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Coexpression cluster:C2979

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Full id: C2979_Neutrophils_parietal_brain_occipital_CD4_CD14CD16_temporal



Phase1 CAGE Peaks

Hg19::chr10:11228276..11228288,+p@chr10:11228276..11228288
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Hg19::chr10:11254721..11254723,+p@chr10:11254721..11254723
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Hg19::chr10:11293261..11293262,+p@chr10:11293261..11293262
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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
hematopoietic stem cell5.31e-41168
angioblastic mesenchymal cell5.31e-41168
hematopoietic cell2.69e-38177
hematopoietic oligopotent progenitor cell3.29e-37161
hematopoietic multipotent progenitor cell3.29e-37161
leukocyte1.03e-34136
nongranular leukocyte2.13e-26115
hematopoietic lineage restricted progenitor cell1.12e-24120
myeloid cell3.76e-19108
common myeloid progenitor3.76e-19108
lymphocyte2.07e-1753
common lymphoid progenitor2.07e-1753
lymphoid lineage restricted progenitor cell3.75e-1752
nucleate cell6.30e-1755
myeloid leukocyte5.89e-1472
T cell4.20e-1225
pro-T cell4.20e-1225
mature alpha-beta T cell6.40e-1118
alpha-beta T cell6.40e-1118
immature T cell6.40e-1118
mature T cell6.40e-1118
immature alpha-beta T cell6.40e-1118
myeloid lineage restricted progenitor cell9.06e-1066
granulocyte monocyte progenitor cell6.96e-0967
monopoietic cell1.60e-0859
monocyte1.60e-0859
monoblast1.60e-0859
promonocyte1.60e-0859
intermediate monocyte5.99e-089
CD14-positive, CD16-positive monocyte5.99e-089
macrophage dendritic cell progenitor7.72e-0861
classical monocyte8.12e-0742
CD14-positive, CD16-negative classical monocyte8.12e-0742
granulocyte8.34e-078
Uber Anatomy
Ontology termp-valuen
adult organism7.50e-23114
neural tube3.44e-1556
neural rod3.44e-1556
future spinal cord3.44e-1556
neural keel3.44e-1556
regional part of forebrain2.03e-1441
forebrain2.03e-1441
anterior neural tube2.03e-1441
future forebrain2.03e-1441
regional part of nervous system2.05e-1453
regional part of brain2.05e-1453
hematopoietic system5.71e-1498
blood island5.71e-1498
brain grey matter2.87e-1234
gray matter2.87e-1234
hemolymphoid system3.49e-12108
telencephalon4.98e-1234
regional part of telencephalon1.02e-1132
cerebral hemisphere2.53e-1132
regional part of cerebral cortex9.12e-1122
brain3.13e-1068
future brain3.13e-1068
cerebral cortex5.56e-1025
pallium5.56e-1025
central nervous system5.81e-1081
neocortex8.02e-1020
neural plate9.99e-1082
presumptive neural plate9.99e-1082
neurectoderm6.01e-0986
blood2.16e-0815
haemolymphatic fluid2.16e-0815
organism substance2.16e-0815
pre-chordal neural plate2.86e-0861
nervous system2.09e-0789
immune system2.57e-0793
bone marrow8.57e-0776
Disease
Ontology termp-valuen
leukemia2.24e-0839
hematologic cancer5.56e-0751
immune system cancer5.56e-0751
myeloid leukemia5.56e-0731


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.