Coexpression cluster:C399

Full id: C399_CD19_Eosinophils_CD4_CD8_CD14_Basophils_Natural

Phase1 CAGE Peaks

Hg19::chr10:32635996..32636023,-	p4@EPC1
Hg19::chr10:32636038..32636099,-	p1@EPC1
Hg19::chr12:92539614..92539630,-	p1@BTG1
Hg19::chr15:72766701..72766713,+	p2@ARIH1
Hg19::chr15:93426049..93426068,+	p1@LOC100507217
Hg19::chr16:11836574..11836590,-	p2@TXNDC11
Hg19::chr18:9102437..9102446,-	p@chr18:9102437..9102446 -
Hg19::chr18:9136862..9136875,+	p3@ANKRD12
Hg19::chr19:18112033..18112073,+	p3@ARRDC2
Hg19::chr19:39898362..39898396,+	p@chr19:39898362..39898396 +
Hg19::chr19:41869996..41870017,-	p2@B9D2
Hg19::chr19:41870026..41870062,-	p1@B9D2
Hg19::chr1:204380872..204380883,-	p5@PPP1R15B
Hg19::chr22:29664309..29664322,+	p2@EWSR1
Hg19::chr2:197036244..197036255,-	p3@STK17B
Hg19::chr2:241499761..241499793,+	p1@DUSP28
Hg19::chr2:24583284..24583310,-	p3@ITSN2
Hg19::chr2:30369859..30369880,+	p1@YPEL5
Hg19::chr3:156877896..156877946,-	p1@CCNL1
Hg19::chr4:77997196..77997224,+	p@chr4:77997196..77997224 +
Hg19::chr5:179125566..179125638,-	p@chr5:179125566..179125638 -
Hg19::chr6:151712673..151712709,-	p1@ZBTB2
Hg19::chr7:130792754..130792811,-	p1@ENST00000423414
Hg19::chr7:32931356..32931379,-	p1@KBTBD2
Hg19::chr9:100684772..100684816,-	p1@C9orf156
Hg19::chr9:86322808..86322826,-	p3@UBQLN1

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

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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

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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>

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Cell Type

Ontology term	p-value	n
leukocyte	2.60e-52	136
hematopoietic stem cell	8.57e-44	168
angioblastic mesenchymal cell	8.57e-44	168
hematopoietic lineage restricted progenitor cell	5.68e-42	120
nongranular leukocyte	8.01e-41	115
hematopoietic oligopotent progenitor cell	9.19e-40	161
hematopoietic multipotent progenitor cell	9.19e-40	161
hematopoietic cell	2.32e-39	177
myeloid leukocyte	1.63e-26	72
classical monocyte	8.03e-24	42
CD14-positive, CD16-negative classical monocyte	8.03e-24	42
granulocyte monocyte progenitor cell	4.17e-23	67
myeloid lineage restricted progenitor cell	3.24e-21	66
defensive cell	3.99e-21	48
phagocyte	3.99e-21	48
macrophage dendritic cell progenitor	8.88e-21	61
myeloid cell	2.52e-20	108
common myeloid progenitor	2.52e-20	108
monopoietic cell	1.00e-19	59
monocyte	1.00e-19	59
monoblast	1.00e-19	59
promonocyte	1.00e-19	59
lymphoid lineage restricted progenitor cell	8.55e-19	52
lymphocyte	1.21e-18	53
common lymphoid progenitor	1.21e-18	53
nucleate cell	2.80e-18	55
mature alpha-beta T cell	2.14e-10	18
alpha-beta T cell	2.14e-10	18
immature T cell	2.14e-10	18
mature T cell	2.14e-10	18
immature alpha-beta T cell	2.14e-10	18
T cell	4.74e-10	25
pro-T cell	4.74e-10	25
lymphocyte of B lineage	3.05e-08	24
pro-B cell	3.05e-08	24
B cell	2.48e-07	14
mesenchymal cell	7.85e-07	354
CD8-positive, alpha-beta T cell	9.08e-07	11

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	5.34e-27	98
blood island	5.34e-27	98
hemolymphoid system	1.09e-23	108
bone marrow	2.84e-19	76
immune system	3.80e-18	93
bone element	5.27e-18	82
skeletal element	2.03e-13	90
adult organism	2.95e-11	114
skeletal system	1.26e-10	100
blood	6.83e-07	15
haemolymphatic fluid	6.83e-07	15
organism substance	6.83e-07	15

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

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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

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(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF	#promoters	Enrichment	p-value	q-value
ATF3#467	6	5.18380950600202	0.000827377274953085	0.00629630247878354
BCL11A#53335	4	4.36453155440109	0.0123982959795881	0.0448858026141222
BCLAF1#9774	7	5.82955897195588	0.000135067430623176	0.00177036990296861
BHLHE40#8553	4	6.90335593030422	0.0024878008101908	0.0139705037539261
BRCA1#672	9	6.98684906880823	2.58784030664677e-06	9.09086625583188e-05
CCNT2#905	24	5.84880145565782	1.32418394561589e-17	2.82814820237583e-15
CEBPB#1051	10	3.06582600993262	0.000751581241863548	0.00591651415685438
CHD2#1106	12	4.77416438497701	1.74393283855153e-06	6.56814286785008e-05
E2F1#1869	20	3.7749147806764	9.60121071657053e-10	8.94505661041846e-08
E2F4#1874	11	5.35956397954342	1.86077042754615e-06	6.8694592676738e-05
E2F6#1876	18	3.47341550655973	7.23098834621988e-08	4.38049415249917e-06
EGR1#1958	19	3.64520780005356	8.2202698188689e-09	6.33591704511327e-07
ELF1#1997	20	3.27545996831349	1.31285266114889e-08	9.67628927859767e-07
EP300#2033	9	2.34482598215418	0.00955370665214349	0.0359780611200813
ESR1#2099	4	4.73363127633146	0.0094042238446392	0.0354829383710359
ETS1#2113	16	5.98692979827836	2.97244571629203e-10	3.01105003068694e-08
FOS#2353	8	2.76860163350597	0.00573018915718577	0.0258266539524997
FOSL2#2355	6	3.90696937028347	0.00349746907646623	0.0177618367555097
FOXA1#3169	8	3.40966761519552	0.00154794213379088	0.00983785848664185
GABPB1#2553	12	3.26200792439177	8.86511950721784e-05	0.00129854728781813
GATA1#2623	6	3.12930187933856	0.0102231249229906	0.0380707057882766
GTF2B#2959	5	6.14304421813928	0.00113887093412356	0.00779746568040712
GTF2F1#2962	9	4.40988261118534	0.000102423380351515	0.00143276124036055
HEY1#23462	25	3.88472215683241	1.36461192838341e-14	2.33254836642283e-12
HMGN3#9324	15	4.71839291731765	4.1343190520398e-08	2.7241902048958e-06
IRF1#3659	14	4.11231894422672	8.83175437084568e-07	3.8146385224845e-05
JUND#3727	10	2.69025536225809	0.00209147449967632	0.0121142202468912
MAFF#23764	3	6.49792574883983	0.0107214750985517	0.0395765785818979
MAX#4149	13	3.22627775450356	4.1487443708495e-05	0.000752240821783249
MEF2A#4205	5	3.60446748262386	0.0110874770779598	0.0407805958283163
MXI1#4601	13	4.98078581437965	3.06881462572476e-07	1.54236732770004e-05
MYC#4609	23	4.6197108864237	4.34307927397279e-14	7.09838585750304e-12
NFE2#4778	3	8.90818392134182	0.00451681580586538	0.0213540231745405
NFKB1#4790	21	4.43266661184887	7.47810368726604e-12	9.47822416255313e-10
NFYA#4800	7	4.96073326533899	0.000364037560622574	0.00363407749893529
NFYB#4801	10	6.44607432828325	1.24498959010537e-06	5.01448005403066e-05
NR3C1#2908	8	4.6070841018994	0.000206870249696286	0.00243166257828142
NRF1#4899	11	5.16588745864692	2.67099421510522e-06	9.35152413112215e-05
PAX5#5079	19	4.8739132727838	4.91758369800027e-11	5.55229755497784e-09
PBX3#5090	9	7.58579285310374	1.31297329626767e-06	5.20598398211464e-05
POLR2A#5430	26	2.14745317655807	2.33941527921015e-09	1.99612902242997e-07
POU2F2#5452	17	5.95400419160088	5.7086217815449e-11	6.38332709039366e-09
RDBP#7936	3	17.7275081526952	0.000639458800099169	0.00524251806449149
REST#5978	14	5.19616930868432	4.69219230234018e-08	3.0513566118562e-06
RFX5#5993	12	5.5605742279362	3.3852741247177e-07	1.68119184170895e-05
SIN3A#25942	21	4.36871458704299	9.99266059084579e-12	1.24984847838005e-09
SIX5#147912	7	4.60026951877742	0.000573843154901478	0.00484491554201742
SMARCB1#6598	5	3.51013765022258	0.0123415227550592	0.0447143653304526
SP1#6667	17	3.72586474724597	8.7004172652649e-08	5.15992548987508e-06
SP2#6668	6	6.03543011396415	0.00037062086104952	0.00368675798715599
SPI1#6688	8	2.52440723339161	0.00996158442065257	0.0373685541219257
SRF#6722	7	3.71462491673749	0.00201514196466631	0.0117143165784139
TAF1#6872	26	3.34304628574529	2.34697364575191e-14	3.93443949580551e-12
TAF7#6879	13	5.71653470246196	6.06106722496615e-08	3.76344708625588e-06
TBP#6908	23	3.2790663770468	8.65288496924105e-11	9.45291478349965e-09
TCF12#6938	10	4.09017880853324	6.9255380418476e-05	0.00109940153146758
TCF7L2#6934	10	4.14237560120667	6.2149001869846e-05	0.00101800182030816
TFAP2A#7020	7	4.44732463889672	0.000702353580543176	0.00564732509033403
TFAP2C#7022	8	3.32591649534161	0.00181712094769652	0.0109024125154522
THAP1#55145	4	4.82602224659251	0.00880023717127935	0.0334250270913643
TRIM28#10155	5	3.57510097024279	0.0114609315218921	0.0419268004909066
USF1#7391	17	4.15944183509751	1.60784907091647e-08	1.17100522397103e-06
USF2#7392	10	4.99699899425754	1.21892050374788e-05	0.000303390940159496
YY1#7528	21	3.96671483642042	6.80357818903111e-11	7.51119347234905e-09
ZBTB33#10009	4	4.87149615845864	0.008520682040978	0.0324777923969964
ZBTB7A#51341	10	2.82765742610611	0.00142279211441813	0.00917083167547459
ZNF143#7702	8	4.15411586222397	0.000419061685661487	0.0039206649994446
ZNF263#10127	8	2.52979742677252	0.00983721731881978	0.0369724031797977

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

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This analysis result is provided for C0 - C305 clusters.