ISMARA results: Alx4

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Alx4

Z-value: 0.96

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Transcription factors associated with Alx4

Gene Symbol	Gene ID	Gene Info
Alx4 NCBI RGD Ensembl	ENSRNOG00000000008	ALX homeobox 4

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Alx4	rn6_v1_chr3_+_82548959_82548959	0.29	1.1e-07	Click!

Activity profile of Alx4 motif

Sorted Z-values of Alx4 motif

Top targets:

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr15_+_33606124 Show fit	36.81	ENSRNOT00000065210	AC115371.1 NCBI RGD Ensembl Show fit
chr2_+_248398917 Show fit	31.06	ENSRNOT00000045855	Gbp1 NCBI RGD Ensembl Show fit	guanylate binding protein 1
chr5_-_161981441 Show fit	26.25	ENSRNOT00000020316	Pdpn NCBI RGD Ensembl Show fit	podoplanin
chr5_-_17061837 Show fit	23.66	ENSRNOT00000011892	Penk NCBI RGD Ensembl Show fit	proenkephalin
chr8_-_84506328 Show fit	22.86	ENSRNOT00000064754	Mlip NCBI RGD Ensembl Show fit	muscular LMNA-interacting protein
chr4_-_129619142 Show fit	22.18	ENSRNOT00000047453	Lmod3 NCBI RGD Ensembl Show fit	leiomodin 3
chr8_-_78096302 Show fit	20.99	ENSRNOT00000086185 ENSRNOT00000077999	Myzap NCBI RGD Ensembl Show fit	myocardial zonula adherens protein
chr15_+_87722221 Show fit	20.94	ENSRNOT00000082688	Scel NCBI RGD Ensembl Show fit	sciellin
chr4_+_144382945 Show fit	20.91	ENSRNOT00000007601	Cav3 NCBI RGD Ensembl Show fit	caveolin 3
chr5_-_17061361 Show fit	20.89	ENSRNOT00000089318	Penk NCBI RGD Ensembl Show fit	proenkephalin

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Alx4

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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
14.9	44.6	GO:0051867	general adaptation syndrome, behavioral process(GO:0051867)
5.2	31.1	GO:1900041	negative regulation of interleukin-2 secretion(GO:1900041)
0.3	31.1	GO:0030038	contractile actin filament bundle assembly(GO:0030038) stress fiber assembly(GO:0043149)
3.7	29.5	GO:0015884	folic acid transport(GO:0015884)
7.9	23.7	GO:0006480	N-terminal protein amino acid methylation(GO:0006480)
0.2	23.2	GO:0007156	homophilic cell adhesion via plasma membrane adhesion molecules(GO:0007156)
0.9	22.9	GO:0010614	negative regulation of cardiac muscle hypertrophy(GO:0010614)
2.8	22.2	GO:0051694	pointed-end actin filament capping(GO:0051694)
5.2	20.9	GO:2001288	detection of muscle stretch(GO:0035995) positive regulation of caveolin-mediated endocytosis(GO:2001288)
0.9	19.6	GO:0097435	fibril organization(GO:0097435)

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
7.4	44.6	GO:0032280	symmetric synapse(GO:0032280)
2.2	35.2	GO:0031527	filopodium membrane(GO:0031527)
1.8	34.4	GO:0016010	dystrophin-associated glycoprotein complex(GO:0016010) glycoprotein complex(GO:0090665)
7.8	31.1	GO:0020005	symbiont-containing vacuole membrane(GO:0020005)
0.0	31.1	GO:0005730	nucleolus(GO:0005730)
0.1	29.0	GO:0045202	synapse(GO:0045202)
0.3	25.1	GO:0001725	stress fiber(GO:0001725) contractile actin filament bundle(GO:0097517)
0.2	23.6	GO:0016605	PML body(GO:0016605)
0.1	23.1	GO:0009897	external side of plasma membrane(GO:0009897)
0.2	22.5	GO:0005814	centriole(GO:0005814)

Showing 1 to 10 of 134 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
7.4	44.6	GO:0001515	opioid peptide activity(GO:0001515)
0.4	42.1	GO:0001191	transcriptional repressor activity, RNA polymerase II transcription factor binding(GO:0001191)
0.1	39.6	GO:0030695	GTPase regulator activity(GO:0030695)
0.1	37.4	GO:0004842	ubiquitin-protein transferase activity(GO:0004842)
2.0	35.9	GO:0005523	tropomyosin binding(GO:0005523)
0.3	33.9	GO:0016503	pheromone receptor activity(GO:0016503)
7.8	31.1	GO:0019002	GMP binding(GO:0019002)
3.7	29.5	GO:0008517	folic acid transporter activity(GO:0008517)
0.1	26.9	GO:0003779	actin binding(GO:0003779)
3.0	23.8	GO:0071253	connexin binding(GO:0071253)

Showing 1 to 10 of 166 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	64.2	PID AP1 PATHWAY	AP-1 transcription factor network
0.2	26.0	NABA ECM AFFILIATED	Genes encoding proteins affiliated structurally or functionally to extracellular matrix proteins
0.4	25.8	PID NOTCH PATHWAY	Notch signaling pathway
0.9	20.9	PID PDGFRA PATHWAY	PDGFR-alpha signaling pathway
0.4	16.9	PID P38 ALPHA BETA PATHWAY	Regulation of p38-alpha and p38-beta
0.9	16.8	PID ANTHRAX PATHWAY	Cellular roles of Anthrax toxin
0.1	13.9	NABA ECM GLYCOPROTEINS	Genes encoding structural ECM glycoproteins
0.3	11.8	PID FAK PATHWAY	Signaling events mediated by focal adhesion kinase
0.8	11.7	SA MMP CYTOKINE CONNECTION	Cytokines can induce activation of matrix metalloproteinases, which degrade extracellular matrix.
0.4	11.3	PID INSULIN GLUCOSE PATHWAY	Insulin-mediated glucose transport

Showing 1 to 10 of 56 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.5	31.1	REACTOME INTERFERON GAMMA SIGNALING	Genes involved in Interferon gamma signaling
0.5	21.9	REACTOME CHEMOKINE RECEPTORS BIND CHEMOKINES	Genes involved in Chemokine receptors bind chemokines
0.5	18.8	REACTOME IMMUNOREGULATORY INTERACTIONS BETWEEN A LYMPHOID AND A NON LYMPHOID CELL	Genes involved in Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell
0.1	16.5	REACTOME G ALPHA I SIGNALLING EVENTS	Genes involved in G alpha (i) signalling events
0.9	15.7	REACTOME P130CAS LINKAGE TO MAPK SIGNALING FOR INTEGRINS	Genes involved in p130Cas linkage to MAPK signaling for integrins
0.2	14.2	REACTOME COLLAGEN FORMATION	Genes involved in Collagen formation
0.5	11.3	REACTOME DCC MEDIATED ATTRACTIVE SIGNALING	Genes involved in DCC mediated attractive signaling
0.2	10.5	REACTOME INTEGRIN CELL SURFACE INTERACTIONS	Genes involved in Integrin cell surface interactions
1.3	10.2	REACTOME TRANSLOCATION OF ZAP 70 TO IMMUNOLOGICAL SYNAPSE	Genes involved in Translocation of ZAP-70 to Immunological synapse
0.7	9.9	REACTOME TERMINATION OF O GLYCAN BIOSYNTHESIS	Genes involved in Termination of O-glycan biosynthesis

Showing 1 to 10 of 76 entries

Results for Alx4

Z-value: 0.96

Motif logo

Transcription factors associated with Alx4

Activity-expression correlation:

Activity profile of Alx4 motif

Sorted Z-values of Alx4 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Alx4

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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: