CREMA results: RFX3

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Transcription factors associated with RFX3_RFX2

Gene Symbol	Gene ID	Gene Info
RFX3 Ensembl NCBI GeneCards UniProt	ENSG00000080298.11	regulatory factor X3
RFX2 Ensembl NCBI GeneCards UniProt	ENSG00000087903.8	regulatory factor X2

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.

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CRE	Gene	Distance	Association probability	Pearson corr. coef.	P-value	Plot
chr19_6048454_6048605	RFX2	714	0.610772	-0.58	1.0e-01	Click!
chr19_6058304_6058655	RFX2	1185	0.405586	-0.59	9.6e-02	Click!
chr19_6116813_6116964	RFX2	3116	0.190831	-0.58	1.0e-01	Click!
chr19_6198434_6198600	RFX2	1023	0.508666	-0.77	1.6e-02	Click!
chr19_6218924_6219075	RFX2	19459	0.142616	-0.78	1.3e-02	Click!
chr9_3241340_3241491	RFX3	15784	0.297169	0.71	3.2e-02	Click!
chr9_3371502_3371653	RFX3	24011	0.262944	0.70	3.7e-02	Click!
chr9_3385948_3386099	RFX3	9565	0.300663	0.71	3.4e-02	Click!
chr9_3513364_3513515	RFX3	12544	0.267021	0.69	4.2e-02	Click!
chr9_3585317_3585468	RFX3	59388	0.154767	-0.81	7.7e-03	Click!

Showing 1 to 10 of 10 entries

Activity of the RFX3_RFX2 motif across conditions

Conditions sorted by the z-value of the RFX3_RFX2 motif activity

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

Top target CREs of the motif:

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Cis Regulatory Element (CRE)	Target Score	Top associated gene	Gene Info	Distance of CRE to TSS	CRE/Gene association probability
chr17_75880240_75880391	0.83	FLJ45079		1656	0.44
chr17_70927455_70927642	0.71	SLC39A11	solute carrier family 39, member 11	61524	0.13
chr16_29675395_29675762	0.66	QPRT	quinolinate phosphoribosyltransferase	978	0.33
chr11_6426621_6426772	0.64	APBB1	amyloid beta (A4) precursor protein-binding, family B, member 1 (Fe65)	25	0.97
chr9_95710407_95710684	0.60	FGD3	FYVE, RhoGEF and PH domain containing 3	812	0.67
chr20_57697083_57697234	0.58	ZNF831	zinc finger protein 831	68917	0.09
chr2_74225778_74225929	0.55	TET3	tet methylcytosine dioxygenase 3	3987	0.19
chr2_69001325_69001580	0.53	ARHGAP25	Rho GTPase activating protein 25	481	0.85
chr7_100797498_100797649	0.52	AP1S1	adaptor-related protein complex 1, sigma 1 subunit	105	0.93
chr16_58529133_58529329	0.52	ENSG00000200556	.	1581	0.29

Showing 1 to 10 of 200 entries

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 RFX3_RFX2

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Gene Ontology Analysis

Gene overrepresentation in biological process category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	0.6	GO:0045749	obsolete negative regulation of S phase of mitotic cell cycle(GO:0045749)
0.0	0.6	GO:0050690	regulation of defense response to virus by virus(GO:0050690)
0.1	0.5	GO:0072526	pyridine-containing compound catabolic process(GO:0072526)
0.1	0.4	GO:0035414	negative regulation of catenin import into nucleus(GO:0035414)
0.0	0.4	GO:0006298	mismatch repair(GO:0006298)
0.0	0.4	GO:0046847	filopodium assembly(GO:0046847)
0.1	0.3	GO:0006610	ribosomal protein import into nucleus(GO:0006610)
0.0	0.3	GO:0016558	protein import into peroxisome matrix(GO:0016558)
0.0	0.3	GO:0030818	negative regulation of cAMP metabolic process(GO:0030815) negative regulation of cAMP biosynthetic process(GO:0030818)
0.1	0.2	GO:0043983	histone H4-K12 acetylation(GO:0043983)

Showing 1 to 10 of 63 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	0.7	GO:0030426	growth cone(GO:0030426)
0.1	0.5	GO:0030121	AP-1 adaptor complex(GO:0030121)
0.0	0.4	GO:0016342	catenin complex(GO:0016342)
0.0	0.4	GO:0090665	dystrophin-associated glycoprotein complex(GO:0016010) glycoprotein complex(GO:0090665)
0.0	0.3	GO:0005845	mRNA cap binding complex(GO:0005845) RNA cap binding complex(GO:0034518)
0.0	0.3	GO:0005811	lipid particle(GO:0005811)
0.0	0.3	GO:0016592	mediator complex(GO:0016592)
0.1	0.2	GO:0000138	Golgi trans cisterna(GO:0000138)
0.0	0.2	GO:0070776	H3 histone acetyltransferase complex(GO:0070775) MOZ/MORF histone acetyltransferase complex(GO:0070776)
0.0	0.2	GO:0001931	uropod(GO:0001931) cell trailing edge(GO:0031254)

Showing 1 to 10 of 23 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	0.7	GO:0005089	Rho guanyl-nucleotide exchange factor activity(GO:0005089)
0.1	0.6	GO:0070064	proline-rich region binding(GO:0070064)
0.0	0.4	GO:0008013	beta-catenin binding(GO:0008013)
0.1	0.3	GO:0002060	purine nucleobase binding(GO:0002060)
0.1	0.3	GO:0000268	peroxisome targeting sequence binding(GO:0000268)
0.1	0.3	GO:0031694	alpha-2A adrenergic receptor binding(GO:0031694)
0.0	0.3	GO:0051635	obsolete bacterial cell surface binding(GO:0051635)
0.0	0.3	GO:0004697	protein kinase C activity(GO:0004697)
0.1	0.2	GO:0004514	nicotinate-nucleotide diphosphorylase (carboxylating) activity(GO:0004514)
0.1	0.2	GO:0016416	carnitine O-palmitoyltransferase activity(GO:0004095) O-palmitoyltransferase activity(GO:0016416)

Showing 1 to 10 of 42 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Total log-likelihood	Term	Description
0.7	PID ERA GENOMIC PATHWAY	Validated nuclear estrogen receptor alpha network
0.4	PID IL8 CXCR2 PATHWAY	IL8- and CXCR2-mediated signaling events
0.2	SA MMP CYTOKINE CONNECTION	Cytokines can induce activation of matrix metalloproteinases, which degrade extracellular matrix.
0.2	PID SYNDECAN 3 PATHWAY	Syndecan-3-mediated signaling events
0.1	SA PTEN PATHWAY	PTEN is a tumor suppressor that dephosphorylates the lipid messenger phosphatidylinositol triphosphate.
0.0	SA TRKA RECEPTOR	The TrkA receptor binds nerve growth factor to activate MAP kinase pathways and promote cell growth.

Showing 1 to 6 of 6 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	0.6	REACTOME NRAGE SIGNALS DEATH THROUGH JNK	Genes involved in NRAGE signals death through JNK
0.1	0.5	REACTOME NEF MEDIATED DOWNREGULATION OF MHC CLASS I COMPLEX CELL SURFACE EXPRESSION	Genes involved in Nef mediated downregulation of MHC class I complex cell surface expression
0.0	0.3	REACTOME PURINE SALVAGE	Genes involved in Purine salvage
0.0	0.3	REACTOME TRAFFICKING OF GLUR2 CONTAINING AMPA RECEPTORS	Genes involved in Trafficking of GluR2-containing AMPA receptors
0.0	0.3	REACTOME BASIGIN INTERACTIONS	Genes involved in Basigin interactions
0.0	0.2	REACTOME UNWINDING OF DNA	Genes involved in Unwinding of DNA
0.0	0.2	REACTOME VITAMIN B5 PANTOTHENATE METABOLISM	Genes involved in Vitamin B5 (pantothenate) metabolism
0.0	0.2	REACTOME PHOSPHORYLATION OF CD3 AND TCR ZETA CHAINS	Genes involved in Phosphorylation of CD3 and TCR zeta chains
0.0	0.2	REACTOME ACTIVATED AMPK STIMULATES FATTY ACID OXIDATION IN MUSCLE	Genes involved in Activated AMPK stimulates fatty-acid oxidation in muscle
0.0	0.2	REACTOME MITOCHONDRIAL TRNA AMINOACYLATION	Genes involved in Mitochondrial tRNA aminoacylation

Showing 1 to 10 of 16 entries

Results for RFX3_RFX2

Z-value: 1.26

Motif logo

Transcription factors associated with RFX3_RFX2

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.

Activity of the RFX3_RFX2 motif across conditions

Conditions sorted by the z-value of the RFX3_RFX2 motif activity

Top target CREs of the motif:

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 RFX3_RFX2

In order to view interactive SVG image please either update your browser to latest version or install SVG plugin.

Gene Ontology Analysis

Gene overrepresentation in biological process category:

Gene overrepresentation in cellular component category:

Gene overrepresentation in molecular function category:

Gene overrepresentation in curated gene sets: canonical pathways category:

Gene overrepresentation in curated gene sets: REACTOME pathways category: