ISMARA results: SMAD4

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Illumina Body Map 2: averaged replicates

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Results for SMAD4

Z-value: 3.46

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Transcription factors associated with SMAD4

Gene Symbol	Gene ID	Gene Info
SMAD4 Ensembl NCBI GeneCards UniProt NextProt	ENSG00000141646.9	SMAD family member 4

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
SMAD4	hg19_v2_chr18_+_48556470_48556640	-0.10	5.9e-01	Click!

Activity profile of SMAD4 motif

Sorted Z-values of SMAD4 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr22_+_23247030 Show fit	9.43	ENST00000390324.2	IGLJ3 Ensembl NCBI GeneCards UniProt NextProt Show fit	immunoglobulin lambda joining 3
chr22_+_22735135 Show fit	7.28	ENST00000390297.2	IGLV1-44 Ensembl NCBI GeneCards UniProt NextProt Show fit	immunoglobulin lambda variable 1-44
chr22_+_22712087 Show fit	6.97	ENST00000390294.2	IGLV1-47 Ensembl NCBI GeneCards UniProt NextProt Show fit	immunoglobulin lambda variable 1-47
chr22_+_23063100 Show fit	6.93	ENST00000390309.2	IGLV3-19 Ensembl NCBI GeneCards UniProt NextProt Show fit	immunoglobulin lambda variable 3-19
chr9_-_34691201 Show fit	6.87	ENST00000378800.3 ENST00000311925.2	CCL19 Ensembl NCBI GeneCards UniProt NextProt Show fit	chemokine (C-C motif) ligand 19
chr2_-_85890569 Show fit	6.36	ENST00000494165.1	SFTPB Ensembl NCBI GeneCards UniProt NextProt Show fit	surfactant protein B
chr10_-_73848531 Show fit	6.15	ENST00000373109.2	SPOCK2 Ensembl NCBI GeneCards UniProt NextProt Show fit	sparc/osteonectin, cwcv and kazal-like domains proteoglycan (testican) 2
chr22_+_22676808 Show fit	5.80	ENST00000390290.2	IGLV1-51 Ensembl NCBI GeneCards UniProt NextProt Show fit	immunoglobulin lambda variable 1-51
chr14_-_106878083 Show fit	5.42	ENST00000390619.2	IGHV4-39 Ensembl NCBI GeneCards UniProt NextProt Show fit	immunoglobulin heavy variable 4-39
chr14_-_106209368 Show fit	5.31	ENST00000390548.2 ENST00000390549.2 ENST00000390542.2	IGHG1 Ensembl NCBI GeneCards UniProt NextProt Show fit	immunoglobulin heavy constant gamma 1 (G1m marker)

Showing 1 to 10 of 200 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
0.6	109.9	GO:0006958	complement activation, classical pathway(GO:0006958)
0.3	54.6	GO:0002377	immunoglobulin production(GO:0002377)
0.2	22.4	GO:0031295	T cell costimulation(GO:0031295)
0.1	14.5	GO:0007585	respiratory gaseous exchange(GO:0007585)
0.5	12.2	GO:0019800	peptide cross-linking via chondroitin 4-sulfate glycosaminoglycan(GO:0019800)
0.6	9.7	GO:0045059	positive thymic T cell selection(GO:0045059)
0.4	9.3	GO:0050862	positive regulation of T cell receptor signaling pathway(GO:0050862)
1.0	7.8	GO:0043932	ossification involved in bone remodeling(GO:0043932)
0.1	7.5	GO:0070098	chemokine-mediated signaling pathway(GO:0070098)
2.3	6.9	GO:2000547	regulation of dendritic cell dendrite assembly(GO:2000547)

Showing 1 to 10 of 417 entries

Gene overrepresentation in cellular_component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	72.7	GO:0005615	extracellular space(GO:0005615)
0.6	34.1	GO:0042571	immunoglobulin complex, circulating(GO:0042571)
0.1	22.6	GO:0005581	collagen trimer(GO:0005581)
0.1	21.8	GO:0072562	blood microparticle(GO:0072562)
0.7	15.8	GO:0042613	MHC class II protein complex(GO:0042613)
0.0	12.4	GO:0009897	external side of plasma membrane(GO:0009897)
0.9	11.3	GO:0042105	alpha-beta T cell receptor complex(GO:0042105)
0.9	11.1	GO:0097486	multivesicular body lumen(GO:0097486)
0.2	9.7	GO:0001772	immunological synapse(GO:0001772)
0.1	9.6	GO:0070821	tertiary granule membrane(GO:0070821)

Showing 1 to 10 of 138 entries

Gene overrepresentation in molecular_function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.6	145.9	GO:0003823	antigen binding(GO:0003823)
1.0	16.8	GO:0032395	MHC class II receptor activity(GO:0032395)
0.0	13.7	GO:0030246	carbohydrate binding(GO:0030246)
0.4	11.6	GO:0008191	metalloendopeptidase inhibitor activity(GO:0008191)
0.3	10.8	GO:0017147	Wnt-protein binding(GO:0017147)
0.0	10.4	GO:0001077	transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding(GO:0001077)
0.3	8.5	GO:0042043	neurexin family protein binding(GO:0042043)
0.1	7.9	GO:0005547	phosphatidylinositol-3,4,5-trisphosphate binding(GO:0005547)
1.7	6.9	GO:0031735	CCR10 chemokine receptor binding(GO:0031735)
0.7	6.6	GO:0042610	CD8 receptor binding(GO:0042610)

Showing 1 to 10 of 260 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	22.5	NABA ECM AFFILIATED	Genes encoding proteins affiliated structurally or functionally to extracellular matrix proteins
0.1	18.0	PID TCR PATHWAY	TCR signaling in naïve CD4+ T cells
0.0	14.0	NABA ECM GLYCOPROTEINS	Genes encoding structural ECM glycoproteins
0.2	13.3	PID IL12 STAT4 PATHWAY	IL12 signaling mediated by STAT4
0.2	12.9	NABA PROTEOGLYCANS	Genes encoding proteoglycans
0.1	11.4	PID IL4 2PATHWAY	IL4-mediated signaling events
0.1	7.5	PID RHOA REG PATHWAY	Regulation of RhoA activity
0.0	6.9	PID PDGFRB PATHWAY	PDGFR-beta signaling pathway
0.1	5.9	PID WNT SIGNALING PATHWAY	Wnt signaling network
0.0	5.3	NABA SECRETED FACTORS	Genes encoding secreted soluble factors

Showing 1 to 10 of 69 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.8	21.2	REACTOME TRANSLOCATION OF ZAP 70 TO IMMUNOLOGICAL SYNAPSE	Genes involved in Translocation of ZAP-70 to Immunological synapse
0.2	12.5	REACTOME CHEMOKINE RECEPTORS BIND CHEMOKINES	Genes involved in Chemokine receptors bind chemokines
0.1	10.3	REACTOME IMMUNOREGULATORY INTERACTIONS BETWEEN A LYMPHOID AND A NON LYMPHOID CELL	Genes involved in Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell
0.1	8.9	REACTOME AMINO ACID TRANSPORT ACROSS THE PLASMA MEMBRANE	Genes involved in Amino acid transport across the plasma membrane
0.2	6.4	REACTOME GENERATION OF SECOND MESSENGER MOLECULES	Genes involved in Generation of second messenger molecules
0.1	6.0	REACTOME CELL SURFACE INTERACTIONS AT THE VASCULAR WALL	Genes involved in Cell surface interactions at the vascular wall
0.4	5.6	REACTOME NA CL DEPENDENT NEUROTRANSMITTER TRANSPORTERS	Genes involved in Na+/Cl- dependent neurotransmitter transporters
0.1	5.4	REACTOME METABOLISM OF VITAMINS AND COFACTORS	Genes involved in Metabolism of vitamins and cofactors
0.2	5.2	REACTOME IL 7 SIGNALING	Genes involved in Interleukin-7 signaling
0.3	4.5	REACTOME PD1 SIGNALING	Genes involved in PD-1 signaling

Showing 1 to 10 of 82 entries

Results for SMAD4

Z-value: 3.46

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: canonical pathways category:

Gene overrepresentation in curated gene sets: REACTOME pathways category: