ISMARA results: rx1+rx2

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PRJNA195909:zebrafish embryo and larva development

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Results for rx1+rx2

Z-value: 0.34

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Transcription factors associated with rx1+rx2

Gene Symbol	Gene ID	Gene Info
rx2 NCBI UniProt	ENSDARG00000040321	retinal homeobox gene 2
rx1 NCBI UniProt	ENSDARG00000071684	retinal homeobox gene 1

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
rx2	dr11_v1_chr2_-_55861351_55861351	0.84	5.1e-03	Click!
rx1	dr11_v1_chr22_-_5006801_5006801	0.79	1.1e-02	Click!

Activity profile of rx1+rx2 motif

Sorted Z-values of rx1+rx2 motif

Top targets:

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr4_-_9891874 Show fit	0.69	ENSDART00000067193	adm2a NCBI UniProt Show fit	adrenomedullin 2a
chr18_-_5598958 Show fit	0.54	ENSDART00000161538	cyp1a NCBI UniProt Show fit	cytochrome P450, family 1, subfamily A
chr21_+_6751760 Show fit	0.49	ENSDART00000135914	olfm1b NCBI UniProt Show fit	olfactomedin 1b
chr5_+_32260502 Show fit	0.47	ENSDART00000149020	si:ch211-158m24.12 NCBI UniProt Show fit	si:ch211-158m24.12
chr21_+_6751405 Show fit	0.47	ENSDART00000037265 ENSDART00000146371	olfm1b NCBI UniProt Show fit	olfactomedin 1b
chr8_+_16025554 Show fit	0.43	ENSDART00000110171	elavl4 NCBI UniProt Show fit	ELAV like neuron-specific RNA binding protein 4
chr22_-_10121880 Show fit	0.42	ENSDART00000002348	rdh5 NCBI UniProt Show fit	retinol dehydrogenase 5 (11-cis/9-cis)
chr16_+_23984179 Show fit	0.41	ENSDART00000175879	apoc2 NCBI UniProt Show fit	apolipoprotein C-II
chr21_-_43015383 Show fit	0.40	ENSDART00000065097	dpysl3 NCBI UniProt Show fit	dihydropyrimidinase-like 3
chr23_+_43255328 Show fit	0.38	ENSDART00000102712	tgm2a NCBI UniProt Show fit	transglutaminase 2, C polypeptide A

Showing 1 to 10 of 106 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of rx1+rx2

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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	0.4	GO:1901825	tetraterpenoid metabolic process(GO:0016108) tetraterpenoid biosynthetic process(GO:0016109) carotenoid metabolic process(GO:0016116) carotenoid biosynthetic process(GO:0016117) xanthophyll metabolic process(GO:0016122) xanthophyll biosynthetic process(GO:0016123) zeaxanthin metabolic process(GO:1901825) zeaxanthin biosynthetic process(GO:1901827)
0.1	0.4	GO:0042362	fat-soluble vitamin biosynthetic process(GO:0042362)
0.1	0.4	GO:0042984	amyloid precursor protein biosynthetic process(GO:0042983) regulation of amyloid precursor protein biosynthetic process(GO:0042984)
0.0	0.4	GO:0051491	positive regulation of filopodium assembly(GO:0051491)
0.0	0.4	GO:0042953	lipoprotein transport(GO:0042953) lipoprotein localization(GO:0044872)
0.0	0.4	GO:0018149	peptide cross-linking(GO:0018149)
0.1	0.3	GO:0035019	somatic stem cell population maintenance(GO:0035019) symmetric cell division(GO:0098725)
0.1	0.3	GO:0007585	respiratory gaseous exchange(GO:0007585) regulation of respiratory gaseous exchange(GO:0043576)
0.1	0.3	GO:0002164	larval development(GO:0002164) larval heart development(GO:0007508)
0.0	0.3	GO:0048635	negative regulation of muscle organ development(GO:0048635)

Showing 1 to 10 of 24 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	0.8	GO:0030426	growth cone(GO:0030426)
0.0	0.4	GO:0034362	low-density lipoprotein particle(GO:0034362)
0.1	0.3	GO:0042584	chromaffin granule membrane(GO:0042584)
0.0	0.1	GO:1990246	uniplex complex(GO:1990246)

Showing 1 to 4 of 4 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	0.5	GO:0070330	aromatase activity(GO:0070330)
0.1	0.4	GO:0050251	retinol isomerase activity(GO:0050251) all-trans-retinyl-ester hydrolase, 11-cis retinol forming activity(GO:0052885)
0.0	0.4	GO:0004157	dihydropyrimidinase activity(GO:0004157)
0.0	0.4	GO:0003810	protein-glutamine gamma-glutamyltransferase activity(GO:0003810)
0.1	0.3	GO:0097108	hedgehog family protein binding(GO:0097108)
0.0	0.3	GO:0004392	heme oxygenase (decyclizing) activity(GO:0004392)
0.0	0.3	GO:0016936	galactoside binding(GO:0016936)
0.0	0.3	GO:0038191	neuropilin binding(GO:0038191)
0.0	0.3	GO:0043236	laminin binding(GO:0043236)
0.0	0.3	GO:0005112	Notch binding(GO:0005112)

Showing 1 to 10 of 16 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Total log-likelihood	Term	Description
0.4	PID CONE PATHWAY	Visual signal transduction: Cones
0.3	PID HEDGEHOG 2PATHWAY	Signaling events mediated by the Hedgehog family
0.1	SA FAS SIGNALING	The TNF-type receptor Fas induces apoptosis on ligand binding.

Showing 1 to 3 of 3 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Total log-likelihood	Term	Description
0.4	REACTOME CHYLOMICRON MEDIATED LIPID TRANSPORT	Genes involved in Chylomicron-mediated lipid transport
0.4	REACTOME CRMPS IN SEMA3A SIGNALING	Genes involved in CRMPs in Sema3A signaling
0.3	REACTOME RECEPTOR LIGAND BINDING INITIATES THE SECOND PROTEOLYTIC CLEAVAGE OF NOTCH RECEPTOR	Genes involved in Receptor-ligand binding initiates the second proteolytic cleavage of Notch receptor
0.2	REACTOME LATENT INFECTION OF HOMO SAPIENS WITH MYCOBACTERIUM TUBERCULOSIS	Genes involved in Latent infection of Homo sapiens with Mycobacterium tuberculosis
0.1	REACTOME CHEMOKINE RECEPTORS BIND CHEMOKINES	Genes involved in Chemokine receptors bind chemokines
0.1	REACTOME SEMA3A PAK DEPENDENT AXON REPULSION	Genes involved in Sema3A PAK dependent Axon repulsion
0.1	REACTOME FGFR4 LIGAND BINDING AND ACTIVATION	Genes involved in FGFR4 ligand binding and activation

Showing 1 to 7 of 7 entries

Results for rx1+rx2

Z-value: 0.34

Motif logo

Transcription factors associated with rx1+rx2

Activity-expression correlation:

Activity profile of rx1+rx2 motif

Sorted Z-values of rx1+rx2 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of rx1+rx2

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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: