ISMARA results: nkx3-1

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PRJDB7713: Age associated transcriptome analysis in 5 tissues of zebrafish

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Results for nkx3-1

Z-value: 1.26

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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	0.37	2.0e-04	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_-_11623063 Show fit	17.28	ENSDART00000145653	gcga NCBI UniProt Show fit	glucagon a
chr11_-_30636163 Show fit	16.19	ENSDART00000140516	zgc:153665 NCBI UniProt Show fit	zgc:153665
chr8_-_40464935 Show fit	13.19	ENSDART00000040013	myl7 NCBI UniProt Show fit	myosin, light chain 7, regulatory
chr19_-_5699703 Show fit	13.08	ENSDART00000082050	zgc:174904 NCBI UniProt Show fit	zgc:174904
chr9_+_8396755 Show fit	12.84	ENSDART00000043067	zgc:171776 NCBI UniProt Show fit	zgc:171776
chr24_-_26328721 Show fit	11.68	ENSDART00000125468	apodb NCBI UniProt Show fit	apolipoprotein Db
chr1_-_5542565 Show fit	11.34	ENSDART00000160791 ENSDART00000103754	fn1b NCBI UniProt Show fit	fibronectin 1b
chr7_+_22680560 Show fit	10.63	ENSDART00000133761	ponzr4 NCBI UniProt Show fit	plac8 onzin related protein 4
chr11_-_5865744 Show fit	10.48	ENSDART00000104360	gamt NCBI UniProt Show fit	guanidinoacetate N-methyltransferase
chr17_+_24615091 Show fit	9.35	ENSDART00000064739	rpl13a NCBI UniProt Show fit	ribosomal protein L13a

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
0.8	23.8	GO:0003323	type B pancreatic cell development(GO:0003323)
2.2	15.3	GO:0006953	acute-phase response(GO:0006953)
2.2	13.2	GO:0055014	ventricular cardiac myofibril assembly(GO:0055005) atrial cardiac muscle cell development(GO:0055014)
0.4	12.1	GO:0019835	cytolysis(GO:0019835)
0.4	11.7	GO:0007568	aging(GO:0007568)
0.8	10.6	GO:0006599	phosphagen metabolic process(GO:0006599) phosphocreatine metabolic process(GO:0006603) phosphagen biosynthetic process(GO:0042396) phosphocreatine biosynthetic process(GO:0046314)
3.5	10.5	GO:0006601	creatine metabolic process(GO:0006600) creatine biosynthetic process(GO:0006601)
0.1	10.2	GO:0006487	protein N-linked glycosylation(GO:0006487)
0.1	10.0	GO:0017148	negative regulation of translation(GO:0017148)
0.0	9.8	GO:0006955	immune response(GO:0006955)

Showing 1 to 10 of 128 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	110.6	GO:0005576	extracellular region(GO:0005576)
0.4	19.7	GO:0022627	cytosolic small ribosomal subunit(GO:0022627)
0.9	14.6	GO:0005579	membrane attack complex(GO:0005579)
0.2	10.5	GO:0032580	Golgi cisterna membrane(GO:0032580)
0.2	10.4	GO:0036379	striated muscle thin filament(GO:0005865) myofilament(GO:0036379)
0.1	9.3	GO:0022626	cytosolic ribosome(GO:0022626)
0.4	7.6	GO:0071144	SMAD2-SMAD3 protein complex(GO:0071144)
0.2	7.2	GO:0048770	melanosome(GO:0042470) pigment granule(GO:0048770)
0.6	7.1	GO:0045095	keratin filament(GO:0045095)
0.3	7.0	GO:0009925	basal plasma membrane(GO:0009925)

Showing 1 to 10 of 54 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	25.2	GO:0030246	carbohydrate binding(GO:0030246)
4.0	19.8	GO:0031769	glucagon receptor binding(GO:0031769)
0.1	17.8	GO:0003735	structural constituent of ribosome(GO:0003735)
0.3	12.7	GO:0019843	rRNA binding(GO:0019843)
1.4	11.3	GO:0043394	glycoprotein binding(GO:0001948) proteoglycan binding(GO:0043394)
0.8	10.6	GO:0004111	creatine kinase activity(GO:0004111) phosphotransferase activity, nitrogenous group as acceptor(GO:0016775)
0.1	8.6	GO:0016712	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen(GO:0016712)
0.2	8.3	GO:0008009	chemokine activity(GO:0008009)
0.4	7.6	GO:0070411	I-SMAD binding(GO:0070411)
0.4	7.6	GO:0097153	cysteine-type endopeptidase activity involved in apoptotic process(GO:0097153)

Showing 1 to 10 of 99 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.2	10.5	PID P53 REGULATION PATHWAY	p53 pathway
0.2	7.7	PID HES HEY PATHWAY	Notch-mediated HES/HEY network
0.2	7.1	PID P38 ALPHA BETA DOWNSTREAM PATHWAY	Signaling mediated by p38-alpha and p38-beta
0.4	6.0	PID P38 MK2 PATHWAY	p38 signaling mediated by MAPKAP kinases
0.2	5.9	PID PDGFRA PATHWAY	PDGFR-alpha signaling pathway
0.1	5.3	ST T CELL SIGNAL TRANSDUCTION	T Cell Signal Transduction
0.1	4.9	WNT SIGNALING	Genes related to Wnt-mediated signal transduction
0.1	4.0	PID HIF1 TFPATHWAY	HIF-1-alpha transcription factor network
0.3	3.5	PID NFKAPPAB ATYPICAL PATHWAY	Atypical NF-kappaB pathway
0.2	3.2	PID INTEGRIN A9B1 PATHWAY	Alpha9 beta1 integrin signaling events

Showing 1 to 10 of 21 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.4	19.7	REACTOME FORMATION OF THE TERNARY COMPLEX AND SUBSEQUENTLY THE 43S COMPLEX	Genes involved in Formation of the ternary complex, and subsequently, the 43S complex
0.8	17.9	REACTOME COMPLEMENT CASCADE	Genes involved in Complement cascade
0.4	10.7	REACTOME INTERFERON ALPHA BETA SIGNALING	Genes involved in Interferon alpha/beta signaling
0.1	9.3	REACTOME PEPTIDE CHAIN ELONGATION	Genes involved in Peptide chain elongation
0.3	7.9	REACTOME SPHINGOLIPID DE NOVO BIOSYNTHESIS	Genes involved in Sphingolipid de novo biosynthesis
0.1	7.7	REACTOME FACTORS INVOLVED IN MEGAKARYOCYTE DEVELOPMENT AND PLATELET PRODUCTION	Genes involved in Factors involved in megakaryocyte development and platelet production
0.1	6.3	REACTOME DOWNSTREAM SIGNAL TRANSDUCTION	Genes involved in Downstream signal transduction
0.3	5.7	REACTOME SMOOTH MUSCLE CONTRACTION	Genes involved in Smooth Muscle Contraction
0.5	5.6	REACTOME G2 M DNA DAMAGE CHECKPOINT	Genes involved in G2/M DNA damage checkpoint
0.0	5.4	REACTOME METABOLISM OF AMINO ACIDS AND DERIVATIVES	Genes involved in Metabolism of amino acids and derivatives

Showing 1 to 10 of 37 entries

Results for nkx3-1

Z-value: 1.26

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: