ISMARA results: Klf4

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Klf4_Sp3

Z-value: 2.39

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Transcription factors associated with Klf4_Sp3

Gene Symbol	Gene ID	Gene Info
Klf4 NCBI RGD Ensembl	ENSRNOG00000016299	Kruppel like factor 4
Sp3 NCBI RGD Ensembl	ENSRNOG00000060479	Sp3 transcription factor

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Klf4	rn6_v1_chr5_-_72287669_72287669	0.53	2.1e-24	Click!
Sp3	rn6_v1_chr3_-_59688692_59688692	0.42	7.5e-15	Click!

Activity profile of Klf4_Sp3 motif

Sorted Z-values of Klf4_Sp3 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr10_-_56506446 Show fit	128.46	ENSRNOT00000021357	Acap1 NCBI RGD Ensembl Show fit	ArfGAP with coiled-coil, ankyrin repeat and PH domains 1
chr1_-_142615673 Show fit	122.63	ENSRNOT00000018021	Iqgap1 NCBI RGD Ensembl Show fit	IQ motif containing GTPase activating protein 1
chr13_+_52976507 Show fit	96.51	ENSRNOT00000090599 ENSRNOT00000011324	Kif21b NCBI RGD Ensembl Show fit	kinesin family member 21B
chr1_-_80544825 Show fit	89.81	ENSRNOT00000057802 ENSRNOT00000040060 ENSRNOT00000067049 ENSRNOT00000052387 ENSRNOT00000073352	Relb NCBI RGD Ensembl Show fit	RELB proto-oncogene, NF-kB subunit
chr3_-_160802433 Show fit	89.34	ENSRNOT00000076191	Slpi NCBI RGD Ensembl Show fit	secretory leukocyte peptidase inhibitor
chr6_+_43829945 Show fit	87.72	ENSRNOT00000086548	Klf11 NCBI RGD Ensembl Show fit	Kruppel-like factor 11
chr1_-_7064870 Show fit	84.28	ENSRNOT00000019983	Stx11 NCBI RGD Ensembl Show fit	syntaxin 11
chr1_-_47331412 Show fit	83.58	ENSRNOT00000046746	Ezr NCBI RGD Ensembl Show fit	ezrin
chr20_-_22004209 Show fit	81.64	ENSRNOT00000086250 ENSRNOT00000068778	Rtkn2 NCBI RGD Ensembl Show fit	rhotekin 2
chr10_-_37645802 Show fit	76.45	ENSRNOT00000008022	Tcf7 NCBI RGD Ensembl Show fit	transcription factor 7 (T-cell specific, HMG-box)

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Klf4_Sp3

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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
12.6	239.8	GO:0045063	T-helper 1 cell differentiation(GO:0045063)
5.7	215.3	GO:0043551	regulation of phosphatidylinositol 3-kinase activity(GO:0043551)
0.5	189.0	GO:0043547	positive regulation of GTPase activity(GO:0043547)
6.6	178.9	GO:0034723	DNA replication-dependent nucleosome assembly(GO:0006335) DNA replication-dependent nucleosome organization(GO:0034723)
29.3	176.0	GO:1900086	positive regulation of peptidyl-tyrosine autophosphorylation(GO:1900086)
10.8	161.3	GO:0000083	regulation of transcription involved in G1/S transition of mitotic cell cycle(GO:0000083)
4.4	153.7	GO:0045071	negative regulation of viral genome replication(GO:0045071)
30.6	152.8	GO:1902965	regulation of protein localization to early endosome(GO:1902965) positive regulation of protein localization to early endosome(GO:1902966)
26.5	132.7	GO:0002906	mature B cell apoptotic process(GO:0002901) regulation of mature B cell apoptotic process(GO:0002905) negative regulation of mature B cell apoptotic process(GO:0002906)
8.5	127.9	GO:0045579	positive regulation of B cell differentiation(GO:0045579)

Showing 1 to 10 of 1,308 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
3.2	1239.9	GO:0005925	focal adhesion(GO:0005925)
2.8	707.4	GO:0009897	external side of plasma membrane(GO:0009897)
2.5	592.8	GO:0000790	nuclear chromatin(GO:0000790)
5.8	519.7	GO:0032432	actin filament bundle(GO:0032432)
0.2	373.3	GO:0070062	extracellular exosome(GO:0070062)
2.4	286.7	GO:0001650	fibrillar center(GO:0001650)
0.8	273.7	GO:0005764	lytic vacuole(GO:0000323) lysosome(GO:0005764)
2.9	267.4	GO:0016363	nuclear matrix(GO:0016363)
0.2	238.1	GO:0005654	nucleoplasm(GO:0005654)
1.2	232.7	GO:0031965	nuclear membrane(GO:0031965)

Showing 1 to 10 of 403 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.4	549.9	GO:0000975	regulatory region DNA binding(GO:0000975)
2.0	490.2	GO:0005096	GTPase activator activity(GO:0005096)
2.5	459.0	GO:0061135	endopeptidase regulator activity(GO:0061135)
1.6	401.4	GO:0045296	cadherin binding(GO:0045296)
3.0	368.2	GO:0042393	histone binding(GO:0042393)
2.2	325.9	GO:0001047	core promoter binding(GO:0001047)
17.6	317.2	GO:0044548	S100 protein binding(GO:0044548)
2.1	239.7	GO:0001078	transcriptional repressor activity, RNA polymerase II core promoter proximal region sequence-specific binding(GO:0001078)
1.4	238.2	GO:0043565	sequence-specific DNA binding(GO:0043565)
2.2	225.9	GO:0017124	SH3 domain binding(GO:0017124)

Showing 1 to 10 of 649 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
7.7	506.6	PID CD8 TCR PATHWAY	TCR signaling in naïve CD8+ T cells
1.8	378.1	NABA ECM REGULATORS	Genes encoding enzymes and their regulators involved in the remodeling of the extracellular matrix
1.9	279.3	NABA ECM AFFILIATED	Genes encoding proteins affiliated structurally or functionally to extracellular matrix proteins
5.2	257.5	PID TAP63 PATHWAY	Validated transcriptional targets of TAp63 isoforms
6.6	255.5	PID PI3KCI PATHWAY	Class I PI3K signaling events
7.7	245.1	PID NECTIN PATHWAY	Nectin adhesion pathway
8.1	234.8	PID INTEGRIN CS PATHWAY	Integrin family cell surface interactions
2.3	228.3	PID P53 DOWNSTREAM PATHWAY	Direct p53 effectors
5.0	225.4	PID AURORA B PATHWAY	Aurora B signaling
6.4	212.1	PID ARF6 PATHWAY	Arf6 signaling events

Showing 1 to 10 of 145 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
3.1	388.9	REACTOME MRNA SPLICING	Genes involved in mRNA Splicing
2.6	355.3	REACTOME SIGNALING BY RHO GTPASES	Genes involved in Signaling by Rho GTPases
3.9	349.2	REACTOME MITOTIC PROMETAPHASE	Genes involved in Mitotic Prometaphase
6.9	333.0	REACTOME INTERFERON ALPHA BETA SIGNALING	Genes involved in Interferon alpha/beta signaling
2.7	300.8	REACTOME NONSENSE MEDIATED DECAY ENHANCED BY THE EXON JUNCTION COMPLEX	Genes involved in Nonsense Mediated Decay Enhanced by the Exon Junction Complex
3.0	269.8	REACTOME FACTORS INVOLVED IN MEGAKARYOCYTE DEVELOPMENT AND PLATELET PRODUCTION	Genes involved in Factors involved in megakaryocyte development and platelet production
15.6	233.7	REACTOME PD1 SIGNALING	Genes involved in PD-1 signaling
4.0	229.8	REACTOME CELL SURFACE INTERACTIONS AT THE VASCULAR WALL	Genes involved in Cell surface interactions at the vascular wall
8.0	224.7	REACTOME TIGHT JUNCTION INTERACTIONS	Genes involved in Tight junction interactions
9.5	180.7	REACTOME REGULATION OF KIT SIGNALING	Genes involved in Regulation of KIT signaling

Showing 1 to 10 of 188 entries

Results for Klf4_Sp3

Z-value: 2.39

Motif logo

Transcription factors associated with Klf4_Sp3

Activity-expression correlation:

Activity profile of Klf4_Sp3 motif

Sorted Z-values of Klf4_Sp3 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Klf4_Sp3

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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: