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Coexpression cluster:C4176

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Full id: C4176_Burkitt_Monocytederived_CD14_CD19_migratory_b_spleen



Phase1 CAGE Peaks

Hg19::chr2:208527094..208527114,+p1@ENST00000429730
Hg19::chr2:208527130..208527139,+p2@ENST00000429730
Hg19::chr2:208527157..208527162,+p3@ENST00000429730


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><br>


Cell Type
Ontology termp-valuen
leukocyte1.72e-69140
nongranular leukocyte1.13e-60119
hematopoietic lineage restricted progenitor cell1.37e-58124
hematopoietic stem cell6.41e-55172
angioblastic mesenchymal cell6.41e-55172
hematopoietic cell3.24e-53182
hematopoietic oligopotent progenitor cell2.94e-52165
hematopoietic multipotent progenitor cell2.94e-52165
myeloid leukocyte3.49e-4976
macrophage dendritic cell progenitor3.19e-4765
granulocyte monocyte progenitor cell3.58e-4771
monopoietic cell9.83e-4663
monocyte9.83e-4663
monoblast9.83e-4663
promonocyte9.83e-4663
myeloid lineage restricted progenitor cell1.09e-4470
CD14-positive, CD16-negative classical monocyte2.85e-3642
myeloid cell5.24e-36112
common myeloid progenitor5.24e-36112
classical monocyte9.44e-3345
lymphocyte of B lineage9.70e-2424
pro-B cell9.70e-2424
lymphocyte6.11e-1453
common lymphoid progenitor6.11e-1453
B cell7.35e-1414
lymphoid lineage restricted progenitor cell2.86e-1352
mesenchymal cell2.88e-12358
connective tissue cell2.09e-11365
conventional dendritic cell5.26e-108
dendritic cell3.34e-0910
motile cell1.74e-08390
intermediate monocyte3.17e-089
CD14-positive, CD16-positive monocyte3.17e-089
immature conventional dendritic cell8.57e-075
common dendritic progenitor8.57e-075
Uber Anatomy
Ontology termp-valuen
hematopoietic system3.66e-54102
blood island3.66e-54102
hemolymphoid system5.69e-50112
bone marrow3.14e-4280
bone element1.37e-3786
immune system1.78e-30115
skeletal element1.69e-28101
skeletal system1.69e-28101
lateral plate mesoderm2.25e-19216
musculoskeletal system1.49e-11167
connective tissue1.18e-10375
blood2.59e-0915
haemolymphatic fluid2.59e-0915
organism substance2.59e-0915


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
BCL11A#53335328.36945510360714.37778126761649e-050.000778629253761237
EBF1#187938.9064668465690.00141523283560980.0091702135574049
NFKB1#479035.488063424193840.006049381815655430.0270134850113408
PAX5#507936.669565531177830.003370290999677260.017325744325423
SPI1#668838.204323508522730.001810593189410520.0109241214389859



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.