ISMARA results: Lhx2

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Lhx2_Hoxc5

Z-value: 0.80

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Transcription factors associated with Lhx2_Hoxc5

Gene Symbol	Gene ID	Gene Info
Lhx2 NCBI RGD Ensembl	ENSRNOG00000010551	LIM homeobox 2
Hoxc5 NCBI RGD Ensembl	ENSRNOG00000016598	homeo box C5

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Hoxc5	rn6_v1_chr7_+_144628120_144628120	0.40	1.3e-13	Click!
Lhx2	rn6_v1_chr3_+_22640545_22640604	-0.40	1.6e-13	Click!

Activity profile of Lhx2_Hoxc5 motif

Sorted Z-values of Lhx2_Hoxc5 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr3_+_101791337 Show fit	27.70	ENSRNOT00000046937	Slc5a12 NCBI RGD Ensembl Show fit	solute carrier family 5 member 12
chr10_-_34242985 Show fit	22.80	ENSRNOT00000046438	RGD1559575 NCBI RGD Ensembl Show fit	similar to novel protein
chr2_+_200793571 Show fit	19.96	ENSRNOT00000091444	Hao2 NCBI RGD Ensembl Show fit	hydroxyacid oxidase 2
chr3_+_171213936 Show fit	19.59	ENSRNOT00000031586	Pck1 NCBI RGD Ensembl Show fit	phosphoenolpyruvate carboxykinase 1
chr18_-_15089988 Show fit	19.31	ENSRNOT00000074116	Mep1b NCBI RGD Ensembl Show fit	meprin A subunit beta
chr13_-_83457888 Show fit	19.17	ENSRNOT00000076289 ENSRNOT00000004065	Sft2d2 NCBI RGD Ensembl Show fit	SFT2 domain containing 2
chr3_+_159368273 Show fit	18.87	ENSRNOT00000041688	Sgk2 NCBI RGD Ensembl Show fit	serum/glucocorticoid regulated kinase 2
chr1_-_189182306 Show fit	18.77	ENSRNOT00000021249	Gp2 NCBI RGD Ensembl Show fit	glycoprotein 2
chrM_+_9870 Show fit	18.40	ENSRNOT00000044582	Mt-nd4l NCBI RGD Ensembl Show fit	mitochondrially encoded NADH 4L dehydrogenase
chr1_-_189181901 Show fit	16.71	ENSRNOT00000092022	Gp2 NCBI RGD Ensembl Show fit	glycoprotein 2

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Lhx2_Hoxc5

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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
0.1	199.2	GO:0007606	sensory perception of chemical stimulus(GO:0007606)
1.0	43.0	GO:0035456	response to interferon-beta(GO:0035456)
1.0	41.1	GO:0042773	ATP synthesis coupled electron transport(GO:0042773)
8.9	35.5	GO:0002386	immune response in mucosal-associated lymphoid tissue(GO:0002386)
2.6	28.5	GO:0035873	lactate transport(GO:0015727) lactate transmembrane transport(GO:0035873)
8.9	26.6	GO:0016487	sesquiterpenoid catabolic process(GO:0016107) farnesol metabolic process(GO:0016487) farnesol catabolic process(GO:0016488)
2.8	25.1	GO:0052697	xenobiotic glucuronidation(GO:0052697)
1.0	23.9	GO:0006120	mitochondrial electron transport, NADH to ubiquinone(GO:0006120)
0.7	20.2	GO:0015985	energy coupled proton transport, down electrochemical gradient(GO:0015985) ATP synthesis coupled proton transport(GO:0015986)
1.8	20.1	GO:0015747	urate transport(GO:0015747)

Showing 1 to 10 of 485 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	160.2	GO:0070062	extracellular exosome(GO:0070062)
0.0	127.0	GO:0016021	integral component of membrane(GO:0016021)
0.1	69.8	GO:0005789	endoplasmic reticulum membrane(GO:0005789)
0.2	59.7	GO:0005759	mitochondrial matrix(GO:0005759)
1.1	56.1	GO:0030964	mitochondrial respiratory chain complex I(GO:0005747) NADH dehydrogenase complex(GO:0030964) respiratory chain complex I(GO:0045271)
0.6	53.7	GO:0031526	brush border membrane(GO:0031526)
0.3	50.5	GO:0005777	peroxisome(GO:0005777) microbody(GO:0042579)
0.1	29.2	GO:0016323	basolateral plasma membrane(GO:0016323)
0.1	28.4	GO:0009897	external side of plasma membrane(GO:0009897)
0.3	26.4	GO:0005788	endoplasmic reticulum lumen(GO:0005788)

Showing 1 to 10 of 191 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	80.1	GO:0004984	olfactory receptor activity(GO:0004984)
0.7	74.0	GO:0016503	pheromone receptor activity(GO:0016503)
0.2	68.0	GO:0005525	GTP binding(GO:0005525)
2.3	62.1	GO:0008137	NADH dehydrogenase (ubiquinone) activity(GO:0008137) NADH dehydrogenase (quinone) activity(GO:0050136)
0.1	54.5	GO:0005549	odorant binding(GO:0005549)
0.2	47.4	GO:0030246	carbohydrate binding(GO:0030246)
0.6	40.3	GO:0003823	antigen binding(GO:0003823)
3.6	28.5	GO:0015129	lactate transmembrane transporter activity(GO:0015129)
0.1	27.1	GO:0003735	structural constituent of ribosome(GO:0003735)
8.9	26.6	GO:0045550	geranylgeranyl reductase activity(GO:0045550)

Showing 1 to 10 of 334 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	32.9	PID HNF3B PATHWAY	FOXA2 and FOXA3 transcription factor networks
0.2	24.5	PID P53 DOWNSTREAM PATHWAY	Direct p53 effectors
0.4	24.4	PID FCER1 PATHWAY	Fc-epsilon receptor I signaling in mast cells
0.3	22.2	PID HIF1 TFPATHWAY	HIF-1-alpha transcription factor network
0.3	21.6	PID AJDISS 2PATHWAY	Posttranslational regulation of adherens junction stability and dissassembly
1.0	17.9	SA MMP CYTOKINE CONNECTION	Cytokines can induce activation of matrix metalloproteinases, which degrade extracellular matrix.
0.3	13.1	PID MET PATHWAY	Signaling events mediated by Hepatocyte Growth Factor Receptor (c-Met)
0.3	12.9	PID SYNDECAN 1 PATHWAY	Syndecan-1-mediated signaling events
0.1	12.3	NABA ECM GLYCOPROTEINS	Genes encoding structural ECM glycoproteins
0.2	10.9	PID HDAC CLASSI PATHWAY	Signaling events mediated by HDAC Class I

Showing 1 to 10 of 81 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.9	44.2	REACTOME IMMUNOREGULATORY INTERACTIONS BETWEEN A LYMPHOID AND A NON LYMPHOID CELL	Genes involved in Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell
3.3	29.3	REACTOME ABACAVIR TRANSPORT AND METABOLISM	Genes involved in Abacavir transport and metabolism
0.8	24.9	REACTOME GLUTATHIONE CONJUGATION	Genes involved in Glutathione conjugation
0.6	21.9	REACTOME AMINO ACID TRANSPORT ACROSS THE PLASMA MEMBRANE	Genes involved in Amino acid transport across the plasma membrane
0.3	19.5	REACTOME TRANSPORT OF INORGANIC CATIONS ANIONS AND AMINO ACIDS OLIGOPEPTIDES	Genes involved in Transport of inorganic cations/anions and amino acids/oligopeptides
0.5	17.6	REACTOME GLYCOSPHINGOLIPID METABOLISM	Genes involved in Glycosphingolipid metabolism
1.0	15.9	REACTOME ACYL CHAIN REMODELLING OF PS	Genes involved in Acyl chain remodelling of PS
1.2	15.8	REACTOME PYRIMIDINE CATABOLISM	Genes involved in Pyrimidine catabolism
0.8	15.6	REACTOME GLUCURONIDATION	Genes involved in Glucuronidation
1.7	15.4	REACTOME TRYPTOPHAN CATABOLISM	Genes involved in Tryptophan catabolism

Showing 1 to 10 of 126 entries

Results for Lhx2_Hoxc5

Z-value: 0.80

Motif logo

Transcription factors associated with Lhx2_Hoxc5

Activity-expression correlation:

Activity profile of Lhx2_Hoxc5 motif

Sorted Z-values of Lhx2_Hoxc5 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Lhx2_Hoxc5

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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: