ISMARA results: Hoxa13

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Hoxa13

Z-value: 0.96

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Transcription factors associated with Hoxa13

Gene Symbol	Gene ID	Gene Info
Hoxa13 NCBI RGD Ensembl	ENSRNOG00000057061	homeo box A13

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Hoxa13	rn6_v1_chr4_-_82229397_82229397	0.16	4.7e-03	Click!

Activity profile of Hoxa13 motif

Sorted Z-values of Hoxa13 motif

Top targets:

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr12_-_5773036 Show fit	33.34	ENSRNOT00000041365	Fry NCBI RGD Ensembl Show fit	FRY microtubule binding protein
chr2_+_223029559 Show fit	32.70	ENSRNOT00000045584	AABR07013111.1 NCBI RGD Ensembl Show fit
chr12_-_2438817 Show fit	30.78	ENSRNOT00000037059	Ccl25 NCBI RGD Ensembl Show fit	C-C motif chemokine ligand 25
chr1_+_12915734 Show fit	27.55	ENSRNOT00000089066	Txlnb NCBI RGD Ensembl Show fit	taxilin beta
chr1_-_16687817 Show fit	26.82	ENSRNOT00000091376 ENSRNOT00000081620	Myb NCBI RGD Ensembl Show fit	MYB proto-oncogene, transcription factor
chr17_-_43626538 Show fit	26.12	ENSRNOT00000074292	Hist2h3c2 NCBI RGD Ensembl Show fit	histone cluster 2, H3c2
chr3_-_60166013 Show fit	25.78	ENSRNOT00000024922	Wipf1 NCBI RGD Ensembl Show fit	WAS/WASL interacting protein family, member 1
chr14_-_71814523 Show fit	25.61	ENSRNOT00000004094	Bst1 NCBI RGD Ensembl Show fit	bone marrow stromal cell antigen 1
chr4_-_163445302 Show fit	24.03	ENSRNOT00000087106	Klrc3 NCBI RGD Ensembl Show fit	killer cell lectin-like receptor subfamily C, member 3
chr4_+_78371121 Show fit	23.46	ENSRNOT00000059157	Gimap1 NCBI RGD Ensembl Show fit	GTPase, IMAP family member 1

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Hoxa13

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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
5.9	35.3	GO:0061737	leukotriene signaling pathway(GO:0061737)
8.3	33.3	GO:1904428	negative regulation of tubulin deacetylation(GO:1904428)
1.1	30.9	GO:0006335	DNA replication-dependent nucleosome assembly(GO:0006335) DNA replication-dependent nucleosome organization(GO:0034723)
6.2	30.8	GO:1903237	negative regulation of leukocyte tethering or rolling(GO:1903237)
1.3	27.6	GO:0046827	positive regulation of protein export from nucleus(GO:0046827)
1.4	27.4	GO:0050872	white fat cell differentiation(GO:0050872)
8.9	26.8	GO:2000845	positive regulation of testosterone secretion(GO:2000845)
0.7	25.6	GO:0090022	regulation of neutrophil chemotaxis(GO:0090022)
0.2	24.9	GO:0031032	actomyosin structure organization(GO:0031032)
2.0	24.3	GO:0048739	cardiac muscle fiber development(GO:0048739)

Showing 1 to 10 of 328 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.4	50.2	GO:0030018	Z disc(GO:0030018)
0.1	42.6	GO:0005925	focal adhesion(GO:0005925)
0.6	41.9	GO:0005811	lipid particle(GO:0005811)
0.4	37.9	GO:0005884	actin filament(GO:0005884)
2.1	36.5	GO:0098644	complex of collagen trimers(GO:0098644)
0.3	35.5	GO:0031234	extrinsic component of cytoplasmic side of plasma membrane(GO:0031234)
0.3	33.2	GO:0022625	cytosolic large ribosomal subunit(GO:0022625)
0.6	32.2	GO:0045271	mitochondrial respiratory chain complex I(GO:0005747) NADH dehydrogenase complex(GO:0030964) respiratory chain complex I(GO:0045271)
0.1	28.9	GO:0016607	nuclear speck(GO:0016607)
0.9	26.1	GO:0000788	nuclear nucleosome(GO:0000788)

Showing 1 to 10 of 160 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.2	67.9	GO:0001077	transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding(GO:0001077)
0.2	64.7	GO:0030246	carbohydrate binding(GO:0030246)
0.2	51.3	GO:0003735	structural constituent of ribosome(GO:0003735)
0.7	45.9	GO:0005201	extracellular matrix structural constituent(GO:0005201)
1.0	42.1	GO:0008307	structural constituent of muscle(GO:0008307)
0.2	41.6	GO:0005096	GTPase activator activity(GO:0005096)
0.1	40.2	GO:0005525	GTP binding(GO:0005525)
0.0	37.8	GO:0004930	G-protein coupled receptor activity(GO:0004930)
0.2	33.6	GO:0042393	histone binding(GO:0042393)
10.3	30.8	GO:0031735	CCR10 chemokine receptor binding(GO:0031735)

Showing 1 to 10 of 213 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.1	44.5	PID FRA PATHWAY	Validated transcriptional targets of AP1 family members Fra1 and Fra2
0.5	42.3	PID ERA GENOMIC PATHWAY	Validated nuclear estrogen receptor alpha network
0.7	35.7	PID PI3KCI PATHWAY	Class I PI3K signaling events
0.8	35.1	PID IL2 PI3K PATHWAY	IL2 signaling events mediated by PI3K
1.2	27.6	PID PDGFRA PATHWAY	PDGFR-alpha signaling pathway
0.5	27.1	PID ENDOTHELIN PATHWAY	Endothelins
0.5	24.8	PID FCER1 PATHWAY	Fc-epsilon receptor I signaling in mast cells
0.5	22.3	PID AP1 PATHWAY	AP-1 transcription factor network
0.8	22.1	PID INSULIN GLUCOSE PATHWAY	Insulin-mediated glucose transport
0.1	21.1	NABA SECRETED FACTORS	Genes encoding secreted soluble factors

Showing 1 to 10 of 60 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
4.0	59.8	REACTOME HORMONE SENSITIVE LIPASE HSL MEDIATED TRIACYLGLYCEROL HYDROLYSIS	Genes involved in Hormone-sensitive lipase (HSL)-mediated triacylglycerol hydrolysis
0.3	37.1	REACTOME FACTORS INVOLVED IN MEGAKARYOCYTE DEVELOPMENT AND PLATELET PRODUCTION	Genes involved in Factors involved in megakaryocyte development and platelet production
0.6	30.3	REACTOME CHEMOKINE RECEPTORS BIND CHEMOKINES	Genes involved in Chemokine receptors bind chemokines
0.7	28.5	REACTOME NCAM1 INTERACTIONS	Genes involved in NCAM1 interactions
0.9	24.7	REACTOME GENERATION OF SECOND MESSENGER MOLECULES	Genes involved in Generation of second messenger molecules
0.3	23.3	REACTOME TRANSCRIPTIONAL REGULATION OF WHITE ADIPOCYTE DIFFERENTIATION	Genes involved in Transcriptional Regulation of White Adipocyte Differentiation
1.6	22.9	REACTOME CS DS DEGRADATION	Genes involved in CS/DS degradation
0.2	22.8	REACTOME PEPTIDE CHAIN ELONGATION	Genes involved in Peptide chain elongation
1.4	19.5	REACTOME EICOSANOID LIGAND BINDING RECEPTORS	Genes involved in Eicosanoid ligand-binding receptors
0.1	15.8	REACTOME G ALPHA I SIGNALLING EVENTS	Genes involved in G alpha (i) signalling events

Showing 1 to 10 of 96 entries

Results for Hoxa13

Z-value: 0.96

Motif logo

Transcription factors associated with Hoxa13

Activity-expression correlation:

Activity profile of Hoxa13 motif

Sorted Z-values of Hoxa13 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Hoxa13

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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: