ISMARA results: Crem

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Crem_Jdp2

Z-value: 1.10

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Transcription factors associated with Crem_Jdp2

Gene Symbol	Gene ID	Gene Info
Crem NCBI RGD Ensembl	ENSRNOG00000014900	cAMP responsive element modulator
Jdp2 NCBI RGD Ensembl	ENSRNOG00000008224	Jun dimerization protein 2

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Crem	rn6_v1_chr17_+_57031766_57031766	-0.56	4.6e-28	Click!
Jdp2	rn6_v1_chr6_+_109466060_109466060	0.39	4.1e-13	Click!

Activity profile of Crem_Jdp2 motif

Sorted Z-values of Crem_Jdp2 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr2_+_189629297 Show fit	72.70	ENSRNOT00000049810	Dennd4b NCBI RGD Ensembl Show fit	DENN domain containing 4B
chr1_-_220467159 Show fit	61.52	ENSRNOT00000075365	Tmem151a NCBI RGD Ensembl Show fit	transmembrane protein 151A
chr1_+_177495782 Show fit	55.28	ENSRNOT00000021020	Tead1 NCBI RGD Ensembl Show fit	TEA domain transcription factor 1
chr1_+_162768156 Show fit	54.82	ENSRNOT00000049321	Pak1 NCBI RGD Ensembl Show fit	p21 (RAC1) activated kinase 1
chr11_-_62451149 Show fit	53.68	ENSRNOT00000093686 ENSRNOT00000081443	Zbtb20 NCBI RGD Ensembl Show fit	zinc finger and BTB domain containing 20
chr9_-_78969013 Show fit	50.71	ENSRNOT00000019772 ENSRNOT00000057585	Fn1 NCBI RGD Ensembl Show fit	fibronectin 1
chr17_+_10463303 Show fit	49.13	ENSRNOT00000060822	Rnf44 NCBI RGD Ensembl Show fit	ring finger protein 44
chr3_+_125428260 Show fit	49.08	ENSRNOT00000028892	Chgb NCBI RGD Ensembl Show fit	chromogranin B
chr16_+_72401887 Show fit	47.67	ENSRNOT00000074449	LOC100910163 NCBI RGD Ensembl Show fit	uncharacterized LOC100910163
chr16_+_72388880 Show fit	43.72	ENSRNOT00000072459	LOC684871 NCBI RGD Ensembl Show fit	similar to Protein C8orf4 (Thyroid cancer protein 1) (TC-1)

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Crem_Jdp2

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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
10.4	72.7	GO:0032483	regulation of Rab protein signal transduction(GO:0032483)
5.0	64.6	GO:0014883	transition between fast and slow fiber(GO:0014883)
1.4	61.3	GO:0045197	establishment or maintenance of epithelial cell apical/basal polarity(GO:0045197)
13.7	54.8	GO:0061534	gamma-aminobutyric acid secretion, neurotransmission(GO:0061534)
1.9	53.7	GO:0032728	positive regulation of interferon-beta production(GO:0032728)
16.9	50.7	GO:0007161	calcium-independent cell-matrix adhesion(GO:0007161) interaction with other organism via secreted substance involved in symbiotic interaction(GO:0052047) regulation of transforming growth factor-beta secretion(GO:2001201)
7.9	47.7	GO:1900019	regulation of protein kinase C activity(GO:1900019) positive regulation of protein kinase C activity(GO:1900020)
1.6	43.5	GO:0070979	protein K11-linked ubiquitination(GO:0070979)
3.1	42.8	GO:0090231	regulation of spindle checkpoint(GO:0090231) regulation of mitotic cell cycle spindle assembly checkpoint(GO:0090266) regulation of mitotic spindle checkpoint(GO:1903504)
4.6	41.3	GO:1990441	negative regulation of transcription from RNA polymerase II promoter in response to endoplasmic reticulum stress(GO:1990441)

Showing 1 to 10 of 235 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	198.2	GO:0005576	extracellular region(GO:0005576)
0.0	150.8	GO:0016020	membrane(GO:0016020)
0.1	147.1	GO:0005739	mitochondrion(GO:0005739)
0.1	131.7	GO:0005615	extracellular space(GO:0005615)
0.1	89.6	GO:0016604	nuclear body(GO:0016604)
0.3	77.3	GO:0045211	postsynaptic membrane(GO:0045211)
0.1	76.3	GO:0005829	cytosol(GO:0005829)
0.6	67.7	GO:0030175	filopodium(GO:0030175)
18.4	55.3	GO:0071148	TEAD-1-YAP complex(GO:0071148)
3.0	54.8	GO:0071437	invadopodium(GO:0071437)

Showing 1 to 10 of 118 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.7	78.3	GO:0017112	Rab guanyl-nucleotide exchange factor activity(GO:0017112)
0.5	74.5	GO:0001078	transcriptional repressor activity, RNA polymerase II core promoter proximal region sequence-specific binding(GO:0001078)
0.2	70.1	GO:0005525	GTP binding(GO:0005525)
0.1	69.5	GO:0005509	calcium ion binding(GO:0005509)
2.5	64.1	GO:0004709	MAP kinase kinase kinase activity(GO:0004709)
2.6	62.3	GO:0005112	Notch binding(GO:0005112)
3.0	60.0	GO:0001134	transcription factor activity, transcription factor recruiting(GO:0001134)
0.2	59.1	GO:0045296	cadherin binding(GO:0045296)
2.6	55.4	GO:0031996	thioesterase binding(GO:0031996)
0.7	54.0	GO:0048306	calcium-dependent protein binding(GO:0048306)

Showing 1 to 10 of 173 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
3.3	103.2	PID EPHA2 FWD PATHWAY	EPHA2 forward signaling
0.7	91.3	PID P53 DOWNSTREAM PATHWAY	Direct p53 effectors
2.0	74.5	PID TCR CALCIUM PATHWAY	Calcium signaling in the CD4+ TCR pathway
2.4	50.7	PID INTEGRIN5 PATHWAY	Beta5 beta6 beta7 and beta8 integrin cell surface interactions
2.2	46.7	PID P38 MK2 PATHWAY	p38 signaling mediated by MAPKAP kinases
1.4	46.0	PID P38 ALPHA BETA PATHWAY	Regulation of p38-alpha and p38-beta
1.0	39.8	SIG REGULATION OF THE ACTIN CYTOSKELETON BY RHO GTPASES	Genes related to regulation of the actin cytoskeleton
1.2	37.4	PID HDAC CLASSIII PATHWAY	Signaling events mediated by HDAC Class III
0.7	37.1	PID TAP63 PATHWAY	Validated transcriptional targets of TAp63 isoforms
0.8	32.4	PID ARF6 PATHWAY	Arf6 signaling events

Showing 1 to 10 of 48 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.4	78.0	REACTOME PEPTIDE LIGAND BINDING RECEPTORS	Genes involved in Peptide ligand-binding receptors
3.9	67.0	REACTOME DSCAM INTERACTIONS	Genes involved in DSCAM interactions
3.1	55.9	REACTOME P130CAS LINKAGE TO MAPK SIGNALING FOR INTEGRINS	Genes involved in p130Cas linkage to MAPK signaling for integrins
2.0	55.3	REACTOME YAP1 AND WWTR1 TAZ STIMULATED GENE EXPRESSION	Genes involved in YAP1- and WWTR1 (TAZ)-stimulated gene expression
0.5	45.8	REACTOME MHC CLASS II ANTIGEN PRESENTATION	Genes involved in MHC class II antigen presentation
0.8	42.5	REACTOME FORMATION OF THE TERNARY COMPLEX AND SUBSEQUENTLY THE 43S COMPLEX	Genes involved in Formation of the ternary complex, and subsequently, the 43S complex
0.3	30.5	REACTOME SIGNALING BY PDGF	Genes involved in Signaling by PDGF
2.0	29.3	REACTOME DOPAMINE NEUROTRANSMITTER RELEASE CYCLE	Genes involved in Dopamine Neurotransmitter Release Cycle
2.0	27.9	REACTOME SPRY REGULATION OF FGF SIGNALING	Genes involved in Spry regulation of FGF signaling
2.4	26.8	REACTOME SIGNAL ATTENUATION	Genes involved in Signal attenuation

Showing 1 to 10 of 65 entries

Results for Crem_Jdp2

Z-value: 1.10

Motif logo

Transcription factors associated with Crem_Jdp2

Activity-expression correlation:

Activity profile of Crem_Jdp2 motif

Sorted Z-values of Crem_Jdp2 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Crem_Jdp2

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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: