ISMARA results: nkx3-1

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PRJNA207719: Tissue specific transcriptome profiling

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Results for nkx3-1

Z-value: 1.51

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Transcription factors associated with nkx3-1

Gene Symbol	Gene ID	Gene Info
nkx3-1 NCBI UniProt	ENSDARG00000078280	NK3 homeobox 1

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
nkx3-1	dr11_v1_chr8_-_50259448_50259448	0.16	8.0e-01	Click!

Activity profile of nkx3-1 motif

Sorted Z-values of nkx3-1 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr22_+_25249193 Show fit	1.15	ENSDART00000171851	si:ch211-226h8.11 NCBI UniProt Show fit	si:ch211-226h8.11
chr22_+_25236657 Show fit	1.12	ENSDART00000138012	zgc:172218 NCBI UniProt Show fit	zgc:172218
chr9_+_8396755 Show fit	0.98	ENSDART00000043067	zgc:171776 NCBI UniProt Show fit	zgc:171776
chr11_-_30636163 Show fit	0.94	ENSDART00000140516	zgc:153665 NCBI UniProt Show fit	zgc:153665
chr2_+_11031360 Show fit	0.80	ENSDART00000180020 ENSDART00000145093	acot11a NCBI UniProt Show fit	acyl-CoA thioesterase 11a
chr1_-_5542565 Show fit	0.78	ENSDART00000160791 ENSDART00000103754	fn1b NCBI UniProt Show fit	fibronectin 1b
chr22_-_11623063 Show fit	0.76	ENSDART00000145653	gcga NCBI UniProt Show fit	glucagon a
chr2_+_4208323 Show fit	0.75	ENSDART00000167906	gata6 NCBI UniProt Show fit	GATA binding protein 6
chr19_-_5699703 Show fit	0.74	ENSDART00000082050	zgc:174904 NCBI UniProt Show fit	zgc:174904
chr2_+_1486822 Show fit	0.74	ENSDART00000132500	c8a NCBI UniProt Show fit	complement component 8, alpha polypeptide

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of nkx3-1

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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
0.0	1.4	GO:0003323	type B pancreatic cell development(GO:0003323)
0.2	1.1	GO:0006953	acute-phase response(GO:0006953)
0.0	1.1	GO:0019835	cytolysis(GO:0019835)
0.0	0.8	GO:1904029	regulation of cyclin-dependent protein serine/threonine kinase activity(GO:0000079) regulation of cyclin-dependent protein kinase activity(GO:1904029)
0.2	0.7	GO:0006600	creatine metabolic process(GO:0006600) creatine biosynthetic process(GO:0006601)
0.1	0.7	GO:0055014	ventricular cardiac myofibril assembly(GO:0055005) atrial cardiac muscle cell development(GO:0055014)
0.1	0.7	GO:0045835	negative regulation of meiotic nuclear division(GO:0045835)
0.0	0.7	GO:0051014	actin filament severing(GO:0051014)
0.2	0.6	GO:0030718	germ-line stem cell population maintenance(GO:0030718)
0.1	0.6	GO:0043011	myeloid dendritic cell activation(GO:0001773) myeloid dendritic cell differentiation(GO:0043011)

Showing 1 to 10 of 59 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	1.4	GO:0005579	membrane attack complex(GO:0005579)
0.0	1.4	GO:0022627	cytosolic small ribosomal subunit(GO:0022627)
0.0	1.0	GO:0005882	intermediate filament(GO:0005882)
0.0	0.8	GO:0005865	striated muscle thin filament(GO:0005865) myofilament(GO:0036379)
0.2	0.7	GO:0097124	cyclin A2-CDK2 complex(GO:0097124)
0.0	0.7	GO:0032580	Golgi cisterna membrane(GO:0032580)
0.0	0.7	GO:0022626	cytosolic large ribosomal subunit(GO:0022625) cytosolic ribosome(GO:0022626)
0.0	0.6	GO:0032040	small-subunit processome(GO:0032040)
0.1	0.5	GO:0000811	GINS complex(GO:0000811)
0.0	0.5	GO:0045095	keratin filament(GO:0045095)

Showing 1 to 10 of 30 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	3.3	GO:0030246	carbohydrate binding(GO:0030246)
0.0	1.0	GO:0001227	transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding(GO:0001227)
0.2	0.9	GO:0031769	glucagon receptor binding(GO:0031769)
0.1	0.8	GO:0036042	long-chain fatty acyl-CoA binding(GO:0036042)
0.1	0.8	GO:0001948	glycoprotein binding(GO:0001948) proteoglycan binding(GO:0043394)
0.0	0.8	GO:0019843	rRNA binding(GO:0019843)
0.0	0.8	GO:0008009	chemokine activity(GO:0008009)
0.0	0.8	GO:0005546	phosphatidylinositol-4,5-bisphosphate binding(GO:0005546)
0.0	0.8	GO:0016538	cyclin-dependent protein serine/threonine kinase regulator activity(GO:0016538)
0.0	0.6	GO:0030971	receptor tyrosine kinase binding(GO:0030971)

Showing 1 to 10 of 46 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Total log-likelihood	Term	Description
0.7	PID P38 MK2 PATHWAY	p38 signaling mediated by MAPKAP kinases
0.7	SA REG CASCADE OF CYCLIN EXPR	Expression of cyclins regulates progression through the cell cycle by activating cyclin-dependent kinases.
0.7	PID HES HEY PATHWAY	Notch-mediated HES/HEY network
0.6	PID VEGFR1 PATHWAY	VEGFR1 specific signals
0.5	PID P38 ALPHA BETA DOWNSTREAM PATHWAY	Signaling mediated by p38-alpha and p38-beta
0.4	PID FOXM1 PATHWAY	FOXM1 transcription factor network
0.4	PID HIF1 TFPATHWAY	HIF-1-alpha transcription factor network
0.3	PID INTEGRIN A9B1 PATHWAY	Alpha9 beta1 integrin signaling events
0.2	PID ERBB NETWORK PATHWAY	ErbB receptor signaling network
0.2	SIG REGULATION OF THE ACTIN CYTOSKELETON BY RHO GTPASES	Genes related to regulation of the actin cytoskeleton

Showing 1 to 10 of 12 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	2.1	REACTOME COMPLEMENT CASCADE	Genes involved in Complement cascade
0.0	1.4	REACTOME FORMATION OF THE TERNARY COMPLEX AND SUBSEQUENTLY THE 43S COMPLEX	Genes involved in Formation of the ternary complex, and subsequently, the 43S complex
0.0	1.0	REACTOME INTERFERON ALPHA BETA SIGNALING	Genes involved in Interferon alpha/beta signaling
0.0	0.7	REACTOME CYCLIN A B1 ASSOCIATED EVENTS DURING G2 M TRANSITION	Genes involved in Cyclin A/B1 associated events during G2/M transition
0.0	0.7	REACTOME PEPTIDE CHAIN ELONGATION	Genes involved in Peptide chain elongation
0.0	0.6	REACTOME SIGNAL ATTENUATION	Genes involved in Signal attenuation
0.1	0.4	REACTOME G2 M DNA DAMAGE CHECKPOINT	Genes involved in G2/M DNA damage checkpoint
0.0	0.4	REACTOME TRAF6 MEDIATED IRF7 ACTIVATION	Genes involved in TRAF6 mediated IRF7 activation
0.0	0.4	REACTOME REGULATION OF GENE EXPRESSION IN BETA CELLS	Genes involved in Regulation of gene expression in beta cells
0.0	0.4	REACTOME SPHINGOLIPID DE NOVO BIOSYNTHESIS	Genes involved in Sphingolipid de novo biosynthesis

Showing 1 to 10 of 20 entries

Results for nkx3-1

Z-value: 1.51

Motif logo

Transcription factors associated with nkx3-1

Activity-expression correlation:

Activity profile of nkx3-1 motif

Sorted Z-values of nkx3-1 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of nkx3-1

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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: