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Coexpression cluster:C468

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Full id: C468_Neutrophils_Eosinophils_cerebellum_occipital_Whole_temporal_parietal



Phase1 CAGE Peaks

Hg19::chr11:74459876..74459930,+p1@RNF169
Hg19::chr12:76953574..76953598,-p3@OSBPL8
Hg19::chr14:52327421..52327458,+p3@GNG2
Hg19::chr17:11924129..11924200,+p1@MAP2K4
Hg19::chr17:47439568..47439641,-p2@ZNF652
Hg19::chr1:89149914..89149995,+p1@PKN2
Hg19::chr20:60813535..60813592,+p2@OSBPL2
Hg19::chr2:139259324..139259389,+p1@SPOPL
Hg19::chr2:160472952..160473077,-p1@BAZ2B
Hg19::chr2:201936328..201936416,-p1@FAM126B
Hg19::chr2:24714108..24714152,+p@chr2:24714108..24714152
+
Hg19::chr2:86850949..86851023,-p1@RNF103
Hg19::chr3:184529948..184529990,+p1@VPS8
Hg19::chr4:6784401..6784510,+p1@KIAA0232
Hg19::chr4:89513578..89513670,+p1@HERC3
Hg19::chr5:112043186..112043225,+p2@APC
Hg19::chr6:137113489..137113569,-p1@MAP3K5
Hg19::chr6:42531690..42531718,+p2@UBR2
Hg19::chr7:30634347..30634400,-p1@uc003tbj.2
p1@uc003tbl.3
p1@uc010kvv.2
Hg19::chr8:52811714..52811731,-p3@PCMTD1
Hg19::chrX:80065146..80065250,-p1@BRWD3


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:0006464protein modification process0.0195237347183443
GO:0043412biopolymer modification0.0195237347183443
GO:0051983regulation of chromosome segregation0.0195237347183443
GO:0051988regulation of attachment of spindle microtubules to kinetochore0.0195237347183443
GO:0008608attachment of spindle microtubules to kinetochore0.0195237347183443
GO:0007254JNK cascade0.0195237347183443
GO:0031098stress-activated protein kinase signaling pathway0.0195237347183443
GO:0043687post-translational protein modification0.0216695468435289



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
leukocyte1.99e-28136
hematopoietic stem cell1.08e-23168
angioblastic mesenchymal cell1.08e-23168
hematopoietic lineage restricted progenitor cell3.94e-23120
myeloid leukocyte1.18e-2272
hematopoietic oligopotent progenitor cell9.51e-22161
hematopoietic multipotent progenitor cell9.51e-22161
nongranular leukocyte4.08e-21115
granulocyte monocyte progenitor cell1.61e-1967
hematopoietic cell1.68e-19177
myeloid lineage restricted progenitor cell6.12e-1966
macrophage dendritic cell progenitor2.42e-1761
myeloid cell4.06e-17108
common myeloid progenitor4.06e-17108
monopoietic cell9.35e-1759
monocyte9.35e-1759
monoblast9.35e-1759
promonocyte9.35e-1759
defensive cell1.95e-1648
phagocyte1.95e-1648
classical monocyte4.27e-1642
CD14-positive, CD16-negative classical monocyte4.27e-1642
mature alpha-beta T cell9.26e-0718
alpha-beta T cell9.26e-0718
immature T cell9.26e-0718
mature T cell9.26e-0718
immature alpha-beta T cell9.26e-0718
Uber Anatomy
Ontology termp-valuen
adult organism1.58e-44114
neural tube1.13e-2456
neural rod1.13e-2456
future spinal cord1.13e-2456
neural keel1.13e-2456
regional part of nervous system3.41e-2353
regional part of brain3.41e-2353
regional part of forebrain3.36e-2241
forebrain3.36e-2241
anterior neural tube3.36e-2241
future forebrain3.36e-2241
central nervous system1.17e-2081
hematopoietic system1.49e-2098
blood island1.49e-2098
brain5.19e-2068
future brain5.19e-2068
nervous system1.18e-1989
telencephalon1.51e-1834
brain grey matter2.19e-1834
gray matter2.19e-1834
cerebral hemisphere1.90e-1732
hemolymphoid system1.97e-17108
regional part of telencephalon2.31e-1732
bone marrow7.23e-1576
regional part of cerebral cortex1.07e-1422
neocortex1.81e-1320
bone element1.93e-1382
cerebral cortex1.94e-1325
pallium1.94e-1325
neurectoderm2.99e-1386
neural plate3.40e-1382
presumptive neural plate3.40e-1382
immune system5.18e-1393
skeletal element4.64e-1190
skeletal system1.47e-10100
pre-chordal neural plate1.51e-1061
ecto-epithelium1.27e-07104
ectoderm-derived structure5.06e-07171
ectoderm5.06e-07171
presumptive ectoderm5.06e-07171


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
ATF3#46766.418049864573930.0002361560373475430.00257317687892958
BCLAF1#977466.18647074574910.0002880257333882330.00306137996838323
BHLHE40#855336.410259078139630.01089557130462060.0401752072971074
BRCA1#67254.805769200767560.003112207706263310.0163605909616165
CCNT2#905133.922410500024492.16439215182906e-067.82711052440703e-05
CHD2#110683.940580127282610.0004867168088467780.0043528187017596
CTCF#10664123.063003641757169.61865604962896e-050.00136973386851268
CTCFL#14069065.641849816849820.000472078892849080.00433360705724401
E2F1#1869133.037907609211013.99747315883528e-050.000733987516236986
E2F4#187474.222686771761480.0008214886927013180.00625696160859342
E2F6#1876122.866946132398510.0001873551368669690.0022655069050885
EGR1#1958153.562985067721535.29066604052795e-072.46895384542761e-05
ELF1#1997193.852564819873491.40187937768485e-101.49094582816729e-08
ELK4#200553.865638490111430.007841746422441410.0322054327413826
GABPB1#2553124.038676477818385.38690292930369e-060.000164551844116276
GTF2F1#296263.639903107645040.00451650251172950.0213535086384118
HDAC2#306663.833034353321790.003492483739868060.0177373813123945
HEY1#23462183.462952322662047.24417577880214e-095.62508902722912e-07
HMGN3#9324114.284001188421749.84651420879756e-060.000258252159079008
IRF1#3659155.455116966831361.40708023377392e-091.26032635107302e-07
IRF3#366136.711707458784230.009620809191356820.0362059560080756
JUND#3727103.330792353271920.0002747494982675180.00292891322339097
MAX#4149113.379910028527549.5149658187134e-050.00136221180965128
MXI1#460183.794884430003540.0006282445088767760.00516965240014037
MYC#4609133.232841158615341.98900354493168e-050.00044160191587823
NFKB1#4790123.136036242396487.56729836316575e-050.00117101951955944
PAX5#5079113.493581944902676.97253825644776e-050.00110535052059069
POLR2A#5430212.147453176558071.06914340939766e-076.24149069502978e-06
POU2F2#5452104.336249551305962.84162272309111e-050.000599184808352337
RFX5#599363.442260236341460.005942267186721130.0266502530473641
SIN3A#25942133.348357211837941.33646012272453e-050.000326194341568654
SP1#6667133.527569424563417.37205723419176e-060.000211577434867203
SRF#672285.256067909397266.54168363195151e-050.00106153961596859
TAF1#6872203.183853605471714.92884944828003e-104.77961102626664e-08
TAF7#687984.355455011399590.0002448846036019360.00266328263205067
TBP#6908193.353744907372921.79157243688477e-091.55665585470723e-07
TFAP2A#702053.933008184058320.007297224656068850.0301851570760129
TFAP2C#702263.088351031388640.01002037961740120.0375702181605372
USF1#739182.423428296079220.01102567951586520.04055901317169
YY1#7528163.741844380841036.13111176653469e-083.79790736527353e-06
ZBTB7A#5134193.150818274803960.0009903620425291610.00710826894094585
ZEB1#693575.629477339181290.0001413376962256970.00184238238343929
ZZZ3#26009222.80125832716510.00347123499089870.0176320369249778



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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