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Illumina Body Map 2 (GSE30611)
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Results for SMAD4
Z-value: 2.69
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Transcription factors associated with SMAD4
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| SMAD4 | hg38_v1_chr18_+_51030100_51030270 | -0.12 | 5.0e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr22_+_22720615 Show fit | 13.30 |
ENST00000390309.2
|
immunoglobulin lambda variable 3-19 |
|
| chr14_-_105743032 Show fit | 10.33 |
ENST00000390548.6
ENST00000390549.6 ENST00000390542.6 |
immunoglobulin heavy constant gamma 1 (G1m marker) |
|
| chr2_-_88857582 Show fit | 8.34 |
ENST00000390237.2
|
immunoglobulin kappa constant |
|
| chr9_-_34691204 Show fit | 8.23 |
ENST00000378800.3
ENST00000311925.7 |
C-C motif chemokine ligand 19 |
|
| chr22_+_22811737 Show fit | 7.83 |
ENST00000390315.3
|
immunoglobulin lambda variable 3-10 |
|
| chr11_+_117199363 Show fit | 7.38 |
ENST00000392951.9
ENST00000525531.5 ENST00000278968.10 |
transgelin |
|
| chr2_+_89862438 Show fit | 7.16 |
ENST00000448155.2
|
immunoglobulin kappa variable 1D-39 |
|
| chr22_+_22431949 Show fit | 6.75 |
ENST00000390301.3
|
immunoglobulin lambda variable 1-36 |
|
| chr14_-_106335613 Show fit | 6.43 |
ENST00000603660.1
|
immunoglobulin heavy variable 3-30 |
|
| chr22_+_22792485 Show fit | 5.97 |
ENST00000390314.2
|
immunoglobulin lambda variable 2-11 |
Network of associatons between targets according to the STRING database.
First level regulatory network of SMAD4
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.8 | 138.0 | GO:0006958 | complement activation, classical pathway(GO:0006958) |
| 0.2 | 44.6 | GO:0002377 | immunoglobulin production(GO:0002377) |
| 0.1 | 18.8 | GO:0031295 | T cell costimulation(GO:0031295) |
| 0.7 | 13.2 | GO:1904706 | negative regulation of vascular smooth muscle cell proliferation(GO:1904706) |
| 0.6 | 13.0 | GO:0019800 | peptide cross-linking via chondroitin 4-sulfate glycosaminoglycan(GO:0019800) |
| 0.6 | 11.3 | GO:0045059 | positive thymic T cell selection(GO:0045059) |
| 1.7 | 10.1 | GO:0072144 | glomerular mesangial cell development(GO:0072144) |
| 1.3 | 9.3 | GO:0043932 | ossification involved in bone remodeling(GO:0043932) |
| 2.7 | 8.2 | GO:2000547 | regulation of dendritic cell dendrite assembly(GO:2000547) |
| 0.6 | 7.9 | GO:0048251 | elastic fiber assembly(GO:0048251) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 76.8 | GO:0005615 | extracellular space(GO:0005615) |
| 0.9 | 53.3 | GO:0042571 | immunoglobulin complex, circulating(GO:0042571) |
| 0.0 | 40.9 | GO:0005576 | extracellular region(GO:0005576) |
| 0.0 | 22.5 | GO:0005925 | focal adhesion(GO:0005925) |
| 0.1 | 21.6 | GO:0005581 | collagen trimer(GO:0005581) |
| 0.0 | 20.0 | GO:0005578 | proteinaceous extracellular matrix(GO:0005578) |
| 0.8 | 16.9 | GO:0042613 | MHC class II protein complex(GO:0042613) |
| 1.2 | 14.0 | GO:0042105 | alpha-beta T cell receptor complex(GO:0042105) |
| 0.1 | 13.0 | GO:0031093 | platelet alpha granule lumen(GO:0031093) |
| 0.1 | 12.9 | GO:0042470 | melanosome(GO:0042470) pigment granule(GO:0048770) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.6 | 129.7 | GO:0003823 | antigen binding(GO:0003823) |
| 0.8 | 54.9 | GO:0034987 | immunoglobulin receptor binding(GO:0034987) |
| 0.0 | 15.7 | GO:0001077 | transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding(GO:0001077) |
| 0.8 | 14.1 | GO:0032395 | MHC class II receptor activity(GO:0032395) |
| 0.1 | 12.2 | GO:0005518 | collagen binding(GO:0005518) |
| 0.4 | 10.8 | GO:0008191 | metalloendopeptidase inhibitor activity(GO:0008191) |
| 0.3 | 9.3 | GO:0042043 | neurexin family protein binding(GO:0042043) |
| 0.2 | 9.1 | GO:0017147 | Wnt-protein binding(GO:0017147) |
| 0.0 | 9.1 | GO:0030246 | carbohydrate binding(GO:0030246) |
| 1.4 | 8.2 | GO:0031735 | CCR10 chemokine receptor binding(GO:0031735) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 33.1 | NABA ECM GLYCOPROTEINS | Genes encoding structural ECM glycoproteins |
| 0.2 | 29.4 | PID IL4 2PATHWAY | IL4-mediated signaling events |
| 0.3 | 18.2 | PID IL12 STAT4 PATHWAY | IL12 signaling mediated by STAT4 |
| 0.0 | 18.0 | NABA ECM REGULATORS | Genes encoding enzymes and their regulators involved in the remodeling of the extracellular matrix |
| 0.1 | 11.5 | PID AMB2 NEUTROPHILS PATHWAY | amb2 Integrin signaling |
| 0.3 | 11.4 | PID TOLL ENDOGENOUS PATHWAY | Endogenous TLR signaling |
| 0.1 | 10.8 | PID PDGFRB PATHWAY | PDGFR-beta signaling pathway |
| 0.2 | 10.3 | NABA PROTEOGLYCANS | Genes encoding proteoglycans |
| 0.1 | 10.1 | PID RHOA REG PATHWAY | Regulation of RhoA activity |
| 0.1 | 7.8 | PID AR PATHWAY | Coregulation of Androgen receptor activity |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.2 | 26.1 | REACTOME TRANSLOCATION OF ZAP 70 TO IMMUNOLOGICAL SYNAPSE | Genes involved in Translocation of ZAP-70 to Immunological synapse |
| 0.1 | 17.0 | REACTOME RESPONSE TO ELEVATED PLATELET CYTOSOLIC CA2 | Genes involved in Response to elevated platelet cytosolic Ca2+ |
| 0.1 | 11.2 | REACTOME CHEMOKINE RECEPTORS BIND CHEMOKINES | Genes involved in Chemokine receptors bind chemokines |
| 0.1 | 7.5 | REACTOME COLLAGEN FORMATION | Genes involved in Collagen formation |
| 0.0 | 7.4 | REACTOME SIGNALING BY PDGF | Genes involved in Signaling by PDGF |
| 0.1 | 6.2 | REACTOME INTEGRIN CELL SURFACE INTERACTIONS | Genes involved in Integrin cell surface interactions |
| 0.6 | 5.9 | REACTOME PD1 SIGNALING | Genes involved in PD-1 signaling |
| 0.1 | 5.9 | REACTOME SMOOTH MUSCLE CONTRACTION | Genes involved in Smooth Muscle Contraction |
| 0.1 | 5.6 | REACTOME NETRIN1 SIGNALING | Genes involved in Netrin-1 signaling |
| 0.0 | 5.5 | REACTOME PEPTIDE CHAIN ELONGATION | Genes involved in Peptide chain elongation |