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Coexpression cluster:C1462

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Full id: C1462_Mast_immature_CD4_Macrophage_Dendritic_CD8_CD19



Phase1 CAGE Peaks

Hg19::chr1:114414268..114414271,-p4@PTPN22
Hg19::chr1:114414288..114414310,-p2@PTPN22
Hg19::chr1:114414316..114414407,-p1@PTPN22
Hg19::chr2:225811728..225811737,-p14@DOCK10
Hg19::chr2:225811747..225811796,-p2@DOCK10
Hg19::chr2:225811803..225811825,-p5@DOCK10


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
leukocyte6.63e-74136
hematopoietic stem cell3.09e-72168
angioblastic mesenchymal cell3.09e-72168
hematopoietic oligopotent progenitor cell9.59e-68161
hematopoietic multipotent progenitor cell9.59e-68161
hematopoietic cell4.35e-65177
hematopoietic lineage restricted progenitor cell1.41e-64120
nongranular leukocyte1.39e-63115
myeloid cell6.00e-33108
common myeloid progenitor6.00e-33108
myeloid leukocyte8.56e-3372
lymphocyte1.81e-3253
common lymphoid progenitor1.81e-3253
granulocyte monocyte progenitor cell1.88e-3267
lymphoid lineage restricted progenitor cell3.88e-3252
nucleate cell2.46e-3055
myeloid lineage restricted progenitor cell9.31e-2966
macrophage dendritic cell progenitor9.58e-2961
monopoietic cell4.05e-2759
monocyte4.05e-2759
monoblast4.05e-2759
promonocyte4.05e-2759
defensive cell6.51e-2348
phagocyte6.51e-2348
classical monocyte2.21e-1942
CD14-positive, CD16-negative classical monocyte2.21e-1942
mesenchymal cell5.76e-19354
connective tissue cell1.93e-17361
T cell2.02e-1625
pro-T cell2.02e-1625
mature alpha-beta T cell4.35e-1518
alpha-beta T cell4.35e-1518
immature T cell4.35e-1518
mature T cell4.35e-1518
immature alpha-beta T cell4.35e-1518
lymphocyte of B lineage2.32e-1424
pro-B cell2.32e-1424
multi fate stem cell2.65e-13427
motile cell6.77e-13386
somatic stem cell2.61e-12433
stem cell3.07e-12441
CD8-positive, alpha-beta T cell2.85e-1011
B cell9.65e-1014
Uber Anatomy
Ontology termp-valuen
hematopoietic system5.89e-3898
blood island5.89e-3898
hemolymphoid system3.89e-37108
immune system2.20e-3193
bone marrow1.32e-2776
bone element1.79e-2482
skeletal element7.67e-2090
skeletal system2.81e-16100
connective tissue3.20e-16371
lateral plate mesoderm5.03e-15203
mesoderm3.89e-07315
mesoderm-derived structure3.89e-07315
presumptive mesoderm3.89e-07315
musculoskeletal system5.21e-07167
Disease
Ontology termp-valuen
hematologic cancer1.41e-0851
immune system cancer1.41e-0851


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
BATF#10538312.17890089615180.00125981487125340.00846242637888046
BCL11A#53335314.18472755180350.0008080831849424810.00616970536970596
BCLAF1#9774310.82632380506090.001772351046991060.0108903083483379
FOSL1#8061319.85678985818650.0003014027572522190.00311080171604551
GATA2#262436.3724658667770.008058821308742550.0318893357581087
IRF4#3662310.95725634337210.001711753441810940.0106909351578335
JUN#372536.256414596168170.008486346850954870.0324167213623085
MEF2A#4205618.74323090964412.30307332780908e-081.62850829575527e-06
NFKB1#479065.488063424193843.65870229532191e-050.000707482334791937
POLR2A#543062.147453176558070.01019570676818780.0380391318959299
SIN3A#2594265.408884726815143.99207083571449e-050.000742922106220929
TBP#690863.706770687096390.000385416472907960.00377851412879324
TCF12#6938610.63446490218646.9082259011154e-073.11388953339055e-05
ZNF143#770236.750438276113950.006850259204468580.0290401940678476



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.