ISMARA results: Atf4

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Atf4

Z-value: 0.87

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Transcription factors associated with Atf4

Gene Symbol	Gene ID	Gene Info
Atf4 NCBI RGD Ensembl	ENSRNOG00000017801	activating transcription factor 4

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Atf4	rn6_v1_chr7_+_121480723_121480723	-0.16	5.1e-03	Click!

Activity profile of Atf4 motif

Sorted Z-values of Atf4 motif

Top targets:

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr7_-_70643169 Show fit	44.36	ENSRNOT00000010106	Inhbe NCBI RGD Ensembl Show fit	inhibin beta E subunit
chr3_+_111160205 Show fit	42.53	ENSRNOT00000019392	Chac1 NCBI RGD Ensembl Show fit	ChaC glutathione-specific gamma-glutamylcyclotransferase 1
chr1_-_101596822 Show fit	31.00	ENSRNOT00000028490	Fgf21 NCBI RGD Ensembl Show fit	fibroblast growth factor 21
chr9_+_74124016 Show fit	30.01	ENSRNOT00000019023	Cps1 NCBI RGD Ensembl Show fit	carbamoyl-phosphate synthase 1
chr10_-_62254287 Show fit	21.53	ENSRNOT00000004313	Serpinf1 NCBI RGD Ensembl Show fit	serpin family F member 1
chr5_-_137372993 Show fit	19.54	ENSRNOT00000092823	Tmem125 NCBI RGD Ensembl Show fit	transmembrane protein 125
chr1_-_194769524 Show fit	16.74	ENSRNOT00000025988	Nupr1 NCBI RGD Ensembl Show fit	nuclear protein 1, transcriptional regulator
chr1_-_198045154 Show fit	15.99	ENSRNOT00000072875	Nupr1l1 NCBI RGD Ensembl Show fit	nuclear protein, transcriptional regulator, 1-like 1
chr7_-_70829815 Show fit	15.85	ENSRNOT00000011082	Shmt2 NCBI RGD Ensembl Show fit	serine hydroxymethyltransferase 2
chr13_+_103300932 Show fit	13.61	ENSRNOT00000085214 ENSRNOT00000038264	Eprs NCBI RGD Ensembl Show fit	glutamyl-prolyl-tRNA synthetase

Showing 1 to 10 of 85 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Atf4

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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
0.8	44.4	GO:0010862	positive regulation of pathway-restricted SMAD protein phosphorylation(GO:0010862)
5.3	42.5	GO:0006751	glutathione catabolic process(GO:0006751)
6.2	31.0	GO:1904640	response to methionine(GO:1904640)
6.0	30.0	GO:0071400	cellular response to oleic acid(GO:0071400)
0.8	25.9	GO:0006418	tRNA aminoacylation for protein translation(GO:0006418)
6.2	24.7	GO:0006419	alanyl-tRNA aminoacylation(GO:0006419)
2.4	21.5	GO:0071279	negative regulation of epithelial cell proliferation involved in prostate gland development(GO:0060770) cellular response to cobalt ion(GO:0071279)
3.5	17.7	GO:0006564	L-serine biosynthetic process(GO:0006564)
1.1	16.7	GO:2000194	regulation of female gonad development(GO:2000194)
4.5	13.6	GO:0006433	prolyl-tRNA aminoacylation(GO:0006433)

Showing 1 to 10 of 52 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	54.2	GO:0005739	mitochondrion(GO:0005739)
0.2	42.5	GO:0005802	trans-Golgi network(GO:0005802)
0.0	37.2	GO:0005615	extracellular space(GO:0005615)
0.6	30.0	GO:0042645	nucleoid(GO:0009295) mitochondrial nucleoid(GO:0042645)
2.1	26.8	GO:0017101	aminoacyl-tRNA synthetase multienzyme complex(GO:0017101)
2.7	21.5	GO:0043203	axon hillock(GO:0043203)
3.2	15.8	GO:0070552	BRISC complex(GO:0070552)
0.0	13.4	GO:0098793	presynapse(GO:0098793)
0.1	12.9	GO:0043679	axon terminus(GO:0043679)
0.2	12.8	GO:0010494	cytoplasmic stress granule(GO:0010494)

Showing 1 to 10 of 31 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.8	44.4	GO:0005160	transforming growth factor beta receptor binding(GO:0005160)
10.6	42.5	GO:0003839	gamma-glutamylcyclotransferase activity(GO:0003839)
0.9	34.1	GO:0016876	aminoacyl-tRNA ligase activity(GO:0004812) ligase activity, forming carbon-oxygen bonds(GO:0016875) ligase activity, forming aminoacyl-tRNA and related compounds(GO:0016876)
1.0	31.0	GO:0005104	fibroblast growth factor receptor binding(GO:0005104)
2.5	30.0	GO:0016884	carbon-nitrogen ligase activity, with glutamine as amido-N-donor(GO:0016884)
6.2	24.7	GO:0004813	alanine-tRNA ligase activity(GO:0004813)
0.2	21.5	GO:0004867	serine-type endopeptidase inhibitor activity(GO:0004867)
0.1	21.1	GO:0005179	hormone activity(GO:0005179)
5.3	15.8	GO:0008732	threonine aldolase activity(GO:0004793) L-allo-threonine aldolase activity(GO:0008732)
4.5	13.6	GO:0004827	proline-tRNA ligase activity(GO:0004827)

Showing 1 to 10 of 48 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.2	72.9	NABA SECRETED FACTORS	Genes encoding secreted soluble factors
0.1	21.4	NABA ECM REGULATORS	Genes encoding enzymes and their regulators involved in the remodeling of the extracellular matrix
0.7	19.0	PID LYMPH ANGIOGENESIS PATHWAY	VEGFR3 signaling in lymphatic endothelium
0.2	7.5	PID UPA UPAR PATHWAY	Urokinase-type plasminogen activator (uPA) and uPAR-mediated signaling
0.1	5.5	PID CMYB PATHWAY	C-MYB transcription factor network
0.2	5.2	ST INTERLEUKIN 4 PATHWAY	Interleukin 4 (IL-4) Pathway
0.1	4.5	PID FRA PATHWAY	Validated transcriptional targets of AP1 family members Fra1 and Fra2
0.1	2.3	PID NETRIN PATHWAY	Netrin-mediated signaling events
0.1	1.4	SA CASPASE CASCADE	Apoptosis is mediated by caspases, cysteine proteases arranged in a proteolytic cascade.
0.0	0.9	PID NEPHRIN NEPH1 PATHWAY	Nephrin/Neph1 signaling in the kidney podocyte

Showing 1 to 10 of 10 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
2.9	77.9	REACTOME CYTOSOLIC TRNA AMINOACYLATION	Genes involved in Cytosolic tRNA aminoacylation
4.4	44.4	REACTOME GLYCOPROTEIN HORMONES	Genes involved in Glycoprotein hormones
0.2	30.0	REACTOME METABOLISM OF AMINO ACIDS AND DERIVATIVES	Genes involved in Metabolism of amino acids and derivatives
1.4	25.3	REACTOME AMINO ACID SYNTHESIS AND INTERCONVERSION TRANSAMINATION	Genes involved in Amino acid synthesis and interconversion (transamination)
0.6	13.4	REACTOME NA CL DEPENDENT NEUROTRANSMITTER TRANSPORTERS	Genes involved in Na+/Cl- dependent neurotransmitter transporters
0.7	12.4	REACTOME P130CAS LINKAGE TO MAPK SIGNALING FOR INTEGRINS	Genes involved in p130Cas linkage to MAPK signaling for integrins
0.2	10.9	REACTOME RESPIRATORY ELECTRON TRANSPORT	Genes involved in Respiratory electron transport
0.5	8.0	REACTOME METABOLISM OF PORPHYRINS	Genes involved in Metabolism of porphyrins
0.5	7.8	REACTOME DSCAM INTERACTIONS	Genes involved in DSCAM interactions
0.4	7.5	REACTOME REGULATION OF INSULIN LIKE GROWTH FACTOR IGF ACTIVITY BY INSULIN LIKE GROWTH FACTOR BINDING PROTEINS IGFBPS	Genes involved in Regulation of Insulin-like Growth Factor (IGF) Activity by Insulin-like Growth Factor Binding Proteins (IGFBPs)

Showing 1 to 10 of 19 entries

Results for Atf4

Z-value: 0.87

Motif logo

Transcription factors associated with Atf4

Activity-expression correlation:

Activity profile of Atf4 motif

Sorted Z-values of Atf4 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Atf4

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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: