Coexpression cluster:C7

Full id: C7_CD14_Eosinophils_Neutrophils_Smooth_Basophils_Macrophage_Mast

Phase1 CAGE Peaks

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Hg19::chr10:101418491..101418499,-	p@chr10:101418491..101418499 -
Hg19::chr10:101942268..101942274,+	p@chr10:101942268..101942274 +
Hg19::chr10:101943243..101943293,-	p@chr10:101943243..101943293 -
Hg19::chr10:101943500..101943521,+	p@chr10:101943500..101943521 +
Hg19::chr10:101945375..101945386,-	p9@ERLIN1
Hg19::chr10:102046036..102046057,+	p@chr10:102046036..102046057 +
Hg19::chr10:105668153..105668160,-	p@chr10:105668153..105668160 -
Hg19::chr10:105668282..105668301,+	p@chr10:105668282..105668301 +
Hg19::chr10:105670710..105670720,-	p@chr10:105670710..105670720 -
Hg19::chr10:105670725..105670748,-	p@chr10:105670725..105670748 -
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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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p.value	FDR	nGenes	nPathway	Name
4.02998118128828e-05	0.00141721004875304	9	265	Cytokine-cytokine receptor interaction (KEGG):04060
2.83362949156361e-07	2.56241066879967e-05	10	189	Chemokine signaling pathway (KEGG):04062
0.000142415808891857	0.00360596828114183	6	128	Osteoclast differentiation (KEGG):04380
3.26488961192038e-06	0.0001722229270288	7	102	Toll-like receptor signaling pathway (KEGG):04620
7.6754234857827e-05	0.00211241002891324	5	71	RIG-I-like receptor signaling pathway (KEGG):04622
0.000400315152011088	0.00873791349044892	6	155	Jak-STAT signaling pathway (KEGG):04630
0.000190417894746639	0.00446424175461565	6	135	Hepatitis C (KEGG):05160
0.00144381959924493	0.0247010217924876	5	134	Measles (KEGG):05162
1.4608798515914e-07	1.84947389211471e-05	10	176	Influenza A (KEGG):05164
0.000913001698959126	0.0165122878697465	4	70	Pancreatic cancer (KEGG):05212
6.69102128324949e-05	0.00192518930558951	5	69	IL-5 Signaling Pathway (Wikipathways):WP127
0.000104974659925711	0.00276870665554062	4	40	NOD pathway (Wikipathways):WP1433
2.18961022332174e-07	2.31003878560444e-05	9	140	Regulation of toll-like receptor signaling pathway (Wikipathways):WP1449
0.000613193606796779	0.0121297360344488	4	63	Folate Metabolism (Wikipathways):WP176
0.00265104168519505	0.0390257996913597	5	154	Integrated Breast Cancer Pathway (Wikipathways):WP1984
0.00249377294623911	0.0375847208326037	3	44	IL-7 Signaling Pathway (Wikipathways):WP205
6.36805878560101e-05	0.00191951486251687	7	161	B Cell Receptor Signaling Pathway (Wikipathways):WP23
1.42675801788839e-05	0.000602091883548901	6	85	Apoptosis (Wikipathways):WP254
0.000864927440927483	0.0161029138266793	4	69	Kit Receptor Signaling Pathway (Wikipathways):WP304
4.65289416476579e-05	0.00155014842436671	5	64	IL-4 signaling Pathway (Wikipathways):WP395
0.000853068521147919	0.0161029138266793	6	179	EGFR1 Signaling Pathway (Wikipathways):WP437
4.83471710190053e-07	3.8254699068788e-05	7	77	IL-2 Signaling Pathway (Wikipathways):WP49
2.49068494027146e-05	0.000927413863054021	4	28	Interferon type I (Wikipathways):WP585
0.000384721339507335	0.00869745028243368	5	100	Senescence and Autophagy (Wikipathways):WP615
1.01583700518889e-14	3.21512412142283e-12	11	50	Type II interferon signaling (IFNG) (Wikipathways):WP619
0.000175566491294813	0.00427436880729295	6	133	T Cell Receptor Signaling Pathway (Wikipathways):WP69
3.26488961192038e-06	0.0001722229270288	7	102	Toll-like receptor signaling pathway (Wikipathways):WP75
1.08374208480388e-18	6.86008739680854e-16	28	511	Signaling in Immune system (Reactome):REACT_6900
0.00243356043581403	0.0375717989236654	6	220	Signalling by NGF (Reactome):REACT_11061
0.000533073878378581	0.0112478588337881	14	816	TGF beta receptor up reg. targets (Netpath):NetPath_7
7.66592931437817e-07	5.39170361777931e-05	18	740	TGF beta receptor down reg. targets (Netpath):NetPath_7
0.000582751631961468	0.0118994123558584	13	728	TNF alpha/NF-kB up reg. targets (Netpath):NetPath_9
2.25351860978225e-05	0.000891548299995101	9	246	B Cell Receptor up reg. targets (Netpath):NetPath_12
5.43508521681929e-06	0.000264646841711278	8	155	IL-1 up reg. targets (Netpath):NetPath_13
8.15146157745929e-08	1.28996879463293e-05	15	433	IL-2 up reg. targets (Netpath):NetPath_14
0.00237036350084465	0.0375110024008666	7	295	IL-2 down reg. targets (Netpath):NetPath_14
0.00189399256404034	0.0307409562317317	3	40	IL-3 up reg. targets (Netpath):NetPath_15
6.13559192634185e-05	0.00191951486251687	8	217	IL-4 up reg. targets (Netpath):NetPath_16
1.40493400028764e-06	8.89323222182073e-05	7	90	IL-4 down reg. targets (Netpath):NetPath_16
5.62565482669598e-10	1.18701316843285e-07	11	131	IL-5 up reg. targets (Netpath):NetPath_17
1.00541308434114e-05	0.000454590344562815	6	80	IL-6 up reg. targets (Netpath):NetPath_18
0.00323973424938462	0.0466079949968287	2	14	IL-7 down reg. targets (Netpath):NetPath_19
0.00175981622123175	0.0293148333694657	3	39	{CASP3,41} (Static Module):NA
0.000945038368404978	0.0166169246444542	9	406	{GRB2,414} (Static Module):NA

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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GO ID	GO name	FDR corrected p-value
GO:0002376	immune system process	2.04931491108874e-22
GO:0006955	immune response	4.25542578510859e-20
GO:0048869	cellular developmental process	5.52603342113195e-15
GO:0030154	cell differentiation	5.52603342113195e-15
GO:0005515	protein binding	2.57204122660213e-13
GO:0048523	negative regulation of cellular process	5.54476306940542e-10
GO:0048513	organ development	5.54476306940542e-10
GO:0048519	negative regulation of biological process	1.96367747032347e-09
GO:0032502	developmental process	2.41104026218938e-09
GO:0048468	cell development	1.02229396478808e-08
GO:0065007	biological regulation	1.27329817867407e-08
GO:0050789	regulation of biological process	6.76856693678468e-08
GO:0050794	regulation of cellular process	8.52794439067552e-08
GO:0048731	system development	3.37770978161969e-07
GO:0006952	defense response	7.76316040471521e-07
GO:0009615	response to virus	1.20387532241787e-06
GO:0008219	cell death	1.87141136670573e-06
GO:0016265	death	1.87141136670573e-06
GO:0042981	regulation of apoptosis	3.10792514020392e-06
GO:0043067	regulation of programmed cell death	3.38372117773017e-06
GO:0006915	apoptosis	3.51544586260349e-06
GO:0012501	programmed cell death	3.79057652434492e-06
GO:0005737	cytoplasm	1.41914917497262e-05
GO:0048522	positive regulation of cellular process	1.55086555391471e-05
GO:0005062	hematopoietin/interferon-class (D200-domain) cytokine receptor signal transducer activity	1.86435139643539e-05
GO:0051707	response to other organism	2.03937695334459e-05
GO:0048856	anatomical structure development	2.23580633340776e-05
GO:0009607	response to biotic stimulus	3.59513317289658e-05
GO:0009605	response to external stimulus	4.68992283973073e-05
GO:0044424	intracellular part	5.42178615031973e-05
GO:0030099	myeloid cell differentiation	5.42178615031973e-05
GO:0048518	positive regulation of biological process	5.42178615031973e-05
GO:0002521	leukocyte differentiation	0.00013146678893299
GO:0009611	response to wounding	0.000132130896440254
GO:0007275	multicellular organismal development	0.000137037572451955
GO:0032501	multicellular organismal process	0.000233225168049701
GO:0006954	inflammatory response	0.000245767104766667
GO:0030097	hemopoiesis	0.000293168745362596
GO:0002573	myeloid leukocyte differentiation	0.000327093857030976
GO:0044464	cell part	0.000382339554254106
GO:0001816	cytokine production	0.000394845123550258
GO:0048534	hemopoietic or lymphoid organ development	0.000423615876747522
GO:0042221	response to chemical stimulus	0.000439171963869114
GO:0002520	immune system development	0.000561283977550572
GO:0051704	multi-organism process	0.000590112710190111
GO:0008009	chemokine activity	0.000686658409232106
GO:0042379	chemokine receptor binding	0.000716159041291623
GO:0007259	JAK-STAT cascade	0.000773216869787527
GO:0007249	I-kappaB kinase/NF-kappaB cascade	0.00106812224639256
GO:0019221	cytokine and chemokine mediated signaling pathway	0.00109845940184638
GO:0006935	chemotaxis	0.00122650567475901
GO:0042330	taxis	0.00122650567475901
GO:0007243	protein kinase cascade	0.00128828572558078
GO:0045449	regulation of transcription	0.00148364524973606
GO:0007260	tyrosine phosphorylation of STAT protein	0.00160842016974691
GO:0010468	regulation of gene expression	0.00160842016974691
GO:0005622	intracellular	0.00160842016974691
GO:0019899	enzyme binding	0.00165020106042388
GO:0005125	cytokine activity	0.00181627856557638
GO:0019219	regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.00200349311194237
GO:0050663	cytokine secretion	0.00204946154932636
GO:0003700	transcription factor activity	0.00204946154932636
GO:0001664	G-protein-coupled receptor binding	0.00225867132750561
GO:0030224	monocyte differentiation	0.00248408607713838
GO:0043122	regulation of I-kappaB kinase/NF-kappaB cascade	0.00261602544262239
GO:0031323	regulation of cellular metabolic process	0.00265353131956912
GO:0008283	cell proliferation	0.00268156843737764
GO:0006366	transcription from RNA polymerase II promoter	0.00289456874401467
GO:0043065	positive regulation of apoptosis	0.00307094059980835
GO:0006350	transcription	0.00309531200459305
GO:0043068	positive regulation of programmed cell death	0.00312110801910146
GO:0007626	locomotory behavior	0.00312110801910146
GO:0007242	intracellular signaling cascade	0.00314355404862467
GO:0019222	regulation of metabolic process	0.00325342291760973
GO:0006512	ubiquitin cycle	0.00332480907414649
GO:0019207	kinase regulator activity	0.00395858995952148
GO:0009887	organ morphogenesis	0.00401880590138388
GO:0042301	phosphate binding	0.00506583000517576
GO:0043231	intracellular membrane-bound organelle	0.0057660237224233
GO:0043227	membrane-bound organelle	0.0057660237224233
GO:0001775	cell activation	0.00598478165379157
GO:0007610	behavior	0.00598478165379157
GO:0006917	induction of apoptosis	0.00632486519487323
GO:0012502	induction of programmed cell death	0.00640746349540556
GO:0043283	biopolymer metabolic process	0.00718292412371004
GO:0019901	protein kinase binding	0.00826137519618881
GO:0045786	negative regulation of progression through cell cycle	0.00826137519618881
GO:0042771	DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis	0.00833277519435027
GO:0008629	induction of apoptosis by intracellular signals	0.00842126389558695
GO:0051329	interphase of mitotic cell cycle	0.00866460400587848
GO:0006355	regulation of transcription, DNA-dependent	0.00880292440556492
GO:0007267	cell-cell signaling	0.00903197713829527
GO:0009967	positive regulation of signal transduction	0.00914381392986915
GO:0003950	NAD+ ADP-ribosyltransferase activity	0.00935952387996985
GO:0044237	cellular metabolic process	0.0094322306170733
GO:0042516	regulation of tyrosine phosphorylation of Stat3 protein	0.00979211284503215
GO:0051325	interphase	0.00997267026623332
GO:0042503	tyrosine phosphorylation of Stat3 protein	0.0118179542215812
GO:0018108	peptidyl-tyrosine phosphorylation	0.0118179542215812
GO:0019210	kinase inhibitor activity	0.0118179542215812
GO:0008639	small protein conjugating enzyme activity	0.0121518495503619
GO:0009966	regulation of signal transduction	0.0125053653937382
GO:0006351	transcription, DNA-dependent	0.0126269066280285
GO:0043170	macromolecule metabolic process	0.0127504889060913
GO:0032774	RNA biosynthetic process	0.0127504889060913
GO:0018212	peptidyl-tyrosine modification	0.0127788900948737
GO:0019900	kinase binding	0.0127946243405622
GO:0043123	positive regulation of I-kappaB kinase/NF-kappaB cascade	0.0127946243405622
GO:0005159	insulin-like growth factor receptor binding	0.0129652240375776
GO:0007090	regulation of S phase of mitotic cell cycle	0.0129652240375776
GO:0000074	regulation of progression through cell cycle	0.0129652240375776
GO:0051726	regulation of cell cycle	0.0141584581728631
GO:0016070	RNA metabolic process	0.014163468674623
GO:0042127	regulation of cell proliferation	0.0147541183613308
GO:0045321	leukocyte activation	0.0152986239648343
GO:0042509	regulation of tyrosine phosphorylation of STAT protein	0.0172060680678069
GO:0050715	positive regulation of cytokine secretion	0.0172060680678069
GO:0002252	immune effector process	0.0172955303071828
GO:0051239	regulation of multicellular organismal process	0.0176493784134082
GO:0031324	negative regulation of cellular metabolic process	0.0185120474722734
GO:0043687	post-translational protein modification	0.0185120474722734
GO:0045087	innate immune response	0.0190389160679225
GO:0009595	detection of biotic stimulus	0.0190389160679225
GO:0006950	response to stress	0.0212141190446014
GO:0002697	regulation of immune effector process	0.0212141190446014
GO:0046425	regulation of JAK-STAT cascade	0.0212141190446014
GO:0033261	regulation of progression through S phase	0.0212141190446014
GO:0009306	protein secretion	0.0224149903251553
GO:0045892	negative regulation of transcription, DNA-dependent	0.0229953718946196
GO:0030330	DNA damage response, signal transduction by p53 class mediator	0.0229953718946196
GO:0050707	regulation of cytokine secretion	0.0229953718946196
GO:0050714	positive regulation of protein secretion	0.0229953718946196
GO:0051607	defense response to virus	0.0229953718946196
GO:0008234	cysteine-type peptidase activity	0.0229953718946196
GO:0007167	enzyme linked receptor protein signaling pathway	0.0232071371601787
GO:0007154	cell communication	0.0236074625618326
GO:0005102	receptor binding	0.0236074625618326
GO:0007169	transmembrane receptor protein tyrosine kinase signaling pathway	0.0249592671797786
GO:0000084	S phase of mitotic cell cycle	0.0249592671797786
GO:0005615	extracellular space	0.0250978341999601
GO:0044267	cellular protein metabolic process	0.0251151474995319
GO:0044238	primary metabolic process	0.026513121765228
GO:0006357	regulation of transcription from RNA polymerase II promoter	0.0279182990654178
GO:0045934	negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0292502552616485
GO:0043412	biopolymer modification	0.0292502552616485
GO:0007281	germ cell development	0.0292502552616485
GO:0008630	DNA damage response, signal transduction resulting in induction of apoptosis	0.0292502552616485
GO:0051250	negative regulation of lymphocyte activation	0.0292502552616485
GO:0030155	regulation of cell adhesion	0.0292502552616485
GO:0008285	negative regulation of cell proliferation	0.0308870006884819
GO:0044260	cellular macromolecule metabolic process	0.0309715516136739
GO:0009892	negative regulation of metabolic process	0.0310067445755624
GO:0019538	protein metabolic process	0.0312750701736084
GO:0004197	cysteine-type endopeptidase activity	0.0312750701736084
GO:0051320	S phase	0.0312750701736084
GO:0051047	positive regulation of secretion	0.0312750701736084
GO:0007165	signal transduction	0.0312750701736084
GO:0000060	protein import into nucleus, translocation	0.0312750701736084
GO:0006464	protein modification process	0.0312750701736084
GO:0017001	antibiotic catabolic process	0.0312750701736084
GO:0008917	lipopolysaccharide N-acetylglucosaminyltransferase activity	0.0312750701736084
GO:0048407	platelet-derived growth factor binding	0.0312750701736084
GO:0016804	prolyl aminopeptidase activity	0.0312750701736084
GO:0048294	negative regulation of isotype switching to IgE isotypes	0.0312750701736084
GO:0008457	beta-galactosyl-N-acetylglucosaminylgalactosylglucosyl-ceramide beta-1,3-acetylglucosaminyltransferase activity	0.0312750701736084
GO:0030653	beta-lactam antibiotic metabolic process	0.0312750701736084
GO:0033595	response to genistein	0.0312750701736084
GO:0033600	negative regulation of mammary gland epithelial cell proliferation	0.0312750701736084
GO:0002355	detection of tumor cell	0.0312750701736084
GO:0005018	platelet-derived growth factor alpha-receptor activity	0.0312750701736084
GO:0030423	RNA interference, targeting of mRNA for destruction	0.0312750701736084
GO:0032498	detection of muramyl dipeptide	0.0312750701736084
GO:0030655	beta-lactam antibiotic catabolic process	0.0312750701736084
GO:0030852	regulation of granulocyte differentiation	0.0312750701736084
GO:0043379	memory T cell differentiation	0.0312750701736084
GO:0030854	positive regulation of granulocyte differentiation	0.0312750701736084
GO:0043380	regulation of memory T cell differentiation	0.0312750701736084
GO:0008800	beta-lactamase activity	0.0312750701736084
GO:0032500	muramyl dipeptide binding	0.0312750701736084
GO:0032926	negative regulation of activin receptor signaling pathway	0.0312750701736084
GO:0035030	phosphoinositide 3-kinase complex, class IA	0.0312750701736084
GO:0004408	holocytochrome-c synthase activity	0.0312750701736084
GO:0043031	negative regulation of macrophage activation	0.0312750701736084
GO:0042523	positive regulation of tyrosine phosphorylation of Stat5 protein	0.0312750701736084
GO:0048250	mitochondrial iron ion transport	0.0312750701736084
GO:0030422	RNA interference, production of siRNA	0.0312750701736084
GO:0004218	cathepsin S activity	0.0312750701736084
GO:0032490	detection of molecule of bacterial origin	0.0312750701736084
GO:0032495	response to muramyl dipeptide	0.0312750701736084
GO:0033593	BRCA2-MAGE-D1 complex	0.0312750701736084
GO:0032499	detection of peptidoglycan	0.0312750701736084
GO:0032494	response to peptidoglycan	0.0312750701736084
GO:0045829	negative regulation of isotype switching	0.0312750701736084
GO:0051092	activation of NF-kappaB transcription factor	0.0326920427182347
GO:0006508	proteolysis	0.0346114617683344
GO:0016787	hydrolase activity	0.0346114617683344
GO:0016763	transferase activity, transferring pentosyl groups	0.0377749291994716
GO:0050865	regulation of cell activation	0.0377749291994716
GO:0050708	regulation of protein secretion	0.0403822404085943
GO:0007162	negative regulation of cell adhesion	0.0403822404085943
GO:0000151	ubiquitin ligase complex	0.0409576468755775
GO:0016607	nuclear speck	0.0409576468755775
GO:0043226	organelle	0.0409576468755775
GO:0004842	ubiquitin-protein ligase activity	0.0417714048545602
GO:0042157	lipoprotein metabolic process	0.0417714048545602
GO:0002274	myeloid leukocyte activation	0.0420157996550589
GO:0003705	RNA polymerase II transcription factor activity, enhancer binding	0.0420157996550589
GO:0010467	gene expression	0.0421964868119728
GO:0007276	gamete generation	0.0432736196148453
GO:0050730	regulation of peptidyl-tyrosine phosphorylation	0.044261331185689
GO:0048754	branching morphogenesis of a tube	0.044261331185689
GO:0022402	cell cycle process	0.0450697953688119
GO:0009653	anatomical structure morphogenesis	0.0464387897537615
GO:0003677	DNA binding	0.0484527379444247
GO:0051091	positive regulation of transcription factor activity	0.0484527379444247
GO:0005057	receptor signaling protein activity	0.0484527379444247
GO:0045941	positive regulation of transcription	0.0484527379444247
GO:0033598	mammary gland epithelial cell proliferation	0.0484527379444247
GO:0045629	negative regulation of T-helper 2 cell differentiation	0.0484527379444247
GO:0032764	negative regulation of mast cell cytokine production	0.0484527379444247
GO:0031050	dsRNA fragmentation	0.0484527379444247
GO:0004487	methylenetetrahydrofolate dehydrogenase (NAD+) activity	0.0484527379444247
GO:0048641	regulation of skeletal muscle development	0.0484527379444247
GO:0006581	acetylcholine catabolic process	0.0484527379444247
GO:0016246	RNA interference	0.0484527379444247
GO:0006978	DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator	0.0484527379444247
GO:0002902	regulation of B cell apoptosis	0.0484527379444247
GO:0030349	syntaxin-13 binding	0.0484527379444247
GO:0004217	cathepsin L activity	0.0484527379444247
GO:0045029	UDP-activated nucleotide receptor activity	0.0484527379444247
GO:0033599	regulation of mammary gland epithelial cell proliferation	0.0484527379444247
GO:0045623	negative regulation of T-helper cell differentiation	0.0484527379444247
GO:0002903	negative regulation of B cell apoptosis	0.0484527379444247
GO:0002634	regulation of germinal center formation	0.0484527379444247
GO:0035196	miRNA-mediated gene silencing, production of miRNAs	0.0484527379444247
GO:0001507	acetylcholine catabolic process in synaptic cleft	0.0484527379444247
GO:0035024	negative regulation of Rho protein signal transduction	0.0484527379444247
GO:0004105	choline-phosphate cytidylyltransferase activity	0.0484527379444247
GO:0048478	replication fork protection	0.0484527379444247
GO:0019005	SCF ubiquitin ligase complex	0.0484527379444247
GO:0035195	miRNA-mediated gene silencing	0.0484527379444247
GO:0043559	insulin binding	0.0484527379444247
GO:0042772	DNA damage response, signal transduction resulting in transcription	0.0484527379444247
GO:0048179	activin receptor complex	0.0484527379444247
GO:0004178	leucyl aminopeptidase activity	0.0484527379444247
GO:0042522	regulation of tyrosine phosphorylation of Stat5 protein	0.0484527379444247
GO:0046653	tetrahydrofolate metabolic process	0.0484527379444247
GO:0007346	regulation of progression through mitotic cell cycle	0.0484527379444247
GO:0001763	morphogenesis of a branching structure	0.0484527379444247
GO:0008286	insulin receptor signaling pathway	0.0484527379444247
GO:0008233	peptidase activity	0.0485189475958085
GO:0006606	protein import into nucleus	0.0490259751643505

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
classical monocyte	5.60e-140	42
CD14-positive, CD16-negative classical monocyte	5.60e-140	42
defensive cell	9.33e-122	48
phagocyte	9.33e-122	48
monopoietic cell	3.08e-96	59
monocyte	3.08e-96	59
monoblast	3.08e-96	59
promonocyte	3.08e-96	59
macrophage dendritic cell progenitor	6.06e-93	61
myeloid lineage restricted progenitor cell	1.44e-85	66
granulocyte monocyte progenitor cell	3.18e-84	67
myeloid leukocyte	5.34e-83	72
stuff accumulating cell	1.55e-64	87
myeloid cell	1.31e-53	108
common myeloid progenitor	1.31e-53	108
nongranular leukocyte	3.29e-53	115
leukocyte	6.32e-47	136
hematopoietic lineage restricted progenitor cell	1.03e-44	120
hematopoietic stem cell	7.05e-37	168
angioblastic mesenchymal cell	7.05e-37	168
hematopoietic cell	1.06e-34	177
hematopoietic oligopotent progenitor cell	4.49e-34	161
hematopoietic multipotent progenitor cell	4.49e-34	161
mesenchymal cell	3.05e-14	354
connective tissue cell	7.68e-14	361
motile cell	1.99e-12	386
multi fate stem cell	1.07e-10	427
somatic stem cell	1.85e-10	433
stem cell	3.77e-10	441
single nucleate cell	5.61e-08	3
mononuclear cell	5.61e-08	3

Uber Anatomy

Ontology term	p-value	n
bone marrow	1.09e-73	76
bone element	6.21e-68	82
hematopoietic system	2.20e-63	98
blood island	2.20e-63	98
skeletal element	1.95e-61	90
immune system	2.76e-59	93
hemolymphoid system	5.14e-57	108
skeletal system	9.21e-55	100
musculoskeletal system	1.68e-30	167
lateral plate mesoderm	1.34e-27	203
mesoderm	1.43e-15	315
mesoderm-derived structure	1.43e-15	315
presumptive mesoderm	1.43e-15	315
connective tissue	2.71e-13	371

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)
MA0003.1	0
MA0004.1	0.257704
MA0006.1	0.00174017
MA0007.1	0.00357108
MA0009.1	0.3178
MA0014.1	0
MA0017.1	0.367671
MA0019.1	0.426719
MA0024.1	4.71383e-05
MA0025.1	4.34152
MA0027.1	0.299803
MA0028.1	4.4107e-10
MA0029.1	1.37557
MA0030.1	0.299433
MA0031.1	0.214231
MA0038.1	0.194214
MA0040.1	1.32359
MA0041.1	0.154577
MA0042.1	0.443566
MA0043.1	2.30732
MA0046.1	1.13256
MA0048.1	5.93061e-15
MA0050.1	40.4293
MA0051.1	37.2573
MA0052.1	1.3799
MA0055.1	1.44649e-16
MA0056.1	0
MA0057.1	3.42216e-12
MA0058.1	0.218053
MA0059.1	0.0458632
MA0060.1	1.79819e-09
MA0061.1	0.711029
MA0063.1	0
MA0066.1	0.0167418
MA0067.1	0.465634
MA0068.1	0.00109189
MA0069.1	1.68673
MA0070.1	0.034941
MA0071.1	2.23493
MA0072.1	1.03553
MA0073.1	0
MA0074.1	0.119131
MA0076.1	0.0017611
MA0077.1	0.537902
MA0078.1	2.94063
MA0081.1	4.26832
MA0083.1	1.68629
MA0084.1	0.888549
MA0087.1	0.181443
MA0088.1	2.86887e-14
MA0089.1	0
MA0090.1	0.00289151
MA0091.1	2.84149
MA0092.1	0.488715
MA0093.1	0.145033
MA0095.1	0
MA0098.1	0
MA0100.1	0.330913
MA0101.1	2.55578
MA0103.1	1.68421e-05
MA0105.1	2.89298e-16
MA0106.1	0.000257352
MA0107.1	3.14718
MA0108.2	0.694305
MA0109.1	0
MA0111.1	0.000943363
MA0113.1	0.441313
MA0114.1	0.00833336
MA0115.1	0.146096
MA0116.1	1.23597e-08
MA0117.1	0.140938
MA0119.1	0.0909735
MA0122.1	0.347401
MA0124.1	1.57522
MA0125.1	0.773918
MA0130.1	0
MA0131.1	0.000545354
MA0132.1	0
MA0133.1	0
MA0135.1	0.488947
MA0136.1	16.4769
MA0139.1	0
MA0140.1	0.290234
MA0141.1	0.502516
MA0142.1	1.21566
MA0143.1	0.500011
MA0144.1	81.0238
MA0145.1	4.82164e-17
MA0146.1	0
MA0147.1	4.0299e-10
MA0148.1	1.39926
MA0149.1	0.000168942
MA0062.2	0.00090717
MA0035.2	0.503386
MA0039.2	0
MA0138.2	0.00986163
MA0002.2	3.23526
MA0137.2	143.579
MA0104.2	1.66052e-12
MA0047.2	0.535891
MA0112.2	1.84669e-13
MA0065.2	9.07867e-05
MA0150.1	12.4269
MA0151.1	0
MA0152.1	8.62605
MA0153.1	0.541348
MA0154.1	1.77117e-07
MA0155.1	0
MA0156.1	19.4031
MA0157.1	1.44765
MA0158.1	0
MA0159.1	0.00327468
MA0160.1	6.1069
MA0161.1	0
MA0162.1	0
MA0163.1	0
MA0164.1	2.21497
MA0080.2	30.6093
MA0018.2	0.0185669
MA0099.2	40.5486
MA0079.2	0
MA0102.2	2.99768
MA0258.1	0.109402
MA0259.1	1.73295e-10
MA0442.1	0

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
BATF#10538	248	3.19109077891775	1.24244916686753e-57	1.09042141628973e-54
BCL11A#53335	200	2.99730112029657	2.40232457439097e-42	1.45026807066369e-39
BCL3#602	77	1.40524401261904	0.00220456305381441	0.0127023259835222
CEBPB#1051	456	1.92014966580883	1.64063903543628e-43	1.0322090374815e-40
EBF1#1879	369	1.7361258670808	4.64464008168152e-26	1.54978135939532e-23
EP300#2033	481	1.72121815653109	4.25826606405863e-34	2.01234864010959e-31
FOS#2353	443	2.10570216684639	2.19748068397135e-52	1.72558409889687e-49
FOSL1#8061	155	3.25177224302051	9.24093415956857e-37	4.82556961345591e-34
FOSL2#2355	157	1.40414236392825	1.59338949133812e-05	0.000372536389267656
GATA1#2623	214	1.53296668926217	4.93788614951882e-10	4.78393220379959e-08
GATA2#2624	332	2.2352442343053	2.5570165495546e-43	1.58959673463651e-40
GATA3#2625	91	1.30930955547055	0.00644035383907289	0.0279956761258193
IRF4#3662	199	2.30374433421135	3.81692445629669e-27	1.33323001100726e-24
JUN#3725	394	2.60436064542024	3.05383381663373e-69	3.1893934997541e-66
JUNB#3726	185	2.99153039728838	4.84752586986393e-39	2.72188577592859e-36
JUND#3727	433	1.59994162008989	8.37287400792207e-24	2.549430287211e-21
KAT2A#2648	8	2.60365557316429	0.0130003252839428	0.0461298872805932
MAFF#23764	81	2.40969037278688	1.2545627204091e-12	1.74700367942408e-10
MAFK#7975	182	2.60556441156104	5.56789338773594e-31	2.30756038699109e-28
MAX#4149	353	1.20324991795009	0.000113215104947069	0.00155090140943953
MEF2A#4205	229	2.26740616920681	2.69160030927219e-30	1.08956606472899e-27
MEF2C#4208	93	2.0295594124744	2.67904702713271e-10	2.72706620337927e-08
NFE2#4778	46	1.87606761224244	5.52708024081968e-05	0.000935411980669206
NFKB1#4790	488	1.4147781040711	1.70553836395092e-16	3.39285183224133e-14
NR3C1#2908	161	1.2734584027041	0.00115020753324271	0.00786683199504488
POU2F2#5452	250	1.20260486763636	0.00134023310053875	0.0088781304571335
PRDM1#639	50	3.48206433643584	8.63467645706071e-14	1.36223107930357e-11
RXRA#6256	120	1.27255893116534	0.0047942217639784	0.0225268244391119
SIRT6#51548	22	1.78554933321741	0.00756967469037177	0.0312009335775411
SMARCA4#6597	22	1.82189639343557	0.00606812667873771	0.0268446747797648
SMARCC1#6599	89	2.05284679315753	3.75689865638623e-10	3.73327058776709e-08
SPI1#6688	486	2.10633979141154	2.89281382676076e-58	2.67365117923068e-55
SRF#6722	178	1.29735749110717	0.000270607926726075	0.00288889106197941
STAT1#6772	475	5.19578925576842	1.13825246312554e-198	4.75511795985471e-195
STAT2#6773	192	6.61946332160413	2.66911657782645e-94	3.98228380388024e-91
STAT3#6774	667	3.70654154944632	4.89242193498118e-207	2.32254388394318e-203
TAL1#6886	118	1.8618577749276	1.95548864996546e-10	2.03011211842687e-08
TCF12#6938	215	1.20782353617014	0.00241559468734663	0.013614802674139
USF2#7392	177	1.21480134028384	0.00462770818496673	0.0218535546721713

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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FF samples	Score

FF samples	Score
CD14+ monocytes - treated with BCG, donor3 CNhs13543	1.05
CD14+ monocytes - treated with Trehalose dimycolate (TDM), donor3 CNhs13544	1.01
CD14+ monocytes - treated with BCG, donor1 CNhs13465	0.94
CD14+ monocytes - treated with Trehalose dimycolate (TDM), donor1 CNhs13467	0.88
CD14+ monocytes - treated with BCG, donor2 CNhs13475	0.87
CD14+ monocytes - treated with Trehalose dimycolate (TDM), donor2 CNhs13483	0.83
CD14+ monocytes - treated with IFN + N-hexane, donor2 CNhs13476	0.66
CD14+ monocytes - treated with IFN + N-hexane, donor3 CNhs13490	0.64
CD14+ monocytes - treated with IFN + N-hexane, donor1 CNhs13466	0.56
CD14+ monocytes - treated with Group A streptococci, donor1 CNhs13469	0.45

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