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Coexpression cluster:C2325

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Full id: C2325_CD14_Mast_Basophils_CD14CD16_Peripheral_occipital_Natural



Phase1 CAGE Peaks

Hg19::chr14:92980111..92980190,+p1@RIN3
Hg19::chr2:145277589..145277612,-p12@ZEB2
Hg19::chr2:145277620..145277627,-p19@ZEB2
Hg19::chr2:145277640..145277771,-p1@ZEB2


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
myeloid cell5.23e-51108
common myeloid progenitor5.23e-51108
myeloid leukocyte8.42e-4272
hematopoietic stem cell2.02e-41168
angioblastic mesenchymal cell2.02e-41168
hematopoietic cell1.30e-39177
hematopoietic oligopotent progenitor cell6.14e-39161
hematopoietic multipotent progenitor cell6.14e-39161
granulocyte monocyte progenitor cell4.24e-3767
myeloid lineage restricted progenitor cell1.12e-3666
monopoietic cell1.16e-3359
monocyte1.16e-3359
monoblast1.16e-3359
promonocyte1.16e-3359
macrophage dendritic cell progenitor4.79e-3361
defensive cell1.64e-3048
phagocyte1.64e-3048
leukocyte4.79e-30136
classical monocyte1.70e-2742
CD14-positive, CD16-negative classical monocyte1.70e-2742
hematopoietic lineage restricted progenitor cell3.21e-24120
nongranular leukocyte1.01e-22115
stuff accumulating cell1.05e-1487
mesenchymal cell4.21e-14354
connective tissue cell1.40e-13361
motile cell3.82e-11386
multi fate stem cell6.29e-09427
somatic stem cell7.97e-08433
stem cell1.53e-07441
intermediate monocyte3.94e-079
CD14-positive, CD16-positive monocyte3.94e-079
Uber Anatomy
Ontology termp-valuen
hematopoietic system6.96e-3898
blood island6.96e-3898
hemolymphoid system1.42e-34108
bone marrow3.09e-3376
bone element1.23e-3182
immune system9.95e-3093
skeletal system1.97e-27100
skeletal element2.76e-2790
adult organism1.78e-17114
musculoskeletal system1.28e-14167
connective tissue2.59e-14371
lateral plate mesoderm1.62e-13203
tissue5.24e-12773
neural tube2.74e-0756
neural rod2.74e-0756
future spinal cord2.74e-0756
neural keel2.74e-0756
regional part of cerebral cortex3.04e-0722
telencephalon4.07e-0734
brain grey matter4.66e-0734
gray matter4.66e-0734
mesoderm9.52e-07315
mesoderm-derived structure9.52e-07315
presumptive mesoderm9.52e-07315
Disease
Ontology termp-valuen
myeloid leukemia3.22e-1131
leukemia8.59e-0839


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
BCLAF1#9774316.23948570759140.000380256706766480.0037657529108652
CCNT2#90534.752151182721970.01386206996689490.04871103681816
CTCFL#140690314.80985576923080.0004996291767563340.00440827672478286
ELF1#199744.258097958807540.003041525565781240.0160731613907113
EP300#203335.08045629466740.01144298405398240.0418816825517388
GABPB1#255335.300762877136630.01012678824234270.0378482549828955
GATA2#262439.55869880016550.001818151618357440.0108960771716091
GTF2B#2959323.95787245074320.0001197754562855920.00162415332108685
HEY1#2346244.040111043105710.00375304636917980.018578273284234
IRF1#365935.727872815172930.008097114790333330.032000854143178
JUND#372735.245997956403270.01043432751748420.03867655918507
RAD21#588537.766275421592250.0033411193858720.0172650124952296
REST#597837.237521537096020.004104697304192610.0195775897041865
SIRT6#515483115.2288029925191.09487348454017e-064.54661995434954e-05
TAF1#687243.343046285745290.008005664898701650.0321751572521936
TRIM28#10155313.94289378394690.0005972858184258420.00499239164390368
USF1#739134.771124457905970.01370465887188020.0482911322217447
ZBTB7A#5134135.513931980906920.009038352821081090.0342323311071945



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.