94e-173
mononuclear cell1.94e-173
natural killer cell3.48e-173
pro-NK cell3.48e-173
lymphoid lineage restricted progenitor cell1.99e-1452
lymphocyte3.85e-1453
common lymphoid progenitor3.85e-1453
CD4-positive, alpha-beta thymocyte4.53e-141
naive thymus-derived CD4-positive, alpha-beta T cell4.53e-141
mature CD4 single-positive thymocyte4.53e-141
resting double-positive thymocyte4.53e-141
double-positive blast4.53e-141
CD69-positive double-positive thymocyte4.53e-141
CD69-positive, CD4-positive single-positive thymocyte4.53e-141
CD4-positive, CD8-intermediate double-positive thymocyte4.53e-141
CD24-positive, CD4 single-positive thymocyte4.53e-141
nucleate cell1.34e-1355
nongranular leukocyte1.86e-09115
circulating cell3.42e-096
leukocyte8.16e-08136
regulatory T cell9.87e-082
CD4-positive, CD25-positive, alpha-beta regulatory T cell9.87e-082
naive regulatory T cell9.87e-082
thymocyte1.12e-072
double negative thymocyte1.12e-072
double-positive, alpha-beta thymocyte1.12e-072
DN4 thymocyte1.12e-072
DN1 thymic pro-T cell1.12e-072
DN2 thymocyte1.12e-072
DN3 thymocyte1.12e-072
immature single positive thymocyte1.12e-072
early T lineage precursor1.12e-072


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.