ISMARA results: Rela_Rel

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GSE49485: Hypoxia transcriptome sequencing of rat brain.

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Results for Rela_Rel_Nfkb1

Z-value: 0.62

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Transcription factors associated with Rela_Rel_Nfkb1

Gene Symbol	Gene ID	Gene Info
Rela NCBI RGD Ensembl	ENSRNOG00000030888	RELA proto-oncogene, NF-kB subunit
Rel NCBI RGD Ensembl	ENSRNOG00000054437	REL proto-oncogene, NF-kB subunit
Nfkb1 NCBI RGD Ensembl	ENSRNOG00000023258	nuclear factor kappa B subunit 1

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Nfkb1	rn6_v1_chr2_-_240866689_240866689	-0.73	1.6e-01	Click!
Rel	rn6_v1_chr14_-_108509892_108509892	-0.47	4.2e-01	Click!
Rela	rn6_v1_chr1_+_220992770_220992770	-0.23	7.1e-01	Click!

Activity profile of Rela_Rel_Nfkb1 motif

Sorted Z-values of Rela_Rel_Nfkb1 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr6_-_76270457 Show fit	1.03	ENSRNOT00000009894	Nfkbia NCBI RGD Ensembl Show fit	NFKB inhibitor alpha
chr14_-_18745457 Show fit	0.43	ENSRNOT00000003778	Cxcl1 NCBI RGD Ensembl Show fit	C-X-C motif chemokine ligand 1
chr2_+_189955836 Show fit	0.35	ENSRNOT00000078351	S100a3 NCBI RGD Ensembl Show fit	S100 calcium binding protein A3
chr17_+_76002275 Show fit	0.33	ENSRNOT00000092665 ENSRNOT00000086701	Echdc3 NCBI RGD Ensembl Show fit	enoyl CoA hydratase domain containing 3
chr10_-_85947938 Show fit	0.29	ENSRNOT00000037318 ENSRNOT00000082427	Arl5c NCBI RGD Ensembl Show fit	ADP-ribosylation factor like GTPase 5C
chr1_+_163445527 Show fit	0.27	ENSRNOT00000020520	Lrrc32 NCBI RGD Ensembl Show fit	leucine rich repeat containing 32
chr20_-_4921348 Show fit	0.25	ENSRNOT00000082497 ENSRNOT00000041151	RT1-CE4 NCBI RGD Ensembl Show fit	RT1 class I, locus CE4
chr18_-_28516209 Show fit	0.25	ENSRNOT00000072580	Ecscr NCBI RGD Ensembl Show fit	endothelial cell surface expressed chemotaxis and apoptosis regulator
chr9_-_11114843 Show fit	0.24	ENSRNOT00000072031	Ebi3 NCBI RGD Ensembl Show fit	Epstein-Barr virus induced 3
chr11_+_47243342 Show fit	0.22	ENSRNOT00000041116	Nfkbiz NCBI RGD Ensembl Show fit	NFKB inhibitor zeta

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Rela_Rel_Nfkb1

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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
0.2	1.1	GO:0007253	cytoplasmic sequestering of NF-kappaB(GO:0007253)
0.0	0.6	GO:0070098	chemokine-mediated signaling pathway(GO:0070098)
0.2	0.5	GO:0070949	regulation of neutrophil mediated cytotoxicity(GO:0070948) regulation of neutrophil mediated killing of symbiont cell(GO:0070949)
0.0	0.4	GO:1900745	positive regulation of p38MAPK cascade(GO:1900745)
0.1	0.3	GO:1903093	regulation of protein K48-linked deubiquitination(GO:1903093) negative regulation of protein K48-linked deubiquitination(GO:1903094) negative regulation of ubiquitin-specific protease activity(GO:2000157)
0.0	0.3	GO:0046007	negative regulation of activated T cell proliferation(GO:0046007)
0.0	0.3	GO:0051601	exocyst localization(GO:0051601)
0.1	0.2	GO:0015688	iron chelate transport(GO:0015688) siderophore transport(GO:0015891)
0.1	0.2	GO:0045082	positive regulation of interleukin-10 biosynthetic process(GO:0045082)
0.0	0.2	GO:0045084	positive regulation of interleukin-12 biosynthetic process(GO:0045084)

Showing 1 to 10 of 61 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	1.2	GO:0033256	I-kappaB/NF-kappaB complex(GO:0033256)
0.0	0.3	GO:0042612	MHC class I protein complex(GO:0042612)
0.0	0.2	GO:0043020	NADPH oxidase complex(GO:0043020)
0.0	0.1	GO:0035692	macrophage migration inhibitory factor receptor complex(GO:0035692)
0.0	0.1	GO:0071148	TEAD-1-YAP complex(GO:0071148)
0.0	0.1	GO:1990111	spermatoproteasome complex(GO:1990111)
0.0	0.1	GO:0033010	paranodal junction(GO:0033010)
0.0	0.1	GO:0005927	muscle tendon junction(GO:0005927)
0.0	0.1	GO:0042567	insulin-like growth factor ternary complex(GO:0042567)
0.0	0.1	GO:0045098	type III intermediate filament(GO:0045098)

Showing 1 to 10 of 14 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	1.0	GO:0008139	nuclear localization sequence binding(GO:0008139)
0.1	0.7	GO:0045236	CXCR chemokine receptor binding(GO:0045236)
0.1	0.3	GO:0043120	tumor necrosis factor binding(GO:0043120)
0.1	0.2	GO:0036478	tyrosine 3-monooxygenase activator activity(GO:0036470) L-dopa decarboxylase activator activity(GO:0036478)
0.0	0.2	GO:0016494	C-X-C chemokine receptor activity(GO:0016494)
0.0	0.2	GO:0016175	superoxide-generating NADPH oxidase activity(GO:0016175)
0.0	0.2	GO:0019957	C-C chemokine binding(GO:0019957)
0.0	0.2	GO:0019864	IgG binding(GO:0019864)
0.0	0.1	GO:0042903	tubulin deacetylase activity(GO:0042903)
0.0	0.1	GO:0000253	3-keto sterol reductase activity(GO:0000253)

Showing 1 to 10 of 35 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	1.3	PID NFKAPPAB ATYPICAL PATHWAY	Atypical NF-kappaB pathway
0.0	0.4	PID P38 MKK3 6PATHWAY	p38 MAPK signaling pathway
0.0	0.3	PID IL27 PATHWAY	IL27-mediated signaling events
0.0	0.3	PID IL23 PATHWAY	IL23-mediated signaling events
0.0	0.2	PID TCR JNK PATHWAY	JNK signaling in the CD4+ TCR pathway
0.0	0.1	ST GRANULE CELL SURVIVAL PATHWAY	Granule Cell Survival Pathway is a specific case of more general PAC1 Receptor Pathway.

Showing 1 to 6 of 6 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	1.2	REACTOME CHEMOKINE RECEPTORS BIND CHEMOKINES	Genes involved in Chemokine receptors bind chemokines
0.1	1.0	REACTOME NFKB IS ACTIVATED AND SIGNALS SURVIVAL	Genes involved in NF-kB is activated and signals survival
0.0	0.1	REACTOME NEF MEDIATED DOWNREGULATION OF MHC CLASS I COMPLEX CELL SURFACE EXPRESSION	Genes involved in Nef mediated downregulation of MHC class I complex cell surface expression
0.0	0.0	REACTOME ACTIVATED TAK1 MEDIATES P38 MAPK ACTIVATION	Genes involved in activated TAK1 mediates p38 MAPK activation

Showing 1 to 4 of 4 entries

Results for Rela_Rel_Nfkb1

Z-value: 0.62

Motif logo

Transcription factors associated with Rela_Rel_Nfkb1

Activity-expression correlation:

Activity profile of Rela_Rel_Nfkb1 motif

Sorted Z-values of Rela_Rel_Nfkb1 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Rela_Rel_Nfkb1

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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: