ISMARA results: Atf3

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Atf3

Z-value: 1.11

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Transcription factors associated with Atf3

Gene Symbol	Gene ID	Gene Info
Atf3 NCBI RGD Ensembl	ENSRNOG00000003745	activating transcription factor 3

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Atf3	rn6_v1_chr13_-_109844359_109844359	-0.36	4.2e-11	Click!

Activity profile of Atf3 motif

Sorted Z-values of Atf3 motif

Top targets:

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr10_+_82775691 Show fit	34.40	ENSRNOT00000030737	Hils1 NCBI RGD Ensembl Show fit	histone linker H1 domain, spermatid-specific 1
chr2_-_127778202 Show fit	30.53	ENSRNOT00000092191 ENSRNOT00000093683	LOC365778 NCBI RGD Ensembl Show fit	similar to RIKEN cDNA 1700034I23
chr4_+_79055280 Show fit	29.01	ENSRNOT00000086307	Stk31 NCBI RGD Ensembl Show fit	serine threonine kinase 31
chr14_-_21748356 Show fit	28.23	ENSRNOT00000002670	Cabs1 NCBI RGD Ensembl Show fit	calcium binding protein, spermatid associated 1
chr4_+_70977556 Show fit	26.36	ENSRNOT00000031984	LOC680112 NCBI RGD Ensembl Show fit	hypothetical protein LOC680112
chr8_-_115263484 Show fit	25.53	ENSRNOT00000039696 ENSRNOT00000081138	Iqcf3 NCBI RGD Ensembl Show fit	IQ motif containing F3
chr5_+_131719922 Show fit	23.27	ENSRNOT00000010524	Spata6 NCBI RGD Ensembl Show fit	spermatogenesis associated 6
chr8_-_115274165 Show fit	22.84	ENSRNOT00000056386	LOC102550160 NCBI RGD Ensembl Show fit	IQ domain-containing protein F5-like
chr3_+_143129248 Show fit	22.42	ENSRNOT00000006667	Cst8 NCBI RGD Ensembl Show fit	cystatin 8
chr7_+_20462081 Show fit	22.14	ENSRNOT00000088383	AABR07056131.1 NCBI RGD Ensembl Show fit

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Atf3

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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
0.6	164.2	GO:0007283	spermatogenesis(GO:0007283)
1.2	99.9	GO:0030317	sperm motility(GO:0030317)
4.3	85.4	GO:0035404	histone-serine phosphorylation(GO:0035404)
0.8	81.9	GO:0007286	spermatid development(GO:0007286)
1.8	52.0	GO:0030261	chromosome condensation(GO:0030261)
2.9	49.2	GO:0034587	piRNA metabolic process(GO:0034587)
1.5	36.2	GO:0031572	mitotic G2 DNA damage checkpoint(GO:0007095) G2 DNA damage checkpoint(GO:0031572)
3.6	36.0	GO:2000344	positive regulation of acrosome reaction(GO:2000344)
2.5	32.1	GO:0097577	intracellular sequestering of iron ion(GO:0006880) sequestering of iron ion(GO:0097577)
1.4	31.5	GO:0007130	synaptonemal complex assembly(GO:0007130)

Showing 1 to 10 of 488 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.2	166.2	GO:0031514	motile cilium(GO:0031514)
1.2	129.6	GO:0001669	acrosomal vesicle(GO:0001669)
3.7	88.6	GO:0001673	male germ cell nucleus(GO:0001673)
4.2	76.3	GO:0031588	nucleotide-activated protein kinase complex(GO:0031588)
0.2	61.0	GO:0005813	centrosome(GO:0005813)
0.6	53.4	GO:0044815	nucleosome(GO:0000786) DNA packaging complex(GO:0044815)
2.7	51.2	GO:0001520	outer dense fiber(GO:0001520)
1.8	40.3	GO:0002080	acrosomal membrane(GO:0002080)
0.8	36.2	GO:0000777	condensed chromosome kinetochore(GO:0000777)
5.2	31.0	GO:0071547	piP-body(GO:0071547)

Showing 1 to 10 of 222 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	90.9	GO:0003677	DNA binding(GO:0003677)
5.1	76.3	GO:0004679	AMP-activated protein kinase activity(GO:0004679)
0.3	56.7	GO:0042393	histone binding(GO:0042393)
0.7	47.9	GO:0003724	RNA helicase activity(GO:0003724) ATP-dependent RNA helicase activity(GO:0004004)
1.5	46.3	GO:0044183	protein binding involved in protein folding(GO:0044183)
0.4	44.3	GO:0004222	metalloendopeptidase activity(GO:0004222)
0.5	35.6	GO:0004869	cysteine-type endopeptidase inhibitor activity(GO:0004869)
0.1	34.5	GO:0004842	ubiquitin-protein transferase activity(GO:0004842)
1.6	32.1	GO:0008199	ferric iron binding(GO:0008199)
7.3	29.3	GO:0003918	DNA topoisomerase type II (ATP-hydrolyzing) activity(GO:0003918) DNA topoisomerase II activity(GO:0061505)

Showing 1 to 10 of 331 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	47.9	PID FANCONI PATHWAY	Fanconi anemia pathway
0.7	33.4	PID PLK1 PATHWAY	PLK1 signaling events
0.7	24.4	PID MYC PATHWAY	C-MYC pathway
1.7	23.6	ST INTERFERON GAMMA PATHWAY	Interferon gamma pathway.
0.5	16.3	PID AURORA A PATHWAY	Aurora A signaling
0.8	12.0	SA REG CASCADE OF CYCLIN EXPR	Expression of cyclins regulates progression through the cell cycle by activating cyclin-dependent kinases.
0.2	9.4	PID HDAC CLASSII PATHWAY	Signaling events mediated by HDAC Class II
0.2	8.0	PID DELTA NP63 PATHWAY	Validated transcriptional targets of deltaNp63 isoforms
0.4	7.5	PID BARD1 PATHWAY	BARD1 signaling events
0.7	7.2	SA G2 AND M PHASES	Cdc25 activates the cdc2/cyclin B complex to induce the G2/M transition.

Showing 1 to 10 of 32 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.3	65.7	REACTOME ANTIGEN PROCESSING UBIQUITINATION PROTEASOME DEGRADATION	Genes involved in Antigen processing: Ubiquitination & Proteasome degradation
0.9	38.1	REACTOME RNA POL II TRANSCRIPTION PRE INITIATION AND PROMOTER OPENING	Genes involved in RNA Polymerase II Transcription Pre-Initiation And Promoter Opening
0.4	35.7	REACTOME MITOTIC PROMETAPHASE	Genes involved in Mitotic Prometaphase
1.0	31.3	REACTOME MEIOTIC RECOMBINATION	Genes involved in Meiotic Recombination
0.7	30.2	REACTOME DEPOSITION OF NEW CENPA CONTAINING NUCLEOSOMES AT THE CENTROMERE	Genes involved in Deposition of New CENPA-containing Nucleosomes at the Centromere
0.5	26.6	REACTOME LOSS OF NLP FROM MITOTIC CENTROSOMES	Genes involved in Loss of Nlp from mitotic centrosomes
1.3	22.3	REACTOME REPAIR SYNTHESIS FOR GAP FILLING BY DNA POL IN TC NER	Genes involved in Repair synthesis for gap-filling by DNA polymerase in TC-NER
0.6	17.1	REACTOME KINESINS	Genes involved in Kinesins
1.2	15.6	REACTOME IL 6 SIGNALING	Genes involved in Interleukin-6 signaling
0.9	14.8	REACTOME ACETYLCHOLINE NEUROTRANSMITTER RELEASE CYCLE	Genes involved in Acetylcholine Neurotransmitter Release Cycle

Showing 1 to 10 of 77 entries

Results for Atf3

Z-value: 1.11

Motif logo

Transcription factors associated with Atf3

Activity-expression correlation:

Activity profile of Atf3 motif

Sorted Z-values of Atf3 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Atf3

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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: