ISMARA results: Smad4

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GSE49485: Hypoxia transcriptome sequencing of rat brain.

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Results for Smad4

Z-value: 0.61

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Transcription factors associated with Smad4

Gene Symbol	Gene ID	Gene Info
Smad4 NCBI RGD Ensembl	ENSRNOG00000051965	SMAD family member 4

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Smad4	rn6_v1_chr18_-_69657301_69657301	0.26	6.7e-01	Click!

Activity profile of Smad4 motif

Sorted Z-values of Smad4 motif

Top targets:

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr10_-_88670430 Show fit	1.25	ENSRNOT00000025547	Hcrt NCBI RGD Ensembl Show fit	hypocretin neuropeptide precursor
chr8_-_98738446 Show fit	0.41	ENSRNOT00000019860	Zic1 NCBI RGD Ensembl Show fit	Zic family member 1
chr17_-_9695292 Show fit	0.41	ENSRNOT00000036162	Prr7 NCBI RGD Ensembl Show fit	proline rich 7 (synaptic)
chr4_+_84194347 Show fit	0.36	ENSRNOT00000084256	Chn2 NCBI RGD Ensembl Show fit	chimerin 2
chr12_-_41671437 Show fit	0.34	ENSRNOT00000001883	Lhx5 NCBI RGD Ensembl Show fit	LIM homeobox 5
chr2_-_198360678 Show fit	0.27	ENSRNOT00000051917	Hist2h2ac NCBI RGD Ensembl Show fit	histone cluster 2 H2A family member c
chr5_-_152473868 Show fit	0.25	ENSRNOT00000022130	Fam110d NCBI RGD Ensembl Show fit	family with sequence similarity 110, member D
chr7_-_70842405 Show fit	0.20	ENSRNOT00000047449	Nxph4 NCBI RGD Ensembl Show fit	neurexophilin 4
chr7_+_123168811 Show fit	0.18	ENSRNOT00000007091	Csdc2 NCBI RGD Ensembl Show fit	cold shock domain containing C2
chr17_-_43821536 Show fit	0.17	ENSRNOT00000072286	RGD1562378 NCBI RGD Ensembl Show fit	histone H4 variant H4-v.1

Showing 1 to 10 of 70 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Smad4

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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
0.2	1.2	GO:0051970	negative regulation of transmission of nerve impulse(GO:0051970)
0.0	0.4	GO:0045653	negative regulation of megakaryocyte differentiation(GO:0045653)
0.0	0.4	GO:0001675	acrosome assembly(GO:0001675)
0.0	0.3	GO:0021937	cerebellar Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation(GO:0021937)
0.0	0.1	GO:1905065	Kit signaling pathway(GO:0038109) melanocyte migration(GO:0097324) positive regulation of vascular smooth muscle cell differentiation(GO:1905065)
0.0	0.1	GO:0009449	gamma-aminobutyric acid biosynthetic process(GO:0009449)
0.0	0.1	GO:1903026	negative regulation of RNA polymerase II regulatory region sequence-specific DNA binding(GO:1903026)
0.0	0.1	GO:1902310	regulation of endoplasmic reticulum stress-induced eIF2 alpha phosphorylation(GO:0060734) response to methyl methanesulfonate(GO:0072702) cellular response to methyl methanesulfonate(GO:0072703) response to environmental enrichment(GO:0090648) positive regulation of peptidyl-serine dephosphorylation(GO:1902310)
0.0	0.1	GO:0006362	transcription elongation from RNA polymerase I promoter(GO:0006362)
0.0	0.1	GO:1903659	regulation of complement-dependent cytotoxicity(GO:1903659)

Showing 1 to 10 of 12 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	1.2	GO:0005791	rough endoplasmic reticulum(GO:0005791)
0.0	0.4	GO:0000788	nuclear nucleosome(GO:0000788)

Showing 1 to 2 of 2 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	1.2	GO:0005184	neuropeptide hormone activity(GO:0005184)
0.1	0.4	GO:0001565	phorbol ester receptor activity(GO:0001565)
0.0	0.2	GO:0004972	NMDA glutamate receptor activity(GO:0004972)
0.0	0.1	GO:0031177	phosphopantetheine binding(GO:0031177)
0.0	0.1	GO:0004351	glutamate decarboxylase activity(GO:0004351)
0.0	0.1	GO:0050682	AF-2 domain binding(GO:0050682)

Showing 1 to 6 of 6 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	0.6	REACTOME RNA POL I PROMOTER OPENING	Genes involved in RNA Polymerase I Promoter Opening

Showing 1 to 1 of 1 entries

Results for Smad4

Z-value: 0.61

Motif logo

Transcription factors associated with Smad4

Activity-expression correlation:

Activity profile of Smad4 motif

Sorted Z-values of Smad4 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Smad4

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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: REACTOME pathways category: