ISMARA results: Nkx3-2

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Nkx3-2

Z-value: 1.38

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Transcription factors associated with Nkx3-2

Gene Symbol	Gene ID	Gene Info
Nkx3-2 NCBI RGD Ensembl	ENSRNOG00000060782	NK3 homeobox 2

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Nkx3-2	rn6_v1_chr14_+_73813528_73813528	-0.39	3.7e-13	Click!

Activity profile of Nkx3-2 motif

Sorted Z-values of Nkx3-2 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr8_+_45561390 Show fit	45.99	ENSRNOT00000047820	AABR07070043.1 NCBI RGD Ensembl Show fit
chr2_-_200762492 Show fit	35.94	ENSRNOT00000056172	Hsd3b2 NCBI RGD Ensembl Show fit	hydroxy-delta-5-steroid dehydrogenase, 3 beta- and steroid delta-isomerase 2
chr2_-_200762206 Show fit	35.37	ENSRNOT00000068511 ENSRNOT00000086835	Hsd3b2 NCBI RGD Ensembl Show fit	hydroxy-delta-5-steroid dehydrogenase, 3 beta- and steroid delta-isomerase 2
chr5_+_115649046 Show fit	35.08	ENSRNOT00000041328	LOC108351137 NCBI RGD Ensembl Show fit	glyceraldehyde-3-phosphate dehydrogenase
chr5_-_138222534 Show fit	34.64	ENSRNOT00000009691	Zfp691 NCBI RGD Ensembl Show fit	zinc finger protein 691
chr1_-_220136470 Show fit	33.92	ENSRNOT00000026812	Actn3 NCBI RGD Ensembl Show fit	actinin alpha 3
chr17_+_32082937 Show fit	32.67	ENSRNOT00000074775	Mylk4 NCBI RGD Ensembl Show fit	myosin light chain kinase family, member 4
chr4_+_62019970 Show fit	32.20	ENSRNOT00000013133	LOC100910708 NCBI RGD Ensembl Show fit	aldose reductase-related protein 1-like
chr16_+_25773602 Show fit	31.70	ENSRNOT00000047750	Gapdh-ps2 NCBI RGD Ensembl Show fit	glyceraldehyde-3-phosphate dehydrogenase, pseudogene 2
chr11_-_72109964 Show fit	29.99	ENSRNOT00000058917	AABR07034445.1 NCBI RGD Ensembl Show fit

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Nkx3-2

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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	81.2	GO:0007606	sensory perception of chemical stimulus(GO:0007606)
11.9	71.3	GO:0034757	negative regulation of iron ion transport(GO:0034757)
14.8	44.5	GO:0051867	general adaptation syndrome, behavioral process(GO:0051867)
2.3	38.3	GO:0006662	glycerol ether metabolic process(GO:0006662)
11.7	35.1	GO:0035606	peptidyl-cysteine S-trans-nitrosylation(GO:0035606)
11.3	33.9	GO:0031446	regulation of fast-twitch skeletal muscle fiber contraction(GO:0031446) positive regulation of fast-twitch skeletal muscle fiber contraction(GO:0031448) positive regulation of purine nucleotide catabolic process(GO:0033123)
11.2	33.6	GO:1904209	regulation of chemokine (C-C motif) ligand 2 secretion(GO:1904207) positive regulation of chemokine (C-C motif) ligand 2 secretion(GO:1904209)
9.7	29.0	GO:1902304	positive regulation of potassium ion export(GO:1902304)
2.0	26.1	GO:0001778	plasma membrane repair(GO:0001778)
0.5	25.2	GO:0048791	calcium ion-regulated exocytosis of neurotransmitter(GO:0048791)

Showing 1 to 10 of 137 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.6	97.6	GO:0030018	Z disc(GO:0030018)
0.1	81.5	GO:0031966	mitochondrial membrane(GO:0031966)
0.1	77.8	GO:0005739	mitochondrion(GO:0005739)
7.4	44.5	GO:0032280	symmetric synapse(GO:0032280)
4.4	35.1	GO:0097452	GAIT complex(GO:0097452)
0.1	32.1	GO:0000139	Golgi membrane(GO:0000139)
0.1	30.1	GO:0005759	mitochondrial matrix(GO:0005759)
1.0	29.0	GO:0042629	mast cell granule(GO:0042629)
2.7	26.9	GO:0005641	nuclear envelope lumen(GO:0005641)
0.5	26.1	GO:0030315	T-tubule(GO:0030315)

Showing 1 to 10 of 68 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
23.8	71.3	GO:0004769	steroid delta-isomerase activity(GO:0004769)
0.1	65.5	GO:0004984	olfactory receptor activity(GO:0004984)
0.7	45.9	GO:0005544	calcium-dependent phospholipid binding(GO:0005544)
7.4	44.5	GO:0001515	opioid peptide activity(GO:0001515)
0.2	36.8	GO:0044325	ion channel binding(GO:0044325)
8.8	35.1	GO:0004365	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity(GO:0004365) glyceraldehyde-3-phosphate dehydrogenase (NAD(P)+) (phosphorylating) activity(GO:0043891)
1.4	29.0	GO:0051428	peptide hormone receptor binding(GO:0051428)
0.6	26.0	GO:0008307	structural constituent of muscle(GO:0008307)
2.7	24.4	GO:0055056	D-glucose transmembrane transporter activity(GO:0055056)
2.2	24.3	GO:0004653	polypeptide N-acetylgalactosaminyltransferase activity(GO:0004653)

Showing 1 to 10 of 115 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.8	71.1	PID AP1 PATHWAY	AP-1 transcription factor network
0.8	24.4	PID INSULIN GLUCOSE PATHWAY	Insulin-mediated glucose transport
0.3	21.9	PID MYC ACTIV PATHWAY	Validated targets of C-MYC transcriptional activation
0.5	21.7	PID ATF2 PATHWAY	ATF-2 transcription factor network
0.6	19.3	PID FOXM1 PATHWAY	FOXM1 transcription factor network
0.1	19.3	NABA SECRETED FACTORS	Genes encoding secreted soluble factors
0.1	15.9	NABA ECM GLYCOPROTEINS	Genes encoding structural ECM glycoproteins
0.2	11.8	PID TNF PATHWAY	TNF receptor signaling pathway
0.3	11.7	NABA PROTEOGLYCANS	Genes encoding proteoglycans
0.3	10.9	PID LIS1 PATHWAY	Lissencephaly gene (LIS1) in neuronal migration and development

Showing 1 to 10 of 22 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
5.8	69.4	REACTOME ANDROGEN BIOSYNTHESIS	Genes involved in Androgen biosynthesis
1.0	49.7	REACTOME O LINKED GLYCOSYLATION OF MUCINS	Genes involved in O-linked glycosylation of mucins
1.3	36.2	REACTOME YAP1 AND WWTR1 TAZ STIMULATED GENE EXPRESSION	Genes involved in YAP1- and WWTR1 (TAZ)-stimulated gene expression
0.2	36.2	REACTOME PEPTIDE LIGAND BINDING RECEPTORS	Genes involved in Peptide ligand-binding receptors
1.4	24.4	REACTOME FACILITATIVE NA INDEPENDENT GLUCOSE TRANSPORTERS	Genes involved in Facilitative Na+-independent glucose transporters
1.0	21.9	REACTOME PYRUVATE METABOLISM	Genes involved in Pyruvate metabolism
1.5	21.4	REACTOME MITOCHONDRIAL FATTY ACID BETA OXIDATION	Genes involved in Mitochondrial Fatty Acid Beta-Oxidation
0.3	21.0	REACTOME ANTIGEN PROCESSING CROSS PRESENTATION	Genes involved in Antigen processing-Cross presentation
0.1	19.8	REACTOME SIGNALING BY PDGF	Genes involved in Signaling by PDGF
1.5	18.0	REACTOME RECYCLING OF BILE ACIDS AND SALTS	Genes involved in Recycling of bile acids and salts

Showing 1 to 10 of 44 entries

Results for Nkx3-2

Z-value: 1.38

Motif logo

Transcription factors associated with Nkx3-2

Activity-expression correlation:

Activity profile of Nkx3-2 motif

Sorted Z-values of Nkx3-2 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Nkx3-2

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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: