ISMARA results: Gsx1_Alx1_Mixl1

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GSE49485: Hypoxia transcriptome sequencing of rat brain.

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Results for Gsx1_Alx1_Mixl1_Lbx2

Z-value: 0.68

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Transcription factors associated with Gsx1_Alx1_Mixl1_Lbx2

Gene Symbol	Gene ID	Gene Info
Gsx1 NCBI RGD Ensembl	ENSRNOG00000000952	GS homeobox 1
Alx1 NCBI RGD Ensembl	ENSRNOG00000004390	ALX homeobox 1
Mixl1 NCBI RGD Ensembl	ENSRNOG00000003176	Mix paired-like homeobox 1
Lbx2 NCBI RGD Ensembl	ENSRNOG00000052374	ladybird homeobox 2

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Alx1	rn6_v1_chr7_-_44771458_44771458	-0.49	4.1e-01	Click!
Gsx1	rn6_v1_chr12_-_9607168_9607168	-0.35	5.7e-01	Click!
Mixl1	rn6_v1_chr13_-_97282299_97282299	0.19	7.6e-01	Click!

Activity profile of Gsx1_Alx1_Mixl1_Lbx2 motif

Sorted Z-values of Gsx1_Alx1_Mixl1_Lbx2 motif

Top targets:

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr12_-_2174131 Show fit	2.79	ENSRNOT00000001313	Pcp2 NCBI RGD Ensembl Show fit	Purkinje cell protein 2
chr10_-_88670430 Show fit	1.07	ENSRNOT00000025547	Hcrt NCBI RGD Ensembl Show fit	hypocretin neuropeptide precursor
chr4_-_80395502 Show fit	0.96	ENSRNOT00000014437	Npvf NCBI RGD Ensembl Show fit	neuropeptide VF precursor
chr7_-_28711761 Show fit	0.95	ENSRNOT00000006249	Parpbp NCBI RGD Ensembl Show fit	PARP1 binding protein
chr17_-_43807540 Show fit	0.79	ENSRNOT00000074763	LOC684762 NCBI RGD Ensembl Show fit	similar to CG31613-PA
chr7_+_28654733 Show fit	0.59	ENSRNOT00000006174	Pmch NCBI RGD Ensembl Show fit	pro-melanin-concentrating hormone
chr13_-_32427177 Show fit	0.47	ENSRNOT00000044628	Cdh19 NCBI RGD Ensembl Show fit	cadherin 19
chr5_+_50381244 Show fit	0.46	ENSRNOT00000012385	Cga NCBI RGD Ensembl Show fit	glycoprotein hormones, alpha polypeptide
chr6_+_8886591 Show fit	0.42	ENSRNOT00000091510 ENSRNOT00000089174	Six3 NCBI RGD Ensembl Show fit	SIX homeobox 3
chr3_-_66417741 Show fit	0.27	ENSRNOT00000007662	Neurod1 NCBI RGD Ensembl Show fit	neuronal differentiation 1

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Gsx1_Alx1_Mixl1_Lbx2

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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
0.4	2.7	GO:0016056	rhodopsin mediated signaling pathway(GO:0016056)
0.2	1.1	GO:0051970	negative regulation of transmission of nerve impulse(GO:0051970)
0.1	1.0	GO:0032277	negative regulation of gonadotropin secretion(GO:0032277)
0.1	0.9	GO:2000042	negative regulation of double-strand break repair via homologous recombination(GO:2000042)
0.1	0.6	GO:0032227	negative regulation of synaptic transmission, dopaminergic(GO:0032227)
0.1	0.5	GO:0046884	follicle-stimulating hormone secretion(GO:0046884)
0.1	0.4	GO:0014016	neuroblast differentiation(GO:0014016)
0.1	0.3	GO:0051867	general adaptation syndrome, behavioral process(GO:0051867)
0.1	0.3	GO:0060729	intestinal epithelial structure maintenance(GO:0060729)
0.0	0.3	GO:0045109	intermediate filament organization(GO:0045109)

Showing 1 to 10 of 45 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	1.1	GO:0000786	nucleosome(GO:0000786)
0.0	0.3	GO:0032280	symmetric synapse(GO:0032280)
0.1	0.2	GO:0034774	secretory granule lumen(GO:0034774)
0.0	0.2	GO:0071953	elastic fiber(GO:0071953)
0.0	0.2	GO:0031045	dense core granule(GO:0031045)
0.0	0.1	GO:0035577	azurophil granule membrane(GO:0035577)
0.0	0.1	GO:1990005	granular vesicle(GO:1990005)
0.0	0.1	GO:0097413	Lewy body(GO:0097413)
0.0	0.1	GO:0032584	growth cone membrane(GO:0032584)
0.0	0.1	GO:0071438	invadopodium membrane(GO:0071438)

Showing 1 to 10 of 12 entries

Gene overrepresentation in molecular function category:

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Total log-likelihood	Term	Description
2.7	GO:0005085	guanyl-nucleotide exchange factor activity(GO:0005085)
1.3	GO:0005184	neuropeptide hormone activity(GO:0005184)
0.6	GO:0071855	neuropeptide receptor binding(GO:0071855)
0.4	GO:0001222	transcription corepressor binding(GO:0001222)
0.3	GO:0001871	pattern binding(GO:0001871) polysaccharide binding(GO:0030247)
0.2	GO:0016715	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced ascorbate as one donor, and incorporation of one atom of oxygen(GO:0016715)
0.1	GO:0070996	type 1 melanocortin receptor binding(GO:0070996)
0.1	GO:0005111	type 2 fibroblast growth factor receptor binding(GO:0005111)
0.1	GO:0008940	nitrate reductase activity(GO:0008940)
0.1	GO:0000268	peroxisome targeting sequence binding(GO:0000268)

Showing 1 to 10 of 16 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	2.0	REACTOME PEPTIDE LIGAND BINDING RECEPTORS	Genes involved in Peptide ligand-binding receptors
0.1	0.6	REACTOME HORMONE LIGAND BINDING RECEPTORS	Genes involved in Hormone ligand-binding receptors
0.0	0.3	REACTOME AMINE DERIVED HORMONES	Genes involved in Amine-derived hormones
0.0	0.3	REACTOME REGULATION OF GENE EXPRESSION IN BETA CELLS	Genes involved in Regulation of gene expression in beta cells
0.0	0.2	REACTOME REGULATION OF RHEB GTPASE ACTIVITY BY AMPK	Genes involved in Regulation of Rheb GTPase activity by AMPK
0.0	0.2	REACTOME ROLE OF DCC IN REGULATING APOPTOSIS	Genes involved in Role of DCC in regulating apoptosis
0.0	0.2	REACTOME FGFR1 LIGAND BINDING AND ACTIVATION	Genes involved in FGFR1 ligand binding and activation
0.0	0.1	REACTOME ANDROGEN BIOSYNTHESIS	Genes involved in Androgen biosynthesis
0.0	0.1	REACTOME PURINE CATABOLISM	Genes involved in Purine catabolism

Showing 1 to 9 of 9 entries

Results for Gsx1_Alx1_Mixl1_Lbx2

Z-value: 0.68

Motif logo

Transcription factors associated with Gsx1_Alx1_Mixl1_Lbx2

Activity-expression correlation:

Activity profile of Gsx1_Alx1_Mixl1_Lbx2 motif

Sorted Z-values of Gsx1_Alx1_Mixl1_Lbx2 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Gsx1_Alx1_Mixl1_Lbx2

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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: REACTOME pathways category: