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Coexpression cluster:C686

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Full id: C686_CD14_immature_CD19_Eosinophils_migratory_Mast_Basophils



Phase1 CAGE Peaks

Hg19::chr11:62572901..62572919,-p1@NXF1
Hg19::chr11:65153902..65153912,-p@chr11:65153902..65153912
-
Hg19::chr11:9482656..9482660,+p@chr11:9482656..9482660
+
Hg19::chr12:111020479..111020516,-p@chr12:111020479..111020516
-
Hg19::chr12:111020600..111020632,+p@chr12:111020600..111020632
+
Hg19::chr13:41635806..41635828,-p14@ELF1
Hg19::chr1:200638744..200638765,+p1@ENST00000422640
Hg19::chr1:6845035..6845053,-p1@ENST00000442889
Hg19::chr4:106394656..106394684,+p@chr4:106394656..106394684
+
Hg19::chr6:112126045..112126050,+p@chr6:112126045..112126050
+
Hg19::chr6:14117995..14118012,+p1@CD83
Hg19::chr7:151047008..151047012,-p@chr7:151047008..151047012
-


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

GO IDGO nameFDR corrected p-value
GO:0016973poly(A)+ mRNA export from nucleus0.00794725374557758
GO:0050858negative regulation of antigen receptor-mediated signaling pathway0.00794725374557758
GO:0050860negative regulation of T cell receptor signaling pathway0.00794725374557758
GO:0042405nuclear inclusion body0.00794725374557758
GO:0016234inclusion body0.0105950906474368
GO:0050856regulation of T cell receptor signaling pathway0.0105950906474368
GO:0005487nucleocytoplasmic transporter activity0.0105950906474368
GO:0050854regulation of antigen receptor-mediated signaling pathway0.0132426936896461
GO:0050852T cell receptor signaling pathway0.0200070579879434
GO:0006406mRNA export from nucleus0.0211733427389052
GO:0050851antigen receptor-mediated signaling pathway0.0211733427389052
GO:0002429immune response-activating cell surface receptor signaling pathway0.0211733427389052
GO:0006405RNA export from nucleus0.0211733427389052
GO:0002768immune response-regulating cell surface receptor signaling pathway0.0211733427389052
GO:0002757immune response-activating signal transduction0.0211733427389052
GO:0002764immune response-regulating signal transduction0.0211733427389052
GO:0003729mRNA binding0.0211733427389052
GO:0006955immune response0.0228402138005044
GO:0001817regulation of cytokine production0.0228402138005044
GO:0051168nuclear export0.0232838193519774
GO:0002376immune system process0.027740075393911
GO:0002253activation of immune response0.0308132798303632
GO:0006959humoral immune response0.0308132798303632
GO:0051028mRNA transport0.0308132798303632
GO:0050778positive regulation of immune response0.0308132798303632
GO:0002684positive regulation of immune system process0.0308132798303632
GO:0005643nuclear pore0.0308132798303632
GO:0050658RNA transport0.0308132798303632
GO:0051236establishment of RNA localization0.0308132798303632
GO:0050657nucleic acid transport0.0308132798303632
GO:0006403RNA localization0.0308132798303632
GO:0046930pore complex0.0308132798303632
GO:0050776regulation of immune response0.0308132798303632
GO:0002682regulation of immune system process0.0308132798303632
GO:0015931nucleobase, nucleoside, nucleotide and nucleic acid transport0.0308132798303632
GO:0051240positive regulation of multicellular organismal process0.0308132798303632
GO:0044453nuclear membrane part0.0314082394328219
GO:0001816cytokine production0.0314082394328219
GO:0045944positive regulation of transcription from RNA polymerase II promoter0.0376154392284251
GO:0031965nuclear membrane0.0391808275779859
GO:0006913nucleocytoplasmic transport0.0391808275779859
GO:0051169nuclear transport0.0391808275779859
GO:0005635nuclear envelope0.0475384409643424



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
leukocyte1.81e-59140
hematopoietic stem cell5.65e-56172
angioblastic mesenchymal cell5.65e-56172
hematopoietic cell4.68e-53182
hematopoietic oligopotent progenitor cell7.04e-52165
hematopoietic multipotent progenitor cell7.04e-52165
hematopoietic lineage restricted progenitor cell4.21e-48124
nongranular leukocyte1.89e-46119
myeloid leukocyte2.85e-3276
myeloid cell1.09e-30112
common myeloid progenitor1.09e-30112
granulocyte monocyte progenitor cell2.07e-2971
myeloid lineage restricted progenitor cell5.05e-2770
CD14-positive, CD16-negative classical monocyte2.56e-2642
macrophage dendritic cell progenitor2.65e-2665
classical monocyte2.90e-2645
monopoietic cell5.53e-2563
monocyte5.53e-2563
monoblast5.53e-2563
promonocyte5.53e-2563
lymphocyte1.07e-1853
common lymphoid progenitor1.07e-1853
lymphoid lineage restricted progenitor cell2.17e-1852
lymphocyte of B lineage1.29e-0924
pro-B cell1.29e-0924
mesenchymal cell5.44e-09358
T cell2.48e-0825
pro-T cell2.48e-0825
motile cell6.69e-08390
connective tissue cell6.90e-08365
mature alpha-beta T cell3.68e-0718
alpha-beta T cell3.68e-0718
immature T cell3.68e-0718
mature T cell3.68e-0718
immature alpha-beta T cell3.68e-0718
dendritic cell7.75e-0710
B cell8.44e-0714
Uber Anatomy
Ontology termp-valuen
hematopoietic system5.06e-33102
blood island5.06e-33102
hemolymphoid system3.13e-29112
bone marrow8.37e-2680
bone element2.70e-2386
immune system4.60e-18115
skeletal element1.44e-15101
skeletal system1.44e-15101
connective tissue1.23e-07375


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
BCL3#602411.51570093457940.0002880249986307050.00306168374880328
CCNT2#90573.696117586561540.0009222264038614660.00670446912104188
CHD2#110665.172011417058430.0004497895363246330.00418378779695478
E2F1#186993.680541911159497.26432475498673e-050.00114172883835374
E2F4#187455.278358464701850.00151155031186490.00965179769019675
E2F6#187693.762866798773046.04050132232551e-050.000991612570893357
EBF1#187964.45323342328450.001011881476986250.0071798280844464
EGR1#195883.325452729873420.0005908801842285490.00494637187885904
ELF1#1997113.903256462240241.12752972864617e-064.6361447767747e-05
ESRRA#2101280.6400523560210.0002773648879577920.00295377908977504
FAM48A#55578196.26406250.01033908141615570.0384011993321912
GABPB1#255363.533841918091090.003432770268573880.0174680907269337
GATA1#262344.520102714600150.00904025655514040.0342209262182787
GTF2B#295937.985957483581060.005455491186982880.024717628045521
HDAC2#306644.471873412208750.009386758586501720.0354208794311397
HEY1#2346272.356731441811660.01346982061264720.0475792131418222
HMGN3#932453.407728218062750.01028040559075030.0381954919776723
IRF1#365974.455012189578940.0002850277586319370.00303136599630966
MAX#414963.226277754503560.00548348112691290.024833670934203
MYC#460983.48152124773960.0004253796270131130.00397514520988032
NFKB1#4790125.488063424193841.33744036073436e-091.20414598133393e-07
PAX5#507995.002174148383375.4522949797447e-060.000165340370322171
PBX3#509047.304837562248040.001595779184409490.0100525714603138
POLR2A#5430122.147453176558070.0001039292038462010.00145265820670415
RFX5#599344.01597027573170.01363878775694360.0481207173591243
SIN3A#2594262.704442363407570.01325491342780750.0468851149321542
SP1#666773.324055803915520.001772697031948130.0108885905616439
SPI1#668874.785855379971590.0001804037199722320.0021870207905026
STAT1#677258.627744790499670.0001560891708225230.00196857830111502
TAF1#6872102.785871904787740.000200797123383880.00239368231584169
TAL1#688637.467154169360050.00657536370072610.0280972304545695
TBP#6908113.397873129838354.97194305024537e-060.000153537776530034
TCF12#693865.317232451093210.0003865425927634440.00378280751926737
TCF7L2#693465.385088281568670.0003605763085939490.00360503820536506
TFAP2C#702276.30538335575183.01291531004594e-050.00061990910572476
ZBTB7A#5134174.288613762927610.0003629129921758860.00362423694682132
ZNF274#107821118.4788461538460.008407999695537070.0330369857111436



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.

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