ISMARA results: Nfkb2

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Nfkb2

Z-value: 0.88

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Transcription factors associated with Nfkb2

Gene Symbol	Gene ID	Gene Info
Nfkb2 NCBI RGD Ensembl	ENSRNOG00000019311	nuclear factor kappa B subunit 2

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Nfkb2	rn6_v1_chr1_+_266053002_266053002	0.77	4.8e-65	Click!

Activity profile of Nfkb2 motif

Sorted Z-values of Nfkb2 motif

Top targets:

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr3_+_18315320 Show fit	35.93	ENSRNOT00000006954	AABR07051626.2 NCBI RGD Ensembl Show fit
chr4_+_69384145 Show fit	31.34	ENSRNOT00000084834	Trbv13-2 NCBI RGD Ensembl Show fit	T cell receptor beta, variable 13-2
chr3_+_18706988 Show fit	30.54	ENSRNOT00000074650	AABR07051652.1 NCBI RGD Ensembl Show fit
chr20_-_4070721 Show fit	30.31	ENSRNOT00000000523	RT1-Ba NCBI RGD Ensembl Show fit	RT1 class II, locus Ba
chr1_-_100537377 Show fit	30.08	ENSRNOT00000026599	Spib NCBI RGD Ensembl Show fit	Spi-B transcription factor
chr2_+_223121410 Show fit	28.10	ENSRNOT00000087559	AABR07013116.1 NCBI RGD Ensembl Show fit
chr3_-_20695952 Show fit	25.45	ENSRNOT00000072306	AABR07051746.1 NCBI RGD Ensembl Show fit
chr20_-_4921348 Show fit	22.87	ENSRNOT00000082497 ENSRNOT00000041151	RT1-CE4 NCBI RGD Ensembl Show fit	RT1 class I, locus CE4
chr1_-_89269930 Show fit	22.20	ENSRNOT00000028532	Ffar2 NCBI RGD Ensembl Show fit	free fatty acid receptor 2
chr20_+_5414448 Show fit	21.52	ENSRNOT00000078972 ENSRNOT00000080900	RT1-A1 NCBI RGD Ensembl Show fit	RT1 class Ia, locus A1

Showing 1 to 10 of 70 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Nfkb2

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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	30.3	GO:0019886	antigen processing and presentation of exogenous peptide antigen via MHC class II(GO:0019886)
0.8	30.1	GO:0030225	macrophage differentiation(GO:0030225)
8.7	26.0	GO:0002876	positive regulation of chronic inflammatory response to antigenic stimulus(GO:0002876)
0.7	22.9	GO:0002474	antigen processing and presentation of peptide antigen via MHC class I(GO:0002474)
0.8	22.5	GO:1902624	positive regulation of neutrophil chemotaxis(GO:0090023) positive regulation of neutrophil migration(GO:1902624)
5.6	22.2	GO:0002232	leukocyte chemotaxis involved in inflammatory response(GO:0002232) cell surface pattern recognition receptor signaling pathway(GO:0002752) regulation of acute inflammatory response to non-antigenic stimulus(GO:0002877)
7.2	21.5	GO:0002462	tolerance induction to nonself antigen(GO:0002462)
7.0	21.1	GO:0000294	nuclear-transcribed mRNA catabolic process, endonucleolytic cleavage-dependent decay(GO:0000294) response to chemokine(GO:1990868) cellular response to chemokine(GO:1990869)
0.5	16.6	GO:1900027	regulation of ruffle assembly(GO:1900027)
1.0	14.3	GO:0032688	negative regulation of interferon-beta production(GO:0032688)

Showing 1 to 10 of 46 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
3.6	57.9	GO:0042612	MHC class I protein complex(GO:0042612)
0.0	41.3	GO:0005615	extracellular space(GO:0005615)
1.9	30.3	GO:0042613	MHC class II protein complex(GO:0042613)
3.0	21.1	GO:0042406	extrinsic component of endoplasmic reticulum membrane(GO:0042406)
0.0	16.6	GO:0005925	focal adhesion(GO:0005925)
1.6	14.3	GO:0033256	I-kappaB/NF-kappaB complex(GO:0033256)
1.5	13.2	GO:0001940	male pronucleus(GO:0001940)
0.8	13.2	GO:0033202	Ino80 complex(GO:0031011) DNA helicase complex(GO:0033202)
0.0	11.6	GO:0009986	cell surface(GO:0009986)
0.2	10.8	GO:0016328	lateral plasma membrane(GO:0016328)

Showing 1 to 10 of 24 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.2	43.8	GO:0042605	peptide antigen binding(GO:0042605)
2.3	31.7	GO:0045236	CXCR chemokine receptor binding(GO:0045236)
0.6	25.5	GO:0001205	transcriptional activator activity, RNA polymerase II distal enhancer sequence-specific binding(GO:0001205)
0.5	22.8	GO:0005164	tumor necrosis factor receptor binding(GO:0005164)
3.1	21.5	GO:0030881	beta-2-microglobulin binding(GO:0030881)
1.9	21.1	GO:0035613	RNA stem-loop binding(GO:0035613)
0.0	17.0	GO:0008289	lipid binding(GO:0008289)
0.1	14.7	GO:0019902	phosphatase binding(GO:0019902)
0.1	14.3	GO:0001047	core promoter binding(GO:0001047)
2.7	13.4	GO:0019862	IgA binding(GO:0019862)

Showing 1 to 10 of 38 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.8	35.9	PID IL2 STAT5 PATHWAY	IL2 signaling events mediated by STAT5
0.5	27.7	PID ILK PATHWAY	Integrin-linked kinase signaling
0.4	16.1	PID NETRIN PATHWAY	Netrin-mediated signaling events
0.3	14.7	PID KIT PATHWAY	Signaling events mediated by Stem cell factor receptor (c-Kit)
0.3	14.3	PID IL12 2PATHWAY	IL12-mediated signaling events
0.4	13.4	PID CD40 PATHWAY	CD40/CD40L signaling
0.2	13.2	PID HES HEY PATHWAY	Notch-mediated HES/HEY network
0.4	13.0	PID RETINOIC ACID PATHWAY	Retinoic acid receptors-mediated signaling
0.0	12.7	NABA SECRETED FACTORS	Genes encoding secreted soluble factors
0.3	9.2	PID IL23 PATHWAY	IL23-mediated signaling events

Showing 1 to 10 of 16 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.6	31.7	REACTOME CHEMOKINE RECEPTORS BIND CHEMOKINES	Genes involved in Chemokine receptors bind chemokines
0.8	31.1	REACTOME GPVI MEDIATED ACTIVATION CASCADE	Genes involved in GPVI-mediated activation cascade
0.1	22.2	REACTOME G ALPHA Q SIGNALLING EVENTS	Genes involved in G alpha (q) signalling events
0.2	13.0	REACTOME NUCLEAR RECEPTOR TRANSCRIPTION PATHWAY	Genes involved in Nuclear Receptor transcription pathway
0.2	10.0	REACTOME INTERFERON GAMMA SIGNALING	Genes involved in Interferon gamma signaling
0.4	6.1	REACTOME CELL EXTRACELLULAR MATRIX INTERACTIONS	Genes involved in Cell-extracellular matrix interactions
0.3	4.9	REACTOME CREB PHOSPHORYLATION THROUGH THE ACTIVATION OF CAMKII	Genes involved in CREB phosphorylation through the activation of CaMKII
0.0	4.1	REACTOME ANTIGEN PROCESSING UBIQUITINATION PROTEASOME DEGRADATION	Genes involved in Antigen processing: Ubiquitination & Proteasome degradation
0.1	3.9	REACTOME SYNTHESIS OF PIPS AT THE PLASMA MEMBRANE	Genes involved in Synthesis of PIPs at the plasma membrane
0.1	1.1	REACTOME SIGNAL ATTENUATION	Genes involved in Signal attenuation

Showing 1 to 10 of 13 entries

Results for Nfkb2

Z-value: 0.88

Motif logo

Transcription factors associated with Nfkb2

Activity-expression correlation:

Activity profile of Nfkb2 motif

Sorted Z-values of Nfkb2 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Nfkb2

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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: