ISMARA results: Sox6

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Sox6_Sox9

Z-value: 1.03

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Transcription factors associated with Sox6_Sox9

Gene Symbol	Gene ID	Gene Info
Sox6 NCBI RGD Ensembl	ENSRNOG00000020514	SRY box 6
Sox9 NCBI RGD Ensembl	ENSRNOG00000002607	SRY box 9

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Sox9	rn6_v1_chr10_+_101288489_101288489	0.46	4.9e-18	Click!
Sox6	rn6_v1_chr1_+_185863043_185863043	0.22	7.7e-05	Click!

Activity profile of Sox6_Sox9 motif

Sorted Z-values of Sox6_Sox9 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr3_+_35014538 Show fit	48.64	ENSRNOT00000006341	Kif5c NCBI RGD Ensembl Show fit	kinesin family member 5C
chr18_+_79406381 Show fit	47.86	ENSRNOT00000022303 ENSRNOT00000058295 ENSRNOT00000058296 ENSRNOT00000022280	Mbp NCBI RGD Ensembl Show fit	myelin basic protein
chr4_-_39102807 Show fit	44.11	ENSRNOT00000052063	Thsd7a NCBI RGD Ensembl Show fit	thrombospondin type 1 domain containing 7A
chr5_+_64326733 Show fit	35.00	ENSRNOT00000065775	Tmeff1 NCBI RGD Ensembl Show fit	transmembrane protein with EGF-like and two follistatin-like domains 1
chr8_+_128824508 Show fit	34.12	ENSRNOT00000025343	Mobp NCBI RGD Ensembl Show fit	myelin-associated oligodendrocyte basic protein
chr6_+_147876237 Show fit	32.47	ENSRNOT00000056649	Tmem196 NCBI RGD Ensembl Show fit	transmembrane protein 196
chr3_+_92640752 Show fit	32.00	ENSRNOT00000007604	Slc1a2 NCBI RGD Ensembl Show fit	solute carrier family 1 member 2
chr6_+_147876557 Show fit	30.15	ENSRNOT00000080090	Tmem196 NCBI RGD Ensembl Show fit	transmembrane protein 196
chr9_-_100253609 Show fit	25.61	ENSRNOT00000036061	Kif1a NCBI RGD Ensembl Show fit	kinesin family member 1A
chr18_+_30562178 Show fit	24.46	ENSRNOT00000040998	LOC108348771 NCBI RGD Ensembl Show fit	protocadherin beta-16-like

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Sox6_Sox9

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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
1.0	143.0	GO:0007156	homophilic cell adhesion via plasma membrane adhesion molecules(GO:0007156)
12.2	48.6	GO:0098963	dendritic transport of ribonucleoprotein complex(GO:0098961) dendritic transport of messenger ribonucleoprotein complex(GO:0098963) anterograde dendritic transport of messenger ribonucleoprotein complex(GO:0098964)
16.0	47.9	GO:1904209	regulation of chemokine (C-C motif) ligand 2 secretion(GO:1904207) positive regulation of chemokine (C-C motif) ligand 2 secretion(GO:1904209) positive regulation of metalloendopeptidase activity(GO:1904685)
3.1	36.7	GO:0046543	development of secondary female sexual characteristics(GO:0046543)
6.4	32.0	GO:0070777	D-aspartate transport(GO:0070777) D-aspartate import(GO:0070779)
1.0	27.6	GO:0051481	negative regulation of cytosolic calcium ion concentration(GO:0051481)
0.1	25.6	GO:0007018	microtubule-based movement(GO:0007018)
1.2	23.4	GO:0021860	pyramidal neuron development(GO:0021860)
0.4	20.2	GO:0007019	microtubule depolymerization(GO:0007019)
0.2	19.8	GO:0045921	positive regulation of exocytosis(GO:0045921)

Showing 1 to 10 of 137 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.2	155.8	GO:0005887	integral component of plasma membrane(GO:0005887)
0.0	62.5	GO:0016021	integral component of membrane(GO:0016021)
3.2	48.6	GO:0035253	ciliary rootlet(GO:0035253)
8.0	47.9	GO:0033269	internode region of axon(GO:0033269)
0.2	46.9	GO:0043209	myelin sheath(GO:0043209)
0.2	42.7	GO:0043204	perikaryon(GO:0043204)
0.2	36.3	GO:0014069	postsynaptic density(GO:0014069)
0.9	32.0	GO:0030673	axolemma(GO:0030673)
0.5	28.7	GO:0005871	kinesin complex(GO:0005871)
3.1	27.6	GO:0030314	junctional membrane complex(GO:0030314)

Showing 1 to 10 of 69 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	95.5	GO:0005509	calcium ion binding(GO:0005509)
6.8	82.0	GO:0019911	structural constituent of myelin sheath(GO:0019911)
4.9	48.6	GO:0034190	apolipoprotein receptor binding(GO:0034190)
0.7	44.0	GO:0005080	protein kinase C binding(GO:0005080)
0.2	40.9	GO:0015631	tubulin binding(GO:0015631)
6.4	32.0	GO:0005314	high-affinity glutamate transmembrane transporter activity(GO:0005314)
0.2	28.9	GO:0044325	ion channel binding(GO:0044325)
0.3	28.7	GO:0003777	microtubule motor activity(GO:0003777)
6.9	27.6	GO:0005219	ryanodine-sensitive calcium-release channel activity(GO:0005219)
0.7	26.1	GO:0015301	anion:anion antiporter activity(GO:0015301)

Showing 1 to 10 of 115 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.3	55.6	NABA ECM GLYCOPROTEINS	Genes encoding structural ECM glycoproteins
0.5	19.0	PID GLYPICAN 1PATHWAY	Glypican 1 network
0.3	17.3	PID AR TF PATHWAY	Regulation of Androgen receptor activity
0.8	17.0	PID INTEGRIN5 PATHWAY	Beta5 beta6 beta7 and beta8 integrin cell surface interactions
1.2	15.0	PID P38 GAMMA DELTA PATHWAY	Signaling mediated by p38-gamma and p38-delta
0.0	13.2	NABA SECRETED FACTORS	Genes encoding secreted soluble factors
0.1	13.0	NABA ECM AFFILIATED	Genes encoding proteins affiliated structurally or functionally to extracellular matrix proteins
1.1	12.8	PID FGF PATHWAY	FGF signaling pathway
0.2	12.5	PID RAC1 REG PATHWAY	Regulation of RAC1 activity
0.3	11.3	ST WNT BETA CATENIN PATHWAY	Wnt/beta-catenin Pathway

Showing 1 to 10 of 28 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.5	24.9	REACTOME AMINO ACID AND OLIGOPEPTIDE SLC TRANSPORTERS	Genes involved in Amino acid and oligopeptide SLC transporters
1.5	24.7	REACTOME ACETYLCHOLINE NEUROTRANSMITTER RELEASE CYCLE	Genes involved in Acetylcholine Neurotransmitter Release Cycle
0.8	20.1	REACTOME CGMP EFFECTS	Genes involved in cGMP effects
1.3	19.6	REACTOME PLATELET ADHESION TO EXPOSED COLLAGEN	Genes involved in Platelet Adhesion to exposed collagen
0.9	15.6	REACTOME GAP JUNCTION ASSEMBLY	Genes involved in Gap junction assembly
0.6	15.2	REACTOME NEPHRIN INTERACTIONS	Genes involved in Nephrin interactions
0.2	12.8	REACTOME ASPARAGINE N LINKED GLYCOSYLATION	Genes involved in Asparagine N-linked glycosylation
0.7	12.5	REACTOME N GLYCAN ANTENNAE ELONGATION	Genes involved in N-Glycan antennae elongation
0.1	12.0	REACTOME SIGNALING BY RHO GTPASES	Genes involved in Signaling by Rho GTPases
0.7	10.9	REACTOME IONOTROPIC ACTIVITY OF KAINATE RECEPTORS	Genes involved in Ionotropic activity of Kainate Receptors

Showing 1 to 10 of 51 entries

Results for Sox6_Sox9

Z-value: 1.03

Motif logo

Transcription factors associated with Sox6_Sox9

Activity-expression correlation:

Activity profile of Sox6_Sox9 motif

Sorted Z-values of Sox6_Sox9 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Sox6_Sox9

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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: