ISMARA results: Tcf3

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Tcf3

Z-value: 1.19

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Transcription factors associated with Tcf3

Gene Symbol	Gene ID	Gene Info
Tcf3 NCBI RGD Ensembl	ENSRNOG00000051499	transcription factor 3

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Tcf3	rn6_v1_chr7_+_12144162_12144162	0.23	3.3e-05	Click!

Activity profile of Tcf3 motif

Sorted Z-values of Tcf3 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr5_-_59025631 Show fit	76.48	ENSRNOT00000049000 ENSRNOT00000022801	Tpm2 NCBI RGD Ensembl Show fit	tropomyosin 2, beta
chr1_+_80321585 Show fit	58.33	ENSRNOT00000022895	Ckm NCBI RGD Ensembl Show fit	creatine kinase, M-type
chr4_+_144382945 Show fit	51.04	ENSRNOT00000007601	Cav3 NCBI RGD Ensembl Show fit	caveolin 3
chr9_+_82556573 Show fit	48.24	ENSRNOT00000026860	Des NCBI RGD Ensembl Show fit	desmin
chr9_+_14529218 Show fit	43.86	ENSRNOT00000016893	Apobec2 NCBI RGD Ensembl Show fit	apolipoprotein B mRNA editing enzyme catalytic subunit 2
chr6_-_26624092 Show fit	42.83	ENSRNOT00000008113	Trim54 NCBI RGD Ensembl Show fit	tripartite motif-containing 54
chr10_-_95934345 Show fit	41.86	ENSRNOT00000004349	Cacng1 NCBI RGD Ensembl Show fit	calcium voltage-gated channel auxiliary subunit gamma 1
chr1_-_254735548 Show fit	40.55	ENSRNOT00000025258	Ankrd1 NCBI RGD Ensembl Show fit	ankyrin repeat domain 1
chr4_-_129619142 Show fit	40.52	ENSRNOT00000047453	Lmod3 NCBI RGD Ensembl Show fit	leiomodin 3
chrX_+_71342775 Show fit	39.97	ENSRNOT00000004888	Itgb1bp2 NCBI RGD Ensembl Show fit	integrin subunit beta 1 binding protein 2

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Tcf3

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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
1.6	98.6	GO:0043462	regulation of ATPase activity(GO:0043462)
1.9	74.0	GO:0003009	skeletal muscle contraction(GO:0003009)
1.1	58.3	GO:0042398	cellular modified amino acid biosynthetic process(GO:0042398)
13.8	55.1	GO:0051725	protein de-ADP-ribosylation(GO:0051725)
3.7	51.9	GO:0071340	skeletal muscle acetylcholine-gated channel clustering(GO:0071340)
12.8	51.0	GO:0035995	detection of muscle stretch(GO:0035995)
1.4	49.0	GO:0007026	negative regulation of microtubule depolymerization(GO:0007026)
1.9	48.2	GO:0045109	intermediate filament organization(GO:0045109)
2.7	47.9	GO:0035994	response to muscle stretch(GO:0035994)
2.5	47.9	GO:2001014	regulation of skeletal muscle cell differentiation(GO:2001014)

Showing 1 to 10 of 189 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.5	172.4	GO:0031674	I band(GO:0031674)
0.1	136.6	GO:0005615	extracellular space(GO:0005615)
2.2	121.2	GO:0031672	A band(GO:0031672)
8.6	102.9	GO:0005861	troponin complex(GO:0005861)
2.0	90.3	GO:0005891	voltage-gated calcium channel complex(GO:0005891)
10.9	76.5	GO:0005862	muscle thin filament tropomyosin(GO:0005862)
3.8	71.8	GO:0016010	dystrophin-associated glycoprotein complex(GO:0016010) glycoprotein complex(GO:0090665)
0.3	53.2	GO:0005802	trans-Golgi network(GO:0005802)
9.6	48.1	GO:0045098	type III intermediate filament(GO:0045098)
5.5	43.7	GO:0005964	phosphorylase kinase complex(GO:0005964)

Showing 1 to 10 of 89 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
4.0	181.8	GO:0008307	structural constituent of muscle(GO:0008307)
0.9	101.2	GO:0005178	integrin binding(GO:0005178)
4.8	67.6	GO:0005523	tropomyosin binding(GO:0005523)
8.3	58.3	GO:0004111	creatine kinase activity(GO:0004111)
6.4	51.0	GO:0071253	connexin binding(GO:0071253)
1.1	50.4	GO:0019213	deacetylase activity(GO:0019213)
7.1	49.5	GO:0031014	troponin T binding(GO:0031014)
7.3	43.9	GO:0004126	cytidine deaminase activity(GO:0004126)
8.7	43.7	GO:0004105	choline-phosphate cytidylyltransferase activity(GO:0004105)
1.3	41.9	GO:0005245	voltage-gated calcium channel activity(GO:0005245)

Showing 1 to 10 of 121 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.9	72.0	PID RB 1PATHWAY	Regulation of retinoblastoma protein
1.9	45.3	PID PDGFRA PATHWAY	PDGFR-alpha signaling pathway
0.2	43.7	NABA ECM GLYCOPROTEINS	Genes encoding structural ECM glycoproteins
0.2	41.1	NABA ECM REGULATORS	Genes encoding enzymes and their regulators involved in the remodeling of the extracellular matrix
0.9	40.5	PID AURORA B PATHWAY	Aurora B signaling
0.7	31.9	PID NCADHERIN PATHWAY	N-cadherin signaling events
0.7	29.6	PID ERBB4 PATHWAY	ErbB4 signaling events
1.4	27.4	PID INTEGRIN5 PATHWAY	Beta5 beta6 beta7 and beta8 integrin cell surface interactions
0.2	25.8	NABA ECM AFFILIATED	Genes encoding proteins affiliated structurally or functionally to extracellular matrix proteins
0.5	22.4	NABA COLLAGENS	Genes encoding collagen proteins

Showing 1 to 10 of 43 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
6.7	261.1	REACTOME STRIATED MUSCLE CONTRACTION	Genes involved in Striated Muscle Contraction
1.8	64.1	REACTOME INTERACTION BETWEEN L1 AND ANKYRINS	Genes involved in Interaction between L1 and Ankyrins
0.3	64.0	REACTOME METABOLISM OF AMINO ACIDS AND DERIVATIVES	Genes involved in Metabolism of amino acids and derivatives
1.2	50.8	REACTOME NCAM1 INTERACTIONS	Genes involved in NCAM1 interactions
0.4	47.0	REACTOME PPARA ACTIVATES GENE EXPRESSION	Genes involved in PPARA Activates Gene Expression
2.2	43.7	REACTOME GLYCOGEN BREAKDOWN GLYCOGENOLYSIS	Genes involved in Glycogen breakdown (glycogenolysis)
1.0	41.5	REACTOME COLLAGEN FORMATION	Genes involved in Collagen formation
4.3	38.7	REACTOME DEFENSINS	Genes involved in Defensins
0.4	29.5	REACTOME INTEGRIN CELL SURFACE INTERACTIONS	Genes involved in Integrin cell surface interactions
1.7	22.1	REACTOME SIGNALING BY ACTIVATED POINT MUTANTS OF FGFR1	Genes involved in Signaling by activated point mutants of FGFR1

Showing 1 to 10 of 52 entries

Results for Tcf3

Z-value: 1.19

Motif logo

Transcription factors associated with Tcf3

Activity-expression correlation:

Activity profile of Tcf3 motif

Sorted Z-values of Tcf3 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Tcf3

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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: