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Coexpression cluster:C2958

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Full id: C2958_migratory_Reticulocytes_Dendritic_CD14_vagina_thyroid_splenic



Phase1 CAGE Peaks

Hg19::chrX:154563855..154563876,-p2@CLIC2
Hg19::chrX:154563879..154563884,-p4@CLIC2
Hg19::chrX:154563889..154563966,-p1@CLIC2
Hg19::chrX:154563975..154563992,-p3@CLIC2


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
myeloid lineage restricted progenitor cell2.39e-2766
granulocyte monocyte progenitor cell5.93e-2667
myeloid cell1.05e-24108
common myeloid progenitor1.05e-24108
macrophage dendritic cell progenitor2.47e-2461
monopoietic cell2.29e-2359
monocyte2.29e-2359
monoblast2.29e-2359
promonocyte2.29e-2359
defensive cell3.27e-2348
phagocyte3.27e-2348
myeloid leukocyte2.22e-2272
classical monocyte1.63e-2042
CD14-positive, CD16-negative classical monocyte1.63e-2042
hematopoietic stem cell6.02e-14168
angioblastic mesenchymal cell6.02e-14168
hematopoietic oligopotent progenitor cell4.81e-13161
hematopoietic multipotent progenitor cell4.81e-13161
hematopoietic lineage restricted progenitor cell2.05e-12120
hematopoietic cell3.59e-12177
leukocyte4.72e-12136
nongranular leukocyte2.58e-09115
stuff accumulating cell9.17e-0987
dendritic cell1.18e-0710
conventional dendritic cell2.50e-078
Uber Anatomy
Ontology termp-valuen
hemolymphoid system1.03e-31108
adult organism2.85e-31114
hematopoietic system1.36e-3098
blood island1.36e-3098
immune system7.57e-2893
bone marrow1.56e-2576
bone element3.17e-2282
skeletal element4.18e-1890
skeletal system1.18e-15100
lateral plate mesoderm1.62e-15203
mesoderm3.63e-12315
mesoderm-derived structure3.63e-12315
presumptive mesoderm3.63e-12315
tissue6.78e-09773
musculoskeletal system3.67e-07167


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
EP300#203346.77394172622320.0004748459821442640.00435785936108654
GATA1#2623413.56030814380042.95627390049268e-050.000615776405850727
HEY1#2346244.040111043105710.00375304636917980.018674753906845
IRF1#365947.63716375356390.0002938853996185490.00308225519690316
JUN#3725412.51282919233634.07770316866756e-050.000745703451641518
JUNB#3726430.61063265982111.13787152942193e-064.66580937029043e-05
JUND#372746.994663941871030.000417684217818580.00392889507563313
MAFK#7975427.10073313782991.85228494563408e-066.8623904731138e-05
MYC#460945.22228187160940.001344309395272740.00890400361066016
NFE2#4778477.2042606516292.80776035215453e-081.92036465893036e-06
SRF#6722413.79717826216782.75840773062708e-050.000586373590431429
STAT1#6772420.70658749719925.43610708103893e-060.000165763967134781
STAT2#6773465.26377118644075.50053512607993e-083.46902408232284e-06
STAT3#6774410.51946499715428.16377768286615e-050.00123621397335198
TAF1#687243.343046285745290.008005664898701650.0323594564732372
TAL1#6886429.86861667744021.25525650806991e-065.04998977065921e-05
TBP#690843.706770687096390.005296377814784350.0245255122194849



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.