ISMARA results: Gcm2

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Gcm2

Z-value: 1.98

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Transcription factors associated with Gcm2

Gene Symbol	Gene ID	Gene Info
Gcm2 NCBI RGD Ensembl	ENSRNOG00000015008	glial cells missing homolog 2

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Gcm2	rn6_v1_chr17_+_21490402_21490402	0.51	1.7e-22	Click!

Activity profile of Gcm2 motif

Sorted Z-values of Gcm2 motif

Top targets:

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr14_-_78707861 Show fit	136.52	ENSRNOT00000091927	Ppp2r2c NCBI RGD Ensembl Show fit	protein phosphatase 2, regulatory subunit B, gamma
chr14_-_86297623 Show fit	134.39	ENSRNOT00000067162 ENSRNOT00000081607 ENSRNOT00000085265	Camk2b NCBI RGD Ensembl Show fit	calcium/calmodulin-dependent protein kinase II beta
chr3_-_11382004 Show fit	71.94	ENSRNOT00000047921 ENSRNOT00000064039	Dnm1 NCBI RGD Ensembl Show fit	dynamin 1
chr14_+_77380262 Show fit	69.39	ENSRNOT00000008030	Nsg1 NCBI RGD Ensembl Show fit	neuron specific gene family member 1
chr1_-_73753128 Show fit	66.58	ENSRNOT00000068459	Ttyh1 NCBI RGD Ensembl Show fit	tweety family member 1
chr8_+_49441106 Show fit	61.03	ENSRNOT00000030152	Scn4b NCBI RGD Ensembl Show fit	sodium voltage-gated channel beta subunit 4
chr6_+_92229686 Show fit	58.48	ENSRNOT00000046085	Atl1 NCBI RGD Ensembl Show fit	atlastin GTPase 1
chr8_-_116893057 Show fit	56.80	ENSRNOT00000082113	Bsn NCBI RGD Ensembl Show fit	bassoon (presynaptic cytomatrix protein)
chr8_-_59226597 Show fit	56.33	ENSRNOT00000088208	Acsbg1 NCBI RGD Ensembl Show fit	acyl-CoA synthetase bubblegum family member 1
chr5_+_140870140 Show fit	52.34	ENSRNOT00000074347	Hpcal4 NCBI RGD Ensembl Show fit	hippocalcin-like 4

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Gcm2

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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
8.9	151.5	GO:0070262	peptidyl-serine dephosphorylation(GO:0070262)
2.6	147.5	GO:0048791	calcium ion-regulated exocytosis of neurotransmitter(GO:0048791)
44.8	134.4	GO:0032430	positive regulation of phospholipase A2 activity(GO:0032430)
1.6	117.4	GO:0050772	positive regulation of axonogenesis(GO:0050772)
13.3	92.9	GO:0016185	synaptic vesicle budding from presynaptic endocytic zone membrane(GO:0016185)
15.2	91.3	GO:0098887	neurotransmitter receptor transport, endosome to postsynaptic membrane(GO:0098887)
4.0	83.5	GO:0050884	neuromuscular process controlling posture(GO:0050884)
13.2	79.1	GO:0099526	presynaptic signal transduction(GO:0098928) presynapse to nucleus signaling pathway(GO:0099526)
5.5	71.9	GO:0060088	auditory receptor cell stereocilium organization(GO:0060088)
1.8	70.1	GO:0046839	phospholipid dephosphorylation(GO:0046839)

Showing 1 to 10 of 466 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.2	601.7	GO:0098794	postsynapse(GO:0098794)
0.5	251.6	GO:0043005	neuron projection(GO:0043005)
0.8	248.0	GO:0045202	synapse(GO:0045202)
2.0	209.2	GO:0008076	voltage-gated potassium channel complex(GO:0008076)
4.6	161.7	GO:0033017	sarcoplasmic reticulum membrane(GO:0033017)
5.6	151.5	GO:0000159	protein phosphatase type 2A complex(GO:0000159)
6.0	120.2	GO:0001518	voltage-gated sodium channel complex(GO:0001518)
1.5	113.6	GO:0030672	synaptic vesicle membrane(GO:0030672) exocytic vesicle membrane(GO:0099501)
2.1	94.2	GO:0048786	presynaptic active zone(GO:0048786)
3.1	86.6	GO:0032281	AMPA glutamate receptor complex(GO:0032281)

Showing 1 to 10 of 178 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.4	208.5	GO:0005509	calcium ion binding(GO:0005509)
6.5	149.9	GO:0043274	phospholipase binding(GO:0043274)
2.2	143.0	GO:0004722	protein serine/threonine phosphatase activity(GO:0004722)
2.6	141.1	GO:0015459	potassium channel regulator activity(GO:0015459)
17.2	103.4	GO:0032051	clathrin light chain binding(GO:0032051)
1.6	103.2	GO:0005544	calcium-dependent phospholipid binding(GO:0005544)
0.4	90.4	GO:0005096	GTPase activator activity(GO:0005096)
6.2	87.4	GO:0005391	sodium:potassium-exchanging ATPase activity(GO:0005391)
13.6	81.6	GO:0031749	D2 dopamine receptor binding(GO:0031749)
2.7	76.7	GO:0005540	hyaluronic acid binding(GO:0005540)

Showing 1 to 10 of 354 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
2.8	147.1	PID ERBB1 INTERNALIZATION PATHWAY	Internalization of ErbB1
5.2	134.4	ST WNT CA2 CYCLIC GMP PATHWAY	Wnt/Ca2+/cyclic GMP signaling.
0.4	87.2	NABA ECM GLYCOPROTEINS	Genes encoding structural ECM glycoproteins
3.0	66.9	PID SYNDECAN 3 PATHWAY	Syndecan-3-mediated signaling events
0.9	49.2	PID AJDISS 2PATHWAY	Posttranslational regulation of adherens junction stability and dissassembly
1.0	42.8	NABA PROTEOGLYCANS	Genes encoding proteoglycans
1.6	37.3	ST ADRENERGIC	Adrenergic Pathway
0.9	36.8	PID INTEGRIN A4B1 PATHWAY	Alpha4 beta1 integrin signaling events
1.1	32.1	PID INSULIN GLUCOSE PATHWAY	Insulin-mediated glucose transport
0.9	30.8	ST JNK MAPK PATHWAY	JNK MAPK Pathway

Showing 1 to 10 of 51 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.9	166.2	REACTOME PEPTIDE LIGAND BINDING RECEPTORS	Genes involved in Peptide ligand-binding receptors
8.6	155.1	REACTOME UNBLOCKING OF NMDA RECEPTOR GLUTAMATE BINDING AND ACTIVATION	Genes involved in Unblocking of NMDA receptor, glutamate binding and activation
2.8	78.4	REACTOME ADHERENS JUNCTIONS INTERACTIONS	Genes involved in Adherens junctions interactions
8.0	71.9	REACTOME GAP JUNCTION DEGRADATION	Genes involved in Gap junction degradation
0.9	68.8	REACTOME POTASSIUM CHANNELS	Genes involved in Potassium Channels
1.3	66.2	REACTOME SIGNALING BY ROBO RECEPTOR	Genes involved in Signaling by Robo receptor
3.0	65.5	REACTOME CLASS C 3 METABOTROPIC GLUTAMATE PHEROMONE RECEPTORS	Genes involved in Class C/3 (Metabotropic glutamate/pheromone receptors)
3.6	61.6	REACTOME RAP1 SIGNALLING	Genes involved in Rap1 signalling
3.0	60.0	REACTOME PLATELET CALCIUM HOMEOSTASIS	Genes involved in Platelet calcium homeostasis
2.8	50.7	REACTOME AMINO ACID SYNTHESIS AND INTERCONVERSION TRANSAMINATION	Genes involved in Amino acid synthesis and interconversion (transamination)

Showing 1 to 10 of 94 entries

Results for Gcm2

Z-value: 1.98

Motif logo

Transcription factors associated with Gcm2

Activity-expression correlation:

Activity profile of Gcm2 motif

Sorted Z-values of Gcm2 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Gcm2

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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: