ISMARA results: Gsx1_Alx1_Mixl1

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Gsx1_Alx1_Mixl1_Lbx2

Z-value: 0.93

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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
Mixl1	rn6_v1_chr13_-_97282299_97282299	0.38	2.6e-12	Click!
Alx1	rn6_v1_chr7_-_44771458_44771458	-0.34	2.4e-10	Click!
Gsx1	rn6_v1_chr12_-_9607168_9607168	0.24	1.5e-05	Click!
Lbx2	rn6_v1_chr4_+_113918740_113918740	0.10	7.1e-02	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
chrX_+_118197217 Show fit	72.40	ENSRNOT00000090922	Htr2c NCBI RGD Ensembl Show fit	5-hydroxytryptamine receptor 2C
chr9_-_30844199 Show fit	68.45	ENSRNOT00000017169	Col19a1 NCBI RGD Ensembl Show fit	collagen type XIX alpha 1 chain
chr12_-_2174131 Show fit	54.66	ENSRNOT00000001313	Pcp2 NCBI RGD Ensembl Show fit	Purkinje cell protein 2
chr11_+_58624198 Show fit	46.11	ENSRNOT00000002091	Gap43 NCBI RGD Ensembl Show fit	growth associated protein 43
chr4_-_55011415 Show fit	43.40	ENSRNOT00000056996	Grm8 NCBI RGD Ensembl Show fit	glutamate metabotropic receptor 8
chr1_+_198383201 Show fit	39.90	ENSRNOT00000037405	Sez6l2 NCBI RGD Ensembl Show fit	seizure related 6 homolog like 2
chr9_+_73418607 Show fit	38.93	ENSRNOT00000092547	Map2 NCBI RGD Ensembl Show fit	microtubule-associated protein 2
chr13_-_76049363 Show fit	36.29	ENSRNOT00000075865 ENSRNOT00000007455	Brinp2 NCBI RGD Ensembl Show fit	BMP/retinoic acid inducible neural specific 2
chr7_-_28711761 Show fit	35.10	ENSRNOT00000006249	Parpbp NCBI RGD Ensembl Show fit	PARP1 binding protein
chr17_-_43807540 Show fit	32.89	ENSRNOT00000074763	LOC684762 NCBI RGD Ensembl Show fit	similar to CG31613-PA

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
0.6	89.6	GO:0007156	homophilic cell adhesion via plasma membrane adhesion molecules(GO:0007156)
28.8	86.4	GO:0007208	phospholipase C-activating serotonin receptor signaling pathway(GO:0007208)
5.4	54.1	GO:0016198	axon choice point recognition(GO:0016198)
6.5	52.0	GO:0016056	rhodopsin mediated signaling pathway(GO:0016056)
3.9	43.4	GO:0007196	adenylate cyclase-inhibiting G-protein coupled glutamate receptor signaling pathway(GO:0007196)
2.1	39.9	GO:0090036	regulation of protein kinase C signaling(GO:0090036)
1.1	38.9	GO:0007026	negative regulation of microtubule depolymerization(GO:0007026)
12.7	38.0	GO:0051867	general adaptation syndrome, behavioral process(GO:0051867)
0.5	37.5	GO:0006334	nucleosome assembly(GO:0006334)
0.5	36.3	GO:0071300	cellular response to retinoic acid(GO:0071300)

Showing 1 to 10 of 256 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.2	138.9	GO:0043025	neuronal cell body(GO:0043025)
0.8	75.9	GO:0042734	presynaptic membrane(GO:0042734)
0.7	72.4	GO:0000786	nucleosome(GO:0000786)
0.2	57.9	GO:0009897	external side of plasma membrane(GO:0009897)
7.1	56.7	GO:0032584	growth cone membrane(GO:0032584)
5.6	50.0	GO:0097442	CA3 pyramidal cell dendrite(GO:0097442)
6.3	38.0	GO:0032280	symmetric synapse(GO:0032280)
0.1	35.5	GO:0005578	proteinaceous extracellular matrix(GO:0005578)
0.3	33.1	GO:0016605	PML body(GO:0016605)
1.5	30.5	GO:0001518	voltage-gated sodium channel complex(GO:0001518)

Showing 1 to 10 of 130 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
28.8	86.4	GO:0071886	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding(GO:0071886)
0.3	78.5	GO:0030695	GTPase regulator activity(GO:0030695)
0.4	57.5	GO:0044325	ion channel binding(GO:0044325)
2.5	56.4	GO:0002162	dystroglycan binding(GO:0002162)
12.3	49.2	GO:0035727	lysophosphatidic acid binding(GO:0035727)
0.2	45.3	GO:0042393	histone binding(GO:0042393)
10.8	43.4	GO:0001642	group III metabotropic glutamate receptor activity(GO:0001642)
3.2	41.7	GO:0030215	semaphorin receptor binding(GO:0030215)
6.3	38.0	GO:0001515	opioid peptide activity(GO:0001515)
0.4	33.5	GO:0001191	transcriptional repressor activity, RNA polymerase II transcription factor binding(GO:0001191)

Showing 1 to 10 of 150 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.5	75.0	NABA COLLAGENS	Genes encoding collagen proteins
1.0	49.0	PID NCADHERIN PATHWAY	N-cadherin signaling events
0.6	38.9	PID LKB1 PATHWAY	LKB1 signaling events
0.8	32.0	PID P38 ALPHA BETA PATHWAY	Regulation of p38-alpha and p38-beta
0.4	29.2	PID AP1 PATHWAY	AP-1 transcription factor network
0.6	20.4	PID RAS PATHWAY	Regulation of Ras family activation
0.3	17.5	PID TRKR PATHWAY	Neurotrophic factor-mediated Trk receptor signaling
0.2	15.1	PID E2F PATHWAY	E2F transcription factor network
0.7	14.1	PID LPA4 PATHWAY	LPA4-mediated signaling events
0.3	14.1	PID P75 NTR PATHWAY	p75(NTR)-mediated signaling

Showing 1 to 10 of 59 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
6.2	86.4	REACTOME SEROTONIN RECEPTORS	Genes involved in Serotonin receptors
2.7	76.0	REACTOME ADHERENS JUNCTIONS INTERACTIONS	Genes involved in Adherens junctions interactions
1.3	75.0	REACTOME COLLAGEN FORMATION	Genes involved in Collagen formation
0.3	46.7	REACTOME PEPTIDE LIGAND BINDING RECEPTORS	Genes involved in Peptide ligand-binding receptors
1.9	42.5	REACTOME CLASS C 3 METABOTROPIC GLUTAMATE PHEROMONE RECEPTORS	Genes involved in Class C/3 (Metabotropic glutamate/pheromone receptors)
0.9	24.1	REACTOME REGULATION OF GENE EXPRESSION IN BETA CELLS	Genes involved in Regulation of gene expression in beta cells
0.4	23.7	REACTOME AMINO ACID AND OLIGOPEPTIDE SLC TRANSPORTERS	Genes involved in Amino acid and oligopeptide SLC transporters
1.1	18.2	REACTOME OTHER SEMAPHORIN INTERACTIONS	Genes involved in Other semaphorin interactions
0.9	17.6	REACTOME RAS ACTIVATION UOPN CA2 INFUX THROUGH NMDA RECEPTOR	Genes involved in Ras activation uopn Ca2+ infux through NMDA receptor
0.6	16.8	REACTOME DARPP 32 EVENTS	Genes involved in DARPP-32 events

Showing 1 to 10 of 80 entries

Results for Gsx1_Alx1_Mixl1_Lbx2

Z-value: 0.93

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: canonical pathways category:

Gene overrepresentation in curated gene sets: REACTOME pathways category: