ISMARA results: Gli3

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Gli3_Zic1

Z-value: 1.24

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Transcription factors associated with Gli3_Zic1

Gene Symbol	Gene ID	Gene Info
Gli3 NCBI RGD Ensembl	ENSRNOG00000014395	GLI family zinc finger 3
Zic1 NCBI RGD Ensembl	ENSRNOG00000014644	Zic family member 1

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Zic1	rn6_v1_chr8_-_98738446_98738446	0.67	7.4e-43	Click!
Gli3	rn6_v1_chr17_-_52477575_52477575	0.62	5.8e-35	Click!

Activity profile of Gli3_Zic1 motif

Sorted Z-values of Gli3_Zic1 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr1_-_170397191 Show fit	78.31	ENSRNOT00000090181	Apbb1 NCBI RGD Ensembl Show fit	amyloid beta precursor protein binding family B member 1
chrX_+_71199491 Show fit	69.92	ENSRNOT00000076168 ENSRNOT00000005077 ENSRNOT00000005102	Nlgn3 NCBI RGD Ensembl Show fit	neuroligin 3
chr10_-_27179254 Show fit	64.87	ENSRNOT00000004619	Gabrg2 NCBI RGD Ensembl Show fit	gamma-aminobutyric acid type A receptor gamma 2 subunit
chr3_+_154043873 Show fit	59.06	ENSRNOT00000072502 ENSRNOT00000034166	Nnat NCBI RGD Ensembl Show fit	neuronatin
chr7_-_136853957 Show fit	58.08	ENSRNOT00000008985	Nell2 NCBI RGD Ensembl Show fit	neural EGFL like 2
chr10_+_20320878 Show fit	45.80	ENSRNOT00000009714	Slit3 NCBI RGD Ensembl Show fit	slit guidance ligand 3
chr8_+_55178289 Show fit	44.60	ENSRNOT00000059127	Cryab NCBI RGD Ensembl Show fit	crystallin, alpha B
chr2_-_29768750 Show fit	43.57	ENSRNOT00000023460	Map1b NCBI RGD Ensembl Show fit	microtubule-associated protein 1B
chr10_-_14937336 Show fit	40.03	ENSRNOT00000025494	Sox8 NCBI RGD Ensembl Show fit	SRY box 8
chr2_-_172459165 Show fit	39.00	ENSRNOT00000057473	Schip1 NCBI RGD Ensembl Show fit	schwannomin interacting protein 1

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Gli3_Zic1

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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
6.7	94.4	GO:0071420	cellular response to histamine(GO:0071420)
1.4	78.3	GO:0045739	positive regulation of DNA repair(GO:0045739)
10.0	69.9	GO:0072553	terminal button organization(GO:0072553)
3.5	56.4	GO:0070050	neuron cellular homeostasis(GO:0070050)
2.3	51.5	GO:0005980	glycogen catabolic process(GO:0005980) glucan catabolic process(GO:0009251) cellular polysaccharide catabolic process(GO:0044247)
11.5	45.8	GO:0021834	chemorepulsion involved in embryonic olfactory bulb interneuron precursor migration(GO:0021834)
0.6	45.7	GO:0032024	positive regulation of insulin secretion(GO:0032024)
5.6	44.6	GO:0007021	tubulin complex assembly(GO:0007021)
3.4	43.6	GO:0031915	positive regulation of synaptic plasticity(GO:0031915)
1.1	43.4	GO:0051491	positive regulation of filopodium assembly(GO:0051491)

Showing 1 to 10 of 148 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
4.8	186.5	GO:0060077	inhibitory synapse(GO:0060077)
0.1	107.4	GO:0005739	mitochondrion(GO:0005739)
21.1	84.3	GO:1990812	growth cone lamellipodium(GO:1990761) growth cone filopodium(GO:1990812)
0.4	71.2	GO:0043204	perikaryon(GO:0043204)
1.5	64.7	GO:0044295	axonal growth cone(GO:0044295)
0.2	55.7	GO:0014069	postsynaptic density(GO:0014069) postsynaptic specialization(GO:0099572)
0.3	52.8	GO:0005802	trans-Golgi network(GO:0005802)
5.4	48.8	GO:0097512	cardiac myofibril(GO:0097512)
0.8	47.1	GO:0016529	sarcoplasmic reticulum(GO:0016529)
2.2	43.6	GO:0043196	varicosity(GO:0043196)

Showing 1 to 10 of 87 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
5.0	69.9	GO:0042043	neurexin family protein binding(GO:0042043)
3.2	68.1	GO:0048156	tau protein binding(GO:0048156)
4.6	64.9	GO:0005237	inhibitory extracellular ligand-gated ion channel activity(GO:0005237)
1.0	64.4	GO:0005080	protein kinase C binding(GO:0005080)
2.5	55.9	GO:0005212	structural constituent of eye lens(GO:0005212)
7.4	51.9	GO:0048495	Roundabout binding(GO:0048495)
14.5	43.5	GO:0008184	glycogen phosphorylase activity(GO:0008184)
0.5	39.0	GO:0000979	RNA polymerase II core promoter sequence-specific DNA binding(GO:0000979)
2.9	37.4	GO:0098879	structural constituent of postsynaptic specialization(GO:0098879) structural constituent of postsynaptic density(GO:0098919)
0.4	35.4	GO:0005262	calcium channel activity(GO:0005262)

Showing 1 to 10 of 122 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.6	132.7	NABA ECM GLYCOPROTEINS	Genes encoding structural ECM glycoproteins
0.9	78.0	PID ERA GENOMIC PATHWAY	Validated nuclear estrogen receptor alpha network
1.2	64.2	ST DIFFERENTIATION PATHWAY IN PC12 CELLS	Differentiation Pathway in PC12 Cells; this is a specific case of PAC1 Receptor Pathway.
0.9	41.6	NABA COLLAGENS	Genes encoding collagen proteins
0.4	26.4	PID P75 NTR PATHWAY	p75(NTR)-mediated signaling
1.1	21.5	PID HEDGEHOG 2PATHWAY	Signaling events mediated by the Hedgehog family
0.3	18.4	PID AP1 PATHWAY	AP-1 transcription factor network
0.5	18.0	PID RXR VDR PATHWAY	RXR and RAR heterodimerization with other nuclear receptor
0.1	17.7	PID P53 DOWNSTREAM PATHWAY	Direct p53 effectors
0.6	16.6	PID AVB3 OPN PATHWAY	Osteopontin-mediated events

Showing 1 to 10 of 25 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
5.6	94.4	REACTOME GABA A RECEPTOR ACTIVATION	Genes involved in GABA A receptor activation
2.5	49.3	REACTOME GLYCOGEN BREAKDOWN GLYCOGENOLYSIS	Genes involved in Glycogen breakdown (glycogenolysis)
0.8	44.8	REACTOME NETRIN1 SIGNALING	Genes involved in Netrin-1 signaling
0.7	41.6	REACTOME COLLAGEN FORMATION	Genes involved in Collagen formation
0.4	38.7	REACTOME CLASS B 2 SECRETIN FAMILY RECEPTORS	Genes involved in Class B/2 (Secretin family receptors)
0.5	38.1	REACTOME L1CAM INTERACTIONS	Genes involved in L1CAM interactions
1.1	36.9	REACTOME TIGHT JUNCTION INTERACTIONS	Genes involved in Tight junction interactions
0.5	35.4	REACTOME RESPIRATORY ELECTRON TRANSPORT	Genes involved in Respiratory electron transport
2.7	35.3	REACTOME TANDEM PORE DOMAIN POTASSIUM CHANNELS	Genes involved in Tandem pore domain potassium channels
1.5	31.9	REACTOME REGULATION OF INSULIN LIKE GROWTH FACTOR IGF ACTIVITY BY INSULIN LIKE GROWTH FACTOR BINDING PROTEINS IGFBPS	Genes involved in Regulation of Insulin-like Growth Factor (IGF) Activity by Insulin-like Growth Factor Binding Proteins (IGFBPs)

Showing 1 to 10 of 46 entries

Results for Gli3_Zic1

Z-value: 1.24

Motif logo

Transcription factors associated with Gli3_Zic1

Activity-expression correlation:

Activity profile of Gli3_Zic1 motif

Sorted Z-values of Gli3_Zic1 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Gli3_Zic1

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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: