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Coexpression cluster:C1644

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Full id: C1644_Neutrophils_Eosinophils_medial_amygdala_frontal_paracentral_insula



Phase1 CAGE Peaks

Hg19::chr11:77122928..77123045,-p1@PAK1
Hg19::chr12:90103081..90103155,-p2@ATP2B1
Hg19::chr14:71788096..71788143,+p3@SIPA1L1
Hg19::chr7:26331560..26331647,+p1@SNX10
Hg19::chr7:26331652..26331663,+p7@SNX10


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
leukocyte2.60e-39140
hematopoietic lineage restricted progenitor cell8.90e-33124
nongranular leukocyte2.29e-32119
myeloid leukocyte4.45e-3276
hematopoietic stem cell1.02e-31172
angioblastic mesenchymal cell1.02e-31172
hematopoietic oligopotent progenitor cell4.56e-31165
hematopoietic multipotent progenitor cell4.56e-31165
granulocyte monocyte progenitor cell2.96e-2871
macrophage dendritic cell progenitor7.44e-2765
myeloid lineage restricted progenitor cell2.17e-2670
hematopoietic cell2.23e-26182
monopoietic cell4.20e-2663
monocyte4.20e-2663
monoblast4.20e-2663
promonocyte4.20e-2663
CD14-positive, CD16-negative classical monocyte2.56e-2442
myeloid cell1.16e-23112
common myeloid progenitor1.16e-23112
classical monocyte1.64e-2345
lymphocyte of B lineage1.63e-0724
pro-B cell1.63e-0724
lymphoid lineage restricted progenitor cell2.50e-0752
lymphocyte3.36e-0753
common lymphoid progenitor3.36e-0753
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.21e-29102
blood island1.21e-29102
bone marrow1.28e-2480
bone element8.98e-2486
hemolymphoid system1.34e-22112
neural tube6.59e-2057
neural rod6.59e-2057
future spinal cord6.59e-2057
neural keel6.59e-2057
skeletal element8.02e-20101
skeletal system8.02e-20101
regional part of forebrain1.39e-1841
forebrain1.39e-1841
future forebrain1.39e-1841
anterior neural tube3.13e-1842
adult organism3.57e-16115
telencephalon5.60e-1634
central nervous system5.62e-1682
gray matter5.63e-1634
brain grey matter5.63e-1634
cerebral hemisphere9.46e-1632
regional part of brain1.68e-1559
regional part of telencephalon2.45e-1533
regional part of cerebral cortex7.27e-1422
brain7.95e-1469
future brain7.95e-1469
immune system6.87e-13115
neocortex8.87e-1320
regional part of nervous system1.29e-1294
nervous system1.29e-1294
cerebral cortex4.84e-1225
pallium4.84e-1225
neural plate9.06e-1086
presumptive neural plate9.06e-1086
pre-chordal neural plate1.19e-0861
neurectoderm6.34e-0890


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
CTCF#1066455.360256373075030.0002259278299937090.00249452126405676
E2F1#186954.907389214879320.0003512818099256460.00352256562139458
E2F6#187644.013724585357910.006632118233933880.0282888215737725
EGR1#195843.990543275848110.0067800983001440.0287579371469252
ELF1#199743.406478367046030.01235066105299550.0447257520705199
PAX5#507956.669565531177837.57493746384605e-050.0011692564200216
RAD21#588548.284027116365060.0004011622639122450.00386539216539634
SMARCB1#6598310.95162946869440.001511872848343180.00965031710109483
SMC3#912639.02695970695970.002650964449467550.0146341813065142
ZEB1#6935310.13305921052630.001895556924357070.0111595304184289



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.