ISMARA results: Tgif1

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Tgif1_Meis3

Z-value: 1.74

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Transcription factors associated with Tgif1_Meis3

Gene Symbol	Gene ID	Gene Info
Tgif1 NCBI RGD Ensembl	ENSRNOG00000015906	TGFB-induced factor homeobox 1
Meis3 NCBI RGD Ensembl	ENSRNOG00000021390	Meis homeobox 3

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Tgif1	rn6_v1_chr9_-_119190698_119190698	-0.59	5.7e-32	Click!
Meis3	rn6_v1_chr1_+_78068931_78068931	-0.31	9.7e-09	Click!

Activity profile of Tgif1_Meis3 motif

Sorted Z-values of Tgif1_Meis3 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr15_-_33656089 Show fit	66.02	ENSRNOT00000024186	Myh7 NCBI RGD Ensembl Show fit	myosin heavy chain 7
chr5_+_164808323 Show fit	58.63	ENSRNOT00000011005	Nppa NCBI RGD Ensembl Show fit	natriuretic peptide A
chr7_-_118108864 Show fit	50.88	ENSRNOT00000006184	Mb NCBI RGD Ensembl Show fit	myoglobin
chr2_-_22744407 Show fit	36.52	ENSRNOT00000073710	Cmya5 NCBI RGD Ensembl Show fit	cardiomyopathy associated 5
chr2_-_21437193 Show fit	34.61	ENSRNOT00000084002	Ckmt2 NCBI RGD Ensembl Show fit	creatine kinase, mitochondrial 2
chr1_+_80321585 Show fit	33.69	ENSRNOT00000022895	Ckm NCBI RGD Ensembl Show fit	creatine kinase, M-type
chr3_+_151032952 Show fit	33.44	ENSRNOT00000064013	Acss2 NCBI RGD Ensembl Show fit	acyl-CoA synthetase short-chain family member 2
chr14_-_86147553 Show fit	31.96	ENSRNOT00000085847	Myl7 NCBI RGD Ensembl Show fit	myosin light chain 7
chr14_+_63095720 Show fit	31.42	ENSRNOT00000006071	Ppargc1a NCBI RGD Ensembl Show fit	PPARG coactivator 1 alpha
chr7_-_80796670 Show fit	31.27	ENSRNOT00000010539	Abra NCBI RGD Ensembl Show fit	actin-binding Rho activating protein

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Tgif1_Meis3

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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
0.5	698.9	GO:0050911	detection of chemical stimulus involved in sensory perception of smell(GO:0050911)
39.0	116.9	GO:0031444	slow-twitch skeletal muscle fiber contraction(GO:0031444)
19.2	57.5	GO:1902304	positive regulation of potassium ion export(GO:1902304)
7.7	53.7	GO:0002074	extraocular skeletal muscle development(GO:0002074)
0.3	47.9	GO:0007606	sensory perception of chemical stimulus(GO:0007606)
1.7	47.0	GO:0001580	detection of chemical stimulus involved in sensory perception of bitter taste(GO:0001580)
3.2	44.9	GO:0043252	sodium-independent organic anion transport(GO:0043252)
0.4	44.4	GO:0009408	response to heat(GO:0009408)
3.0	39.0	GO:0001778	plasma membrane repair(GO:0001778)
3.3	36.5	GO:0006123	mitochondrial electron transport, cytochrome c to oxygen(GO:0006123)

Showing 1 to 10 of 640 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	761.8	GO:0016021	integral component of membrane(GO:0016021)
1.2	213.7	GO:0030016	myofibril(GO:0030016)
0.6	172.4	GO:0005743	mitochondrial inner membrane(GO:0005743)
0.1	118.8	GO:0005739	mitochondrion(GO:0005739)
0.5	115.5	GO:0005759	mitochondrial matrix(GO:0005759)
7.1	84.9	GO:0005859	muscle myosin complex(GO:0005859)
0.8	74.2	GO:0031526	brush border membrane(GO:0031526)
1.4	69.1	GO:0030964	mitochondrial respiratory chain complex I(GO:0005747) NADH dehydrogenase complex(GO:0030964) respiratory chain complex I(GO:0045271)
2.2	49.8	GO:0031430	M band(GO:0031430)
1.3	48.4	GO:0043034	costamere(GO:0043034)

Showing 1 to 10 of 243 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.5	464.8	GO:0004984	olfactory receptor activity(GO:0004984)
0.6	240.3	GO:0005549	odorant binding(GO:0005549)
9.8	68.3	GO:0004111	creatine kinase activity(GO:0004111)
4.7	66.0	GO:0030898	actin-dependent ATPase activity(GO:0030898)
0.6	64.4	GO:0016503	pheromone receptor activity(GO:0016503)
2.0	59.8	GO:0015002	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)
2.4	50.8	GO:0051428	peptide hormone receptor binding(GO:0051428)
1.6	50.5	GO:0015020	glucuronosyltransferase activity(GO:0015020)
3.1	46.1	GO:0005344	oxygen transporter activity(GO:0005344)
11.4	45.4	GO:0050682	AF-2 domain binding(GO:0050682)

Showing 1 to 10 of 448 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	81.1	PID HNF3B PATHWAY	FOXA2 and FOXA3 transcription factor networks
2.4	76.4	PID HDAC CLASSIII PATHWAY	Signaling events mediated by HDAC Class III
0.7	49.3	PID AP1 PATHWAY	AP-1 transcription factor network
0.3	45.6	NABA ECM AFFILIATED	Genes encoding proteins affiliated structurally or functionally to extracellular matrix proteins
0.7	38.7	PID HIF1 TFPATHWAY	HIF-1-alpha transcription factor network
1.8	34.2	PID ERBB NETWORK PATHWAY	ErbB receptor signaling network
0.7	33.8	SIG REGULATION OF THE ACTIN CYTOSKELETON BY RHO GTPASES	Genes related to regulation of the actin cytoskeleton
0.7	32.4	PID UPA UPAR PATHWAY	Urokinase-type plasminogen activator (uPA) and uPAR-mediated signaling
0.5	23.3	NABA PROTEOGLYCANS	Genes encoding proteoglycans
0.1	22.2	NABA ECM REGULATORS	Genes encoding enzymes and their regulators involved in the remodeling of the extracellular matrix

Showing 1 to 10 of 84 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	151.7	REACTOME METABOLISM OF AMINO ACIDS AND DERIVATIVES	Genes involved in Metabolism of amino acids and derivatives
2.2	85.1	REACTOME STRIATED MUSCLE CONTRACTION	Genes involved in Striated Muscle Contraction
1.1	69.9	REACTOME RESPIRATORY ELECTRON TRANSPORT	Genes involved in Respiratory electron transport
1.6	65.6	REACTOME GLUCONEOGENESIS	Genes involved in Gluconeogenesis
0.9	59.8	REACTOME NUCLEAR RECEPTOR TRANSCRIPTION PATHWAY	Genes involved in Nuclear Receptor transcription pathway
1.9	54.2	REACTOME YAP1 AND WWTR1 TAZ STIMULATED GENE EXPRESSION	Genes involved in YAP1- and WWTR1 (TAZ)-stimulated gene expression
0.5	53.7	REACTOME TRANSPORT OF INORGANIC CATIONS ANIONS AND AMINO ACIDS OLIGOPEPTIDES	Genes involved in Transport of inorganic cations/anions and amino acids/oligopeptides
4.1	53.3	REACTOME CIRCADIAN REPRESSION OF EXPRESSION BY REV ERBA	Genes involved in Circadian Repression of Expression by REV-ERBA
6.2	50.0	REACTOME ETHANOL OXIDATION	Genes involved in Ethanol oxidation
1.3	37.7	REACTOME GRB2 EVENTS IN ERBB2 SIGNALING	Genes involved in GRB2 events in ERBB2 signaling

Showing 1 to 10 of 142 entries

Results for Tgif1_Meis3

Z-value: 1.74

Motif logo

Transcription factors associated with Tgif1_Meis3

Activity-expression correlation:

Activity profile of Tgif1_Meis3 motif

Sorted Z-values of Tgif1_Meis3 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Tgif1_Meis3

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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: