ISMARA results: SMAD4

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GNF SymAtlas + NCI-60 cancer cell lines, human (Su, 2004; Ross, 2000)

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Results for SMAD4

Z-value: 1.92

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Transcription factors associated with SMAD4

Gene Symbol	Gene ID	Gene Info
SMAD4 Ensembl NCBI GeneCards UniProt	ENSG00000141646.14	SMAD4

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
SMAD4	hg38_v1_chr18_+_51030100_51030270	0.08	2.2e-01	Click!

Activity profile of SMAD4 motif

Sorted Z-values of SMAD4 motif

Network of associatons between targets according to the STRING database.

First level regulatory network of SMAD4

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Promoter	Score	Transcript	Gene	Gene Info
chr11_+_117199363 Show fit	41.22	ENST00000392951.9 ENST00000525531.5 ENST00000278968.10	TAGLN Ensembl NCBI GeneCards UniProt Show fit	transgelin
chr14_-_105743032 Show fit	40.45	ENST00000390548.6 ENST00000390549.6 ENST00000390542.6	IGHG1 Ensembl NCBI GeneCards UniProt Show fit	immunoglobulin heavy constant gamma 1 (G1m marker)
chr22_+_22904850 Show fit	34.84	ENST00000390324.2	IGLJ3 Ensembl NCBI GeneCards UniProt Show fit	immunoglobulin lambda joining 3
chr6_+_33080445 Show fit	33.12	ENST00000428835.5	HLA-DPB1 Ensembl NCBI GeneCards UniProt Show fit	major histocompatibility complex, class II, DP beta 1
chr2_-_88857582 Show fit	32.86	ENST00000390237.2	IGKC Ensembl NCBI GeneCards UniProt Show fit	immunoglobulin kappa constant
chr11_-_111923722 Show fit	32.03	ENST00000527950.5	CRYAB Ensembl NCBI GeneCards UniProt Show fit	crystallin alpha B
chr6_-_33080710 Show fit	29.36	ENST00000419277.5	HLA-DPA1 Ensembl NCBI GeneCards UniProt Show fit	major histocompatibility complex, class II, DP alpha 1
chr2_-_218002988 Show fit	26.44	ENST00000682258.1 ENST00000446903.5	TNS1 Ensembl NCBI GeneCards UniProt Show fit	tensin 1
chr5_-_42825884 Show fit	25.55	ENST00000506577.5	SELENOP Ensembl NCBI GeneCards UniProt Show fit	selenoprotein P
chr14_-_105771405 Show fit	22.25	ENST00000641136.1 ENST00000390551.6	IGHG3 Ensembl NCBI GeneCards UniProt Show fit	immunoglobulin heavy constant gamma 3 (G3m marker)

Showing 1 to 10 of 200 entries

Gene Ontology Analysis

Gene overrepresentation in biological process category:

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Log-likelihood per target	Total log-likelihood	Term	Description
2.2	165.5	GO:0006910	phagocytosis, recognition(GO:0006910)
1.1	119.6	GO:0031295	T cell costimulation(GO:0031295)
1.1	107.8	GO:0006958	complement activation, classical pathway(GO:0006958)
0.6	88.2	GO:0002377	immunoglobulin production(GO:0002377)
4.8	81.7	GO:0007021	tubulin complex assembly(GO:0007021)
2.4	36.4	GO:0010991	negative regulation of SMAD protein complex assembly(GO:0010991)
12.1	36.2	GO:0071461	cellular response to redox state(GO:0071461)
5.6	33.5	GO:0070829	response to vitamin B2(GO:0033274) heterochromatin maintenance(GO:0070829)
4.4	31.0	GO:2000324	positive regulation of glucocorticoid receptor signaling pathway(GO:2000324)
0.3	30.7	GO:1990830	response to leukemia inhibitory factor(GO:1990823) cellular response to leukemia inhibitory factor(GO:1990830)

Showing 1 to 10 of 448 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
3.0	161.0	GO:0042571	immunoglobulin complex, circulating(GO:0042571)
6.5	123.2	GO:0042613	MHC class II protein complex(GO:0042613)
5.1	81.7	GO:0097512	cardiac myofibril(GO:0097512)
0.4	64.1	GO:0072562	blood microparticle(GO:0072562)
0.1	61.6	GO:0005615	extracellular space(GO:0005615)
0.4	54.2	GO:0043202	lysosomal lumen(GO:0043202)
0.3	53.9	GO:0005578	proteinaceous extracellular matrix(GO:0005578)
0.6	41.8	GO:0005581	collagen trimer(GO:0005581)
0.3	35.5	GO:0042734	presynaptic membrane(GO:0042734)
0.5	30.4	GO:0031463	Cul3-RING ubiquitin ligase complex(GO:0031463)

Showing 1 to 10 of 164 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.1	158.9	GO:0003823	antigen binding(GO:0003823)
2.6	154.7	GO:0034987	immunoglobulin receptor binding(GO:0034987)
0.1	134.5	GO:0003700	nucleic acid binding transcription factor activity(GO:0001071) transcription factor activity, sequence-specific DNA binding(GO:0003700)
2.7	81.7	GO:0005212	structural constituent of eye lens(GO:0005212)
0.1	63.5	GO:0003779	actin binding(GO:0003779)
4.4	61.2	GO:0032395	MHC class II receptor activity(GO:0032395)
1.8	57.9	GO:0042605	peptide antigen binding(GO:0042605)
4.6	54.8	GO:0008430	selenium binding(GO:0008430)
0.6	41.2	GO:0070412	R-SMAD binding(GO:0070412)
1.9	39.4	GO:0001087	transcription factor activity, sequence-specific DNA binding, RNA polymerase recruiting(GO:0001011) transcription factor activity, TFIIB-class binding(GO:0001087)

Showing 1 to 10 of 296 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.0	106.6	PID IL4 2PATHWAY	IL4-mediated signaling events
0.4	81.2	NABA ECM GLYCOPROTEINS	Genes encoding structural ECM glycoproteins
0.3	57.3	NABA ECM AFFILIATED	Genes encoding proteins affiliated structurally or functionally to extracellular matrix proteins
0.5	41.0	PID RHOA REG PATHWAY	Regulation of RhoA activity
0.3	38.3	PID HIF1 TFPATHWAY	HIF-1-alpha transcription factor network
0.7	36.9	NABA PROTEOGLYCANS	Genes encoding proteoglycans
0.6	34.7	PID TCPTP PATHWAY	Signaling events mediated by TCPTP
0.4	29.9	PID CD8 TCR PATHWAY	TCR signaling in naïve CD8+ T cells
0.5	29.1	PID AURORA A PATHWAY	Aurora A signaling
0.2	23.9	PID BETA CATENIN NUC PATHWAY	Regulation of nuclear beta catenin signaling and target gene transcription

Showing 1 to 10 of 65 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
5.7	120.1	REACTOME TRANSLOCATION OF ZAP 70 TO IMMUNOLOGICAL SYNAPSE	Genes involved in Translocation of ZAP-70 to Immunological synapse
0.4	48.0	REACTOME RESPONSE TO ELEVATED PLATELET CYTOSOLIC CA2	Genes involved in Response to elevated platelet cytosolic Ca2+
0.6	44.5	REACTOME MYOGENESIS	Genes involved in Myogenesis
0.2	44.2	REACTOME SIGNALING BY RHO GTPASES	Genes involved in Signaling by Rho GTPases
0.5	43.2	REACTOME IMMUNOREGULATORY INTERACTIONS BETWEEN A LYMPHOID AND A NON LYMPHOID CELL	Genes involved in Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell
0.3	35.1	REACTOME NUCLEAR RECEPTOR TRANSCRIPTION PATHWAY	Genes involved in Nuclear Receptor transcription pathway
0.3	31.4	REACTOME SIGNALING BY PDGF	Genes involved in Signaling by PDGF
0.4	30.4	REACTOME METABOLISM OF VITAMINS AND COFACTORS	Genes involved in Metabolism of vitamins and cofactors
1.7	29.3	REACTOME PLATELET ADHESION TO EXPOSED COLLAGEN	Genes involved in Platelet Adhesion to exposed collagen
0.7	27.8	REACTOME GABA SYNTHESIS RELEASE REUPTAKE AND DEGRADATION	Genes involved in GABA synthesis, release, reuptake and degradation

Showing 1 to 10 of 108 entries

Results for SMAD4

Z-value: 1.92

Motif logo

Transcription factors associated with SMAD4

Activity-expression correlation:

Activity profile of SMAD4 motif

Sorted Z-values of SMAD4 motif

Network of associatons between targets according to the STRING database.

First level regulatory network of SMAD4

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Top targets:

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: