ISMARA results: Rela_Rel

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Rela_Rel_Nfkb1

Z-value: 2.66

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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
Rel	rn6_v1_chr14_-_108509892_108509892	0.79	1.1e-70	Click!
Nfkb1	rn6_v1_chr2_-_240866689_240866689	0.65	1.5e-39	Click!
Rela	rn6_v1_chr1_+_220992770_220992770	0.39	5.2e-13	Click!

Activity profile of Rela_Rel_Nfkb1 motif

Sorted Z-values of Rela_Rel_Nfkb1 motif

Top targets:

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr4_-_163049084 Show fit	214.19	ENSRNOT00000091644	Cd69 NCBI RGD Ensembl Show fit	Cd69 molecule
chr18_+_56071478 Show fit	163.29	ENSRNOT00000025344 ENSRNOT00000025354	Cd74 NCBI RGD Ensembl Show fit	CD74 molecule
chr20_-_1878126 Show fit	160.23	ENSRNOT00000000995	Ubd NCBI RGD Ensembl Show fit	ubiquitin D
chr4_+_69384145 Show fit	143.51	ENSRNOT00000084834	Trbv13-2 NCBI RGD Ensembl Show fit	T cell receptor beta, variable 13-2
chr10_-_85947938 Show fit	142.42	ENSRNOT00000037318 ENSRNOT00000082427	Arl5c NCBI RGD Ensembl Show fit	ADP-ribosylation factor like GTPase 5C
chr20_-_4863198 Show fit	138.91	ENSRNOT00000001108	Ltb NCBI RGD Ensembl Show fit	lymphotoxin beta
chr20_+_5184515 Show fit	134.41	ENSRNOT00000089411	LOC103694381 NCBI RGD Ensembl Show fit	lymphotoxin-beta
chr20_-_4863011 Show fit	134.24	ENSRNOT00000079503	Ltb NCBI RGD Ensembl Show fit	lymphotoxin beta
chr13_+_112031594 Show fit	113.96	ENSRNOT00000008440	Lamb3 NCBI RGD Ensembl Show fit	laminin subunit beta 3
chr1_+_266053002 Show fit	106.99	ENSRNOT00000026235	Nfkb2 NCBI RGD Ensembl Show fit	nuclear factor kappa B subunit 2

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
6.5	420.1	GO:0070098	chemokine-mediated signaling pathway(GO:0070098)
19.5	234.6	GO:0001867	complement activation, lectin pathway(GO:0001867)
4.2	175.1	GO:0002474	antigen processing and presentation of peptide antigen via MHC class I(GO:0002474)
32.7	163.3	GO:0002905	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)
20.0	160.2	GO:0070842	aggresome assembly(GO:0070842)
3.2	158.1	GO:0035987	endodermal cell differentiation(GO:0035987)
19.2	134.4	GO:0045084	positive regulation of interleukin-12 biosynthetic process(GO:0045084)
12.0	131.9	GO:0072540	T-helper 17 cell lineage commitment(GO:0072540)
31.2	124.7	GO:0002752	cell surface pattern recognition receptor signaling pathway(GO:0002752)
6.8	115.7	GO:0019886	antigen processing and presentation of exogenous peptide antigen via MHC class II(GO:0019886)

Showing 1 to 10 of 298 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.5	671.5	GO:0005615	extracellular space(GO:0005615)
2.0	618.9	GO:0009897	external side of plasma membrane(GO:0009897)
30.3	272.4	GO:0033256	I-kappaB/NF-kappaB complex(GO:0033256)
0.1	202.8	GO:0005654	nucleoplasm(GO:0005654)
54.4	163.3	GO:0035692	macrophage migration inhibitory factor receptor complex(GO:0035692)
2.8	137.0	GO:0016235	aggresome(GO:0016235)
12.7	114.0	GO:0005610	laminin-5 complex(GO:0005610)
7.1	105.8	GO:0042613	MHC class II protein complex(GO:0042613)
0.3	103.7	GO:0005925	focal adhesion(GO:0005925)
6.1	98.2	GO:0042612	MHC class I protein complex(GO:0042612)

Showing 1 to 10 of 134 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
61.5	307.6	GO:0043120	tumor necrosis factor binding(GO:0043120)
0.9	275.1	GO:0001077	transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding(GO:0001077)
0.7	229.0	GO:0030246	carbohydrate binding(GO:0030246)
5.1	212.5	GO:0042605	peptide antigen binding(GO:0042605)
4.2	173.9	GO:0005164	tumor necrosis factor receptor binding(GO:0005164)
9.3	166.5	GO:0070628	proteasome binding(GO:0070628)
11.7	164.5	GO:0016493	C-C chemokine receptor activity(GO:0016493)
27.2	163.3	GO:0042289	MHC class II protein binding(GO:0042289)
18.1	163.0	GO:0045236	CXCR chemokine receptor binding(GO:0045236)
14.4	129.3	GO:0016494	C-X-C chemokine receptor activity(GO:0016494)

Showing 1 to 10 of 214 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.4	409.8	NABA SECRETED FACTORS	Genes encoding secreted soluble factors
8.8	291.9	ST TUMOR NECROSIS FACTOR PATHWAY	Tumor Necrosis Factor Pathway.
3.7	148.3	PID IL23 PATHWAY	IL23-mediated signaling events
3.3	141.6	PID IL12 2PATHWAY	IL12-mediated signaling events
3.6	132.7	PID SYNDECAN 4 PATHWAY	Syndecan-4-mediated signaling events
6.7	114.0	PID INTEGRIN4 PATHWAY	Alpha6 beta4 integrin-ligand interactions
3.2	100.9	PID CXCR3 PATHWAY	CXCR3-mediated signaling events
8.4	92.9	PID TCR JNK PATHWAY	JNK signaling in the CD4+ TCR pathway
3.3	82.8	PID CD40 PATHWAY	CD40/CD40L signaling
3.1	82.5	PID THROMBIN PAR1 PATHWAY	PAR1-mediated thrombin signaling events

Showing 1 to 10 of 66 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
13.7	686.0	REACTOME CHEMOKINE RECEPTORS BIND CHEMOKINES	Genes involved in Chemokine receptors bind chemokines
11.3	191.4	REACTOME RIP MEDIATED NFKB ACTIVATION VIA DAI	Genes involved in RIP-mediated NFkB activation via DAI
1.5	130.3	REACTOME MHC CLASS II ANTIGEN PRESENTATION	Genes involved in MHC class II antigen presentation
2.3	114.4	REACTOME IMMUNOREGULATORY INTERACTIONS BETWEEN A LYMPHOID AND A NON LYMPHOID CELL	Genes involved in Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell
3.8	107.6	REACTOME CD28 DEPENDENT PI3K AKT SIGNALING	Genes involved in CD28 dependent PI3K/Akt signaling
2.8	96.2	REACTOME NOD1 2 SIGNALING PATHWAY	Genes involved in NOD1/2 Signaling Pathway
4.0	88.3	REACTOME ACTIVATION OF BH3 ONLY PROTEINS	Genes involved in Activation of BH3-only proteins
1.0	81.9	REACTOME CELL JUNCTION ORGANIZATION	Genes involved in Cell junction organization
0.3	60.8	REACTOME G ALPHA Q SIGNALLING EVENTS	Genes involved in G alpha (q) signalling events
3.3	60.3	REACTOME REGULATION OF IFNG SIGNALING	Genes involved in Regulation of IFNG signaling

Showing 1 to 10 of 83 entries

Results for Rela_Rel_Nfkb1

Z-value: 2.66

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: