ISMARA results: Gfi1

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Gfi1_Gfi1b

Z-value: 1.26

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Transcription factors associated with Gfi1_Gfi1b

Gene Symbol	Gene ID	Gene Info
Gfi1 NCBI RGD Ensembl	ENSRNOG00000002042	growth factor independent 1 transcriptional repressor
Gfi1b NCBI RGD Ensembl	ENSRNOG00000011353	growth factor independent 1B transcriptional repressor

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Gfi1	rn6_v1_chr14_+_3058993_3058993	-0.52	3.8e-23	Click!
Gfi1b	rn6_v1_chr3_-_7203420_7203420	-0.33	1.4e-09	Click!

Activity profile of Gfi1_Gfi1b motif

Sorted Z-values of Gfi1_Gfi1b motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr1_+_105349069 Show fit	49.03	ENSRNOT00000056030	Nell1 NCBI RGD Ensembl Show fit	neural EGFL like 1
chr13_+_63526486 Show fit	42.96	ENSRNOT00000003788	Brinp3 NCBI RGD Ensembl Show fit	BMP/retinoic acid inducible neural specific 3
chr5_-_130085838 Show fit	41.46	ENSRNOT00000035252	Elavl4 NCBI RGD Ensembl Show fit	ELAV like RNA binding protein 4
chr1_+_81372650 Show fit	38.07	ENSRNOT00000088829	Zfp428 NCBI RGD Ensembl Show fit	zinc finger protein 428
chr17_-_27969433 Show fit	37.98	ENSRNOT00000073967	Nrn1 NCBI RGD Ensembl Show fit	neuritin 1
chr4_-_40385349 Show fit	34.21	ENSRNOT00000039005	Gpr85 NCBI RGD Ensembl Show fit	G protein-coupled receptor 85
chr11_+_20474483 Show fit	33.79	ENSRNOT00000082417 ENSRNOT00000002895	Ncam2 NCBI RGD Ensembl Show fit	neural cell adhesion molecule 2
chr18_-_18079560 Show fit	32.27	ENSRNOT00000072093	AABR07031533.1 NCBI RGD Ensembl Show fit
chr1_-_150395415 Show fit	30.08	ENSRNOT00000018592	Folh1 NCBI RGD Ensembl Show fit	folate hydrolase 1
chr5_+_22380334 Show fit	29.83	ENSRNOT00000009744	Clvs1 NCBI RGD Ensembl Show fit	clavesin 1

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Gfi1_Gfi1b

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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
0.6	81.9	GO:0007156	homophilic cell adhesion via plasma membrane adhesion molecules(GO:0007156)
3.2	41.1	GO:0033689	negative regulation of osteoblast proliferation(GO:0033689)
0.6	41.0	GO:0042220	response to cocaine(GO:0042220)
0.5	39.9	GO:0071300	cellular response to retinoic acid(GO:0071300)
0.9	37.2	GO:0048791	calcium ion-regulated exocytosis of neurotransmitter(GO:0048791)
0.9	34.0	GO:0007340	acrosome reaction(GO:0007340)
0.2	33.9	GO:1990138	neuron projection extension(GO:1990138)
1.1	33.0	GO:0007413	axonal fasciculation(GO:0007413)
2.8	31.1	GO:0046710	GDP metabolic process(GO:0046710)
5.0	30.1	GO:0035609	C-terminal protein deglutamylation(GO:0035609)

Showing 1 to 10 of 257 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.2	121.2	GO:0043025	neuronal cell body(GO:0043025)
2.5	84.4	GO:0032281	AMPA glutamate receptor complex(GO:0032281)
0.2	74.1	GO:0005635	nuclear envelope(GO:0005635)
0.2	55.9	GO:0030424	axon(GO:0030424)
0.3	52.4	GO:0043204	perikaryon(GO:0043204)
1.8	43.9	GO:0033268	node of Ranvier(GO:0033268)
4.1	41.5	GO:0042788	polysomal ribosome(GO:0042788)
0.2	39.3	GO:0043209	myelin sheath(GO:0043209)
0.8	31.6	GO:0060077	inhibitory synapse(GO:0060077)
0.4	29.8	GO:0099501	synaptic vesicle membrane(GO:0030672) exocytic vesicle membrane(GO:0099501)

Showing 1 to 10 of 122 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.7	46.7	GO:0017091	AU-rich element binding(GO:0017091)
0.2	41.2	GO:0017137	Rab GTPase binding(GO:0017137)
2.1	36.2	GO:0008179	adenylate cyclase binding(GO:0008179)
0.6	35.5	GO:0005080	protein kinase C binding(GO:0005080)
2.5	35.1	GO:0016805	dipeptidase activity(GO:0016805)
3.1	31.1	GO:0004385	guanylate kinase activity(GO:0004385)
1.3	30.2	GO:0080025	phosphatidylinositol-3,5-bisphosphate binding(GO:0080025)
0.1	29.6	GO:0005509	calcium ion binding(GO:0005509)
0.2	25.6	GO:0051015	actin filament binding(GO:0051015)
6.1	24.4	GO:0031750	D3 dopamine receptor binding(GO:0031750)

Showing 1 to 10 of 198 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.5	20.0	NABA PROTEOGLYCANS	Genes encoding proteoglycans
0.5	19.6	SIG CD40PATHWAYMAP	Genes related to CD40 signaling
0.5	18.9	PID NCADHERIN PATHWAY	N-cadherin signaling events
0.2	18.9	PID TRKR PATHWAY	Neurotrophic factor-mediated Trk receptor signaling
0.8	17.0	PID LPA4 PATHWAY	LPA4-mediated signaling events
0.3	16.6	ST INTEGRIN SIGNALING PATHWAY	Integrin Signaling Pathway
0.5	16.3	ST GA12 PATHWAY	G alpha 12 Pathway
0.3	15.5	PID P75 NTR PATHWAY	p75(NTR)-mediated signaling
0.2	15.0	PID HIF1 TFPATHWAY	HIF-1-alpha transcription factor network
0.3	13.3	PID ARF6 TRAFFICKING PATHWAY	Arf6 trafficking events

Showing 1 to 10 of 44 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.6	44.5	REACTOME ADHERENS JUNCTIONS INTERACTIONS	Genes involved in Adherens junctions interactions
1.4	31.5	REACTOME INSULIN SYNTHESIS AND PROCESSING	Genes involved in Insulin Synthesis and Processing
1.6	29.7	REACTOME TRAFFICKING OF GLUR2 CONTAINING AMPA RECEPTORS	Genes involved in Trafficking of GluR2-containing AMPA receptors
1.6	22.9	REACTOME NOREPINEPHRINE NEUROTRANSMITTER RELEASE CYCLE	Genes involved in Norepinephrine Neurotransmitter Release Cycle
0.9	22.7	REACTOME INSULIN RECEPTOR RECYCLING	Genes involved in Insulin receptor recycling
1.4	22.5	REACTOME IONOTROPIC ACTIVITY OF KAINATE RECEPTORS	Genes involved in Ionotropic activity of Kainate Receptors
0.6	22.5	REACTOME G ALPHA Z SIGNALLING EVENTS	Genes involved in G alpha (z) signalling events
0.8	21.2	REACTOME SYNTHESIS OF PC	Genes involved in Synthesis of PC
0.4	21.1	REACTOME L1CAM INTERACTIONS	Genes involved in L1CAM interactions
0.6	20.7	REACTOME INTERACTION BETWEEN L1 AND ANKYRINS	Genes involved in Interaction between L1 and Ankyrins

Showing 1 to 10 of 73 entries

Results for Gfi1_Gfi1b

Z-value: 1.26

Motif logo

Transcription factors associated with Gfi1_Gfi1b

Activity-expression correlation:

Activity profile of Gfi1_Gfi1b motif

Sorted Z-values of Gfi1_Gfi1b motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Gfi1_Gfi1b

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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: