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ENCODE: H3K4me3 ChIP-Seq of primary human cells

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CREMA is a free online tool that recognizes most important transcription factors that change the chromatin state across different samples.

Results for ZBED1

Z-value: 0.28

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Transcription factors associated with ZBED1

Gene Symbol	Gene ID	Gene Info
ZBED1 Ensembl NCBI GeneCards UniProt	ENSG00000214717.5	ZBED1
ZBED1 Ensembl NCBI GeneCards UniProt	ENSGR0000214717.5	ZBED1

Correlations of motif activity and signal intensity at CREs associated with the motif's TFs:

This plot shows correlation between observed signal intensity of a CRE associated with the transcription factor across all samples and activity of the motif.

For each TF, only the top 5 correlated CREs are shown.

CRE	Gene	Distance	Association probability	Pearson corr. coef.	P-value	Plot
ZBED1	chrX_2402911_2403247	15517	0.212992	-0.80	9.0e-03	Click!
ZBED1	chrX_2403256_2403492	15222	0.213455	-0.70	3.6e-02	Click!
ZBED1	chrX_2418097_2418604	246	0.605449	0.65	5.9e-02	Click!
ZBED1	chrX_2402642_2402830	15860	0.212450	-0.64	6.5e-02	Click!
ZBED1	chrX_2418812_2418977	42	0.597697	0.46	2.1e-01	Click!

Activity of the ZBED1 motif across conditions

Conditions sorted by the z-value of the ZBED1 motif activity

Move your cursor over a bar to see sample name and corresponding Z-value.

Top target CREs of the motif:

Cis Regulatory Element (CRE)	Target Score	Top associated gene	Gene Info	Distance of CRE to TSS	CRE/Gene association probability
chr14_91862319_91862609	0.16	CCDC88C	coiled-coil domain containing 88C	21226	0.21
chr1_36023479_36023699	0.15	NCDN	neurochondrin	180	0.68
chr17_19093169_19093320	0.14	ENSG00000264940	.	314	0.77
chr15_90607371_90607522	0.14	ZNF710	zinc finger protein 710	3800	0.17
chr2_677442_677606	0.13	TMEM18	transmembrane protein 18	85	0.8
chr6_134273516_134273821	0.13	TBPL1	TBP-like 1	244	0.95
chr17_19091594_19091745	0.12	ENSG00000263934	.	340	0.74
chr2_48010304_48010672	0.12	MSH6	mutS homolog 6	166	0.94
chr5_140044777_140044956	0.12	WDR55	WD repeat domain 55	605	0.47
chr10_31321494_31321708	0.10	ZNF438	zinc finger protein 438	735	0.75
chr1_184723429_184723734	0.09	EDEM3	ER degradation enhancer, mannosidase alpha-like 3	120	0.97
chr14_23235474_23235759	0.09	OXA1L	oxidase (cytochrome c) assembly 1-like	115	0.5
chr18_74718505_74718656	0.08	MBP	myelin basic protein	3498	0.3
chr1_6053732_6054005	0.08	KCNAB2	potassium voltage-gated channel, shaker-related subfamily, beta member 2	1097	0.4
chr21_35573901_35574398	0.08	ENSG00000266007	.	103281	0.06
chr20_18491437_18491588	0.08	SEC23B	Sec23 homolog B (S. cerevisiae)	2806	0.18
chr4_152020832_152021050	0.07	RPS3A	ribosomal protein S3A	84	0.96
chr17_30822708_30822859	0.07	RP11-466A19.1		229	0.88
chr19_36630559_36630844	0.07	CAPNS1	calpain, small subunit 1	154	0.91
chr4_100870352_100870894	0.06	RP11-15B17.1		540	0.59
chr5_154237472_154237684	0.06	CNOT8	CCR4-NOT transcription complex, subunit 8	231	0.88
chr19_2820167_2820484	0.06	ZNF554	zinc finger protein 554	377	0.76
chr17_16290008_16290159	0.06	RP11-138I1.4		4100	0.15
chr7_15501471_15501622	0.05	AGMO	alkylglycerol monooxygenase	95699	0.09
chr17_18965457_18965608	0.05	ENSG00000265185	.	307	0.8
chr17_19015403_19015696	0.05	ENSG00000262202	.	400	0.71
chr12_112546663_112546943	0.04	NAA25	N(alpha)-acetyltransferase 25, NatB auxiliary subunit	23	0.97
chr20_30467192_30467777	0.04	TTLL9	tubulin tyrosine ligase-like family, member 9	148	0.94
chr20_3776560_3776785	0.04	CDC25B	cell division cycle 25B	190	0.91
chr5_169308588_169308739	0.04	FAM196B	family with sequence similarity 196, member B	99081	0.07
chr14_105267253_105268098	0.04	ZBTB42	zinc finger and BTB domain containing 42	425	0.78
chr5_59284408_59284559	0.04	CTD-2254N19.1		32593	0.23
chr2_182757184_182757414	0.04	SSFA2	sperm specific antigen 2	376	0.76
chr1_30602704_30603087	0.04	ENSG00000222787	.	245146	0.02
chr5_70882830_70883043	0.04	MCCC2	methylcrotonoyl-CoA carboxylase 2 (beta)	188	0.96
chr4_170541655_170542374	0.04	CLCN3	chloride channel, voltage-sensitive 3	26	0.98
chr19_3185557_3185759	0.03	NCLN	nicalin	60	0.96
chr20_44002218_44002660	0.03	TP53TG5	TP53 target 5	4594	0.13
chr12_114403396_114404100	0.03	RBM19	RNA binding motif protein 19	363	0.91
chr19_40029876_40030364	0.03	EID2	EP300 interacting inhibitor of differentiation 2	750	0.48
chr7_139025554_139026437	0.03	LUC7L2	LUC7-like 2 (S. cerevisiae)	111	0.49
chr5_149380291_149380778	0.03	TIGD6	tigger transposable element derived 6	196	0.56
chr12_865415_865972	0.03	WNK1	WNK lysine deficient protein kinase 1	2961	0.28
chr8_39807185_39807336	0.03	IDO2	indoleamine 2,3-dioxygenase 2	575	0.73
chr14_52329027_52329412	0.02	GNG2	guanine nucleotide binding protein (G protein), gamma 2	1177	0.52
chr7_5571391_5571891	0.02	ACTB	actin, beta	1301	0.32
chr4_914174_914325	0.02	GAK	cyclin G associated kinase	4726	0.17
chr10_42738908_42739069	0.02	ENSG00000264398	.	8565	0.27
chr16_68267852_68268003	0.02	ESRP2	epithelial splicing regulatory protein 2	2108	0.13
chr4_77068973_77069571	0.02	NUP54	nucleoporin 54kDa	278	0.9
chr19_1268552_1268973	0.02	CIRBP	cold inducible RNA binding protein	568	0.5
chr2_86849319_86850125	0.02	RNF103-CHMP3	RNF103-CHMP3 readthrough	429	0.72
chr14_23292100_23292804	0.02	SLC7A7	solute carrier family 7 (amino acid transporter light chain, y+L system), member 7	168	0.82
chr1_20126563_20126899	0.02	TMCO4	transmembrane and coiled-coil domains 4	321	0.87
chr1_152019828_152020543	0.02	S100A11	S100 calcium binding protein A11	10674	0.15
chr8_26370640_26370791	0.02	PNMA2	paraneoplastic Ma antigen 2	893	0.46
chr6_74232761_74232916	0.02	RP11-505P4.7		503	0.51
chr5_5422874_5423110	0.02	KIAA0947	KIAA0947	185	0.97
chr20_40246786_40247121	0.02	CHD6	chromodomain helicase DNA binding protein 6	61	0.98
chr3_47516346_47517336	0.02	SCAP	SREBF chaperone	246	0.9
chr15_100105137_100105437	0.01	MEF2A	myocyte enhancer factor 2A	335	0.91
chr4_54927912_54928194	0.01	AC110792.1	HCG2027126; Uncharacterized protein	840	0.56
chr12_57915744_57916361	0.01	MBD6	methyl-CpG binding domain protein 6	475	0.55
chr19_44488599_44488754	0.01	ZNF155	zinc finger protein 155	303	0.82
chr5_148929598_148930007	0.01	CSNK1A1	casein kinase 1, alpha 1	60	0.96
chr6_136571677_136572089	0.01	MTFR2	mitochondrial fission regulator 2	421	0.85
chr2_148603046_148603645	0.01	ACVR2A	activin A receptor, type IIA	1160	0.53
chr4_44680371_44680949	0.01	YIPF7	Yip1 domain family, member 7	87	0.68
chr3_10269933_10270194	0.01	ENSG00000222348	.	11167	0.12
chr19_45972718_45973011	0.01	FOSB	FBJ murine osteosarcoma viral oncogene homolog B	270	0.85
chr17_76136908_76137080	0.01	C17orf99	chromosome 17 open reading frame 99	5440	0.12
chr11_17298561_17298964	0.01	NUCB2	nucleobindin 2	192	0.95
chr18_23669563_23669744	0.01	SS18	synovial sarcoma translocation, chromosome 18	407	0.89
chr8_56802055_56802342	0.01	RP11-318K15.2		3956	0.17
chrX_152927870_152928027	0.01	ENSG00000244335	.	3733	0.13
chr14_92330770_92330921	0.01	TC2N	tandem C2 domains, nuclear	3028	0.27
chr20_62669282_62669575	0.01	ZNF512B	zinc finger protein 512B	510	0.62
chr1_25446753_25447069	0.01	RP4-706G24.1		87719	0.07
chr3_195269115_195270107	0.01	PPP1R2	protein phosphatase 1, regulatory (inhibitor) subunit 2	565	0.63
chr22_28115426_28115577	0.01	RP11-375H17.1		3033	0.37
chr2_28613525_28613857	0.01	FOSL2	FOS-like antigen 2	1978	0.28
chr20_46414640_46415337	0.01	SULF2	sulfatase 2	310	0.92
chr1_110881174_110881447	0.01	RBM15	RNA binding motif protein 15	182	0.77
chr21_47745314_47745842	0.01	PCNT	pericentrin	1542	0.26
chr12_122124988_122125315	0.01	MORN3	MORN repeat containing 3	17591	0.17
chr10_22629025_22629540	0.01	SPAG6	sperm associated antigen 6	5117	0.17
chr12_122516325_122516536	0.01	MLXIP	MLX interacting protein	198	0.95
chr2_123651625_123651776	0.01	ENSG00000221689	.	788091	0.0
chr2_98708076_98708227	0.01	VWA3B	von Willebrand factor A domain containing 3B	4452	0.31
chr19_8922272_8922597	0.00	CTD-2529P6.3		9743	0.14
chr1_46908336_46908909	0.00	RP5-1109J22.1		10821	0.18
chr6_124123668_124123827	0.00	NKAIN2	Na+/K+ transporting ATPase interacting 2	1539	0.46
chr1_205561203_205561483	0.00	ENSG00000206762	.	2826	0.21
chr5_76382528_76383471	0.00	ZBED3	zinc finger, BED-type containing 3	9	0.67
chr7_6272035_6272186	0.00	ENSG00000202273	.	19739	0.16
chr18_44526809_44527253	0.00	KATNAL2	katanin p60 subunit A-like 2	213	0.91
chr3_129393451_129393602	0.00	TMCC1	transmembrane and coiled-coil domain family 1	14049	0.21
chr19_9929067_9929467	0.00	FBXL12	F-box and leucine-rich repeat protein 12	238	0.8
chr3_100280033_100280184	0.00	GPR128	G protein-coupled receptor 128	48325	0.14
chr20_52789339_52789490	0.00	CYP24A1	cytochrome P450, family 24, subfamily A, polypeptide 1	774	0.72

Histogram of CRE-TSS distances for CREs targeted by :

Rank distribution of CRE target scores:

Distribution of target CREs across different genomic regions:

Network of associatons between targets according to the STRING database.

First level regulatory network of ZBED1

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Gene Ontology Analysis

Gene overrepresentation in biological process category:

Total log-likelihood	Term	Description
0.1	GO:0009221	pyrimidine deoxyribonucleotide biosynthetic process(GO:0009221)
0.1	GO:0043570	maintenance of DNA repeat elements(GO:0043570) positive regulation of helicase activity(GO:0051096)
0.0	GO:0043461	proton-transporting ATP synthase complex assembly(GO:0043461) proton-transporting ATP synthase complex biogenesis(GO:0070272)
0.0	GO:0007144	female meiosis I(GO:0007144)
0.0	GO:0048388	endosomal lumen acidification(GO:0048388)
0.0	GO:0006552	leucine catabolic process(GO:0006552)

Gene overrepresentation in molecular function category:

Log-likelihood per target	Total log-likelihood	Term	Description
0.0	0.1	GO:0032142	four-way junction DNA binding(GO:0000400) single guanine insertion binding(GO:0032142) oxidized DNA binding(GO:0032356) oxidized purine DNA binding(GO:0032357)
0.0	0.1	GO:0004571	mannosyl-oligosaccharide 1,2-alpha-mannosidase activity(GO:0004571)