ISMARA results: Hoxb5

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Hoxb5

Z-value: 1.07

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Transcription factors associated with Hoxb5

Gene Symbol	Gene ID	Gene Info
Hoxb5 NCBI RGD Ensembl	ENSRNOG00000008010	homeo box B5

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Hoxb5	rn6_v1_chr10_+_84152152_84152152	-0.09	1.0e-01	Click!

Activity profile of Hoxb5 motif

Sorted Z-values of Hoxb5 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr2_+_164549455 Show fit	169.93	ENSRNOT00000017151	Mlf1 NCBI RGD Ensembl Show fit	myeloid leukemia factor 1
chr15_-_33656089 Show fit	64.53	ENSRNOT00000024186	Myh7 NCBI RGD Ensembl Show fit	myosin heavy chain 7
chr1_-_213650247 Show fit	45.50	ENSRNOT00000019679	Cox8b NCBI RGD Ensembl Show fit	cytochrome c oxidase, subunit VIIIb
chr10_-_45480999 Show fit	40.07	ENSRNOT00000078353 ENSRNOT00000084697 ENSRNOT00000087926	Obscn NCBI RGD Ensembl Show fit	obscurin, cytoskeletal calmodulin and titin-interacting RhoGEF
chr10_-_83898527 Show fit	32.90	ENSRNOT00000009815	Atp5g1 NCBI RGD Ensembl Show fit	ATP synthase, H+ transporting, mitochondrial Fo complex, subunit C1 (subunit 9)
chr4_+_180291389 Show fit	28.75	ENSRNOT00000002465	Sspn NCBI RGD Ensembl Show fit	sarcospan
chr14_-_106393670 Show fit	24.97	ENSRNOT00000011429	Mdh1 NCBI RGD Ensembl Show fit	malate dehydrogenase 1
chr1_+_126523169 Show fit	21.78	ENSRNOT00000051000	Tarsl2 NCBI RGD Ensembl Show fit	threonyl-tRNA synthetase-like 2
chr13_-_82006005 Show fit	19.74	ENSRNOT00000039581	Mettl11b NCBI RGD Ensembl Show fit	methyltransferase like 11B
chrM_+_11736 Show fit	19.57	ENSRNOT00000048767	Mt-nd5 NCBI RGD Ensembl Show fit	mitochondrially encoded NADH dehydrogenase 5

Showing 1 to 10 of 120 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Hoxb5

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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
17.0	169.9	GO:0002318	myeloid progenitor cell differentiation(GO:0002318)
21.5	64.5	GO:1905243	slow-twitch skeletal muscle fiber contraction(GO:0031444) response to 3,3',5-triiodo-L-thyronine(GO:1905242) cellular response to 3,3',5-triiodo-L-thyronine(GO:1905243)
4.9	58.9	GO:0006123	mitochondrial electron transport, cytochrome c to oxygen(GO:0006123)
0.3	40.1	GO:0035023	regulation of Rho protein signal transduction(GO:0035023)
1.2	32.9	GO:0015985	energy coupled proton transport, down electrochemical gradient(GO:0015985) ATP synthesis coupled proton transport(GO:0015986)
4.8	28.8	GO:0034757	negative regulation of iron ion transport(GO:0034757)
2.1	25.0	GO:0006108	malate metabolic process(GO:0006108)
0.0	24.4	GO:0050911	detection of chemical stimulus involved in sensory perception of smell(GO:0050911)
7.3	21.8	GO:0006433	prolyl-tRNA aminoacylation(GO:0006433) threonyl-tRNA aminoacylation(GO:0006435)
6.6	19.7	GO:0006480	N-terminal protein amino acid methylation(GO:0006480)

Showing 1 to 10 of 59 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.9	167.6	GO:0031514	motile cilium(GO:0031514)
5.4	64.5	GO:0005859	muscle myosin complex(GO:0005859)
3.7	58.9	GO:0005751	mitochondrial respiratory chain complex IV(GO:0005751)
0.9	45.7	GO:0030964	mitochondrial respiratory chain complex I(GO:0005747) NADH dehydrogenase complex(GO:0030964) respiratory chain complex I(GO:0045271)
1.7	40.1	GO:0031430	M band(GO:0031430)
2.5	32.9	GO:0000276	mitochondrial proton-transporting ATP synthase complex, coupling factor F(o)(GO:0000276)
0.1	32.2	GO:0043209	myelin sheath(GO:0043209)
1.5	28.7	GO:0016010	dystrophin-associated glycoprotein complex(GO:0016010) glycoprotein complex(GO:0090665)
0.9	24.4	GO:0043194	axon initial segment(GO:0043194)
1.7	21.8	GO:0017101	aminoacyl-tRNA synthetase multienzyme complex(GO:0017101)

Showing 1 to 10 of 35 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	132.7	GO:0019904	protein domain specific binding(GO:0019904)
4.6	64.5	GO:0030898	actin-dependent ATPase activity(GO:0030898)
2.0	58.9	GO:0016676	cytochrome-c oxidase activity(GO:0004129) heme-copper terminal oxidase activity(GO:0015002) oxidoreductase activity, acting on a heme group of donors, oxygen as acceptor(GO:0016676)
2.9	40.1	GO:0031432	titin binding(GO:0031432)
1.3	35.3	GO:0050136	NADH dehydrogenase (ubiquinone) activity(GO:0008137) NADH dehydrogenase (quinone) activity(GO:0050136)
1.6	32.9	GO:0046933	proton-transporting ATP synthase activity, rotational mechanism(GO:0046933)
5.8	28.8	GO:0030283	testosterone dehydrogenase [NAD(P)] activity(GO:0030283)
6.2	25.0	GO:0030060	L-malate dehydrogenase activity(GO:0030060)
7.3	21.8	GO:0004829	proline-tRNA ligase activity(GO:0004827) threonine-tRNA ligase activity(GO:0004829)
6.6	19.7	GO:0071885	N-terminal protein N-methyltransferase activity(GO:0071885)

Showing 1 to 10 of 50 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.6	40.1	PID RHOA REG PATHWAY	Regulation of RhoA activity
0.7	36.6	PID NCADHERIN PATHWAY	N-cadherin signaling events
0.1	16.7	NABA ECM REGULATORS	Genes encoding enzymes and their regulators involved in the remodeling of the extracellular matrix
0.1	13.6	NABA ECM GLYCOPROTEINS	Genes encoding structural ECM glycoproteins
0.3	13.5	PID RAS PATHWAY	Regulation of Ras family activation
0.4	10.2	PID AVB3 OPN PATHWAY	Osteopontin-mediated events
0.2	8.7	PID ARF6 TRAFFICKING PATHWAY	Arf6 trafficking events
0.1	6.5	PID MYC REPRESS PATHWAY	Validated targets of C-MYC transcriptional repression
0.0	4.6	NABA SECRETED FACTORS	Genes encoding secreted soluble factors
0.1	3.1	PID HIF1A PATHWAY	Hypoxic and oxygen homeostasis regulation of HIF-1-alpha

Showing 1 to 10 of 12 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.7	40.1	REACTOME NRAGE SIGNALS DEATH THROUGH JNK	Genes involved in NRAGE signals death through JNK
2.1	32.9	REACTOME FORMATION OF ATP BY CHEMIOSMOTIC COUPLING	Genes involved in Formation of ATP by chemiosmotic coupling
2.4	28.8	REACTOME ANDROGEN BIOSYNTHESIS	Genes involved in Androgen biosynthesis
0.4	27.6	REACTOME RESPIRATORY ELECTRON TRANSPORT	Genes involved in Respiratory electron transport
0.6	25.0	REACTOME GLUCONEOGENESIS	Genes involved in Gluconeogenesis
2.1	18.6	REACTOME GAP JUNCTION DEGRADATION	Genes involved in Gap junction degradation
0.4	15.6	REACTOME INTERACTION BETWEEN L1 AND ANKYRINS	Genes involved in Interaction between L1 and Ankyrins
0.7	13.5	REACTOME SEMA3A PLEXIN REPULSION SIGNALING BY INHIBITING INTEGRIN ADHESION	Genes involved in SEMA3A-Plexin repulsion signaling by inhibiting Integrin adhesion
0.5	12.1	REACTOME CGMP EFFECTS	Genes involved in cGMP effects
0.1	10.2	REACTOME INTEGRIN CELL SURFACE INTERACTIONS	Genes involved in Integrin cell surface interactions

Showing 1 to 10 of 18 entries

Results for Hoxb5

Z-value: 1.07

Motif logo

Transcription factors associated with Hoxb5

Activity-expression correlation:

Activity profile of Hoxb5 motif

Sorted Z-values of Hoxb5 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Hoxb5

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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: