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Inflammatory response time course, HUVEC (Wada et al., 2009)
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Results for PRDM1
Z-value: 1.78
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Transcription factors associated with PRDM1
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| PRDM1 | hg19_v2_chr6_+_106546808_106546833 | 0.59 | 1.8e-03 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr6_-_29527702 Show fit | 17.91 |
ENST00000377050.4
|
ubiquitin D |
|
| chr22_-_36556821 Show fit | 10.04 |
ENST00000531095.1
ENST00000397293.2 ENST00000349314.2 |
apolipoprotein L, 3 |
|
| chr4_+_142557717 Show fit | 10.04 |
ENST00000320650.4
ENST00000296545.7 |
interleukin 15 |
|
| chr4_+_142558078 Show fit | 9.38 |
ENST00000529613.1
|
interleukin 15 |
|
| chr4_+_142557771 Show fit | 9.18 |
ENST00000514653.1
|
interleukin 15 |
|
| chr6_+_32821924 Show fit | 8.87 |
ENST00000374859.2
ENST00000453265.2 |
proteasome (prosome, macropain) subunit, beta type, 9 |
|
| chr16_+_50776021 Show fit | 7.82 |
ENST00000566679.2
ENST00000564634.1 ENST00000398568.2 |
cylindromatosis (turban tumor syndrome) |
|
| chr1_+_110453109 Show fit | 7.81 |
ENST00000525659.1
|
colony stimulating factor 1 (macrophage) |
|
| chr17_+_41158742 Show fit | 7.57 |
ENST00000415816.2
ENST00000438323.2 |
interferon-induced protein 35 |
|
| chr16_-_67970990 Show fit | 6.74 |
ENST00000358514.4
|
proteasome (prosome, macropain) subunit, beta type, 10 |
Network of associatons between targets according to the STRING database.
First level regulatory network of PRDM1
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 31.0 | GO:0002479 | antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent(GO:0002479) |
| 9.5 | 28.6 | GO:0045062 | extrathymic T cell selection(GO:0045062) |
| 5.3 | 26.7 | GO:0060611 | mammary gland fat development(GO:0060611) positive regulation of macrophage colony-stimulating factor signaling pathway(GO:1902228) positive regulation of response to macrophage colony-stimulating factor(GO:1903971) positive regulation of cellular response to macrophage colony-stimulating factor stimulus(GO:1903974) positive regulation of microglial cell migration(GO:1904141) |
| 6.8 | 20.3 | GO:1990108 | protein linear deubiquitination(GO:1990108) |
| 3.6 | 17.9 | GO:0070842 | aggresome assembly(GO:0070842) |
| 0.0 | 13.0 | GO:0042157 | lipoprotein metabolic process(GO:0042157) |
| 0.1 | 10.1 | GO:0071357 | type I interferon signaling pathway(GO:0060337) cellular response to type I interferon(GO:0071357) |
| 0.4 | 9.9 | GO:1900115 | extracellular regulation of signal transduction(GO:1900115) extracellular negative regulation of signal transduction(GO:1900116) |
| 0.9 | 7.8 | GO:0002483 | antigen processing and presentation of endogenous peptide antigen(GO:0002483) antigen processing and presentation of endogenous peptide antigen via MHC class I(GO:0019885) |
| 2.2 | 6.7 | GO:0050822 | peptide stabilization(GO:0050822) peptide antigen stabilization(GO:0050823) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 4.5 | 26.7 | GO:1990682 | CSF1-CSF1R complex(GO:1990682) |
| 0.0 | 24.0 | GO:0016607 | nuclear speck(GO:0016607) |
| 2.3 | 20.5 | GO:1990111 | spermatoproteasome complex(GO:1990111) |
| 0.3 | 20.3 | GO:0097542 | ciliary tip(GO:0097542) |
| 0.3 | 17.8 | GO:0016235 | aggresome(GO:0016235) |
| 1.9 | 11.7 | GO:0008537 | proteasome activator complex(GO:0008537) |
| 1.5 | 10.2 | GO:0042825 | TAP complex(GO:0042825) |
| 0.0 | 7.4 | GO:0005788 | endoplasmic reticulum lumen(GO:0005788) |
| 0.0 | 6.5 | GO:0016324 | apical plasma membrane(GO:0016324) |
| 1.7 | 5.1 | GO:1990622 | CHOP-ATF3 complex(GO:1990622) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 3.3 | 26.7 | GO:0005157 | macrophage colony-stimulating factor receptor binding(GO:0005157) |
| 0.1 | 25.8 | GO:0005125 | cytokine activity(GO:0005125) |
| 1.6 | 20.3 | GO:1990380 | Lys48-specific deubiquitinase activity(GO:1990380) |
| 0.6 | 19.3 | GO:0070003 | threonine-type endopeptidase activity(GO:0004298) threonine-type peptidase activity(GO:0070003) |
| 0.9 | 17.9 | GO:0070628 | proteasome binding(GO:0070628) |
| 1.5 | 11.7 | GO:0061133 | endopeptidase activator activity(GO:0061133) |
| 2.0 | 10.2 | GO:0015433 | peptide antigen-transporting ATPase activity(GO:0015433) |
| 3.3 | 9.9 | GO:0042007 | interleukin-18 binding(GO:0042007) |
| 0.0 | 7.7 | GO:0005319 | lipid transporter activity(GO:0005319) |
| 0.1 | 6.6 | GO:0000979 | RNA polymerase II core promoter sequence-specific DNA binding(GO:0000979) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 29.5 | NABA SECRETED FACTORS | Genes encoding secreted soluble factors |
| 0.8 | 26.7 | SA MMP CYTOKINE CONNECTION | Cytokines can induce activation of matrix metalloproteinases, which degrade extracellular matrix. |
| 0.5 | 20.3 | PID NFKAPPAB CANONICAL PATHWAY | Canonical NF-kappaB pathway |
| 0.1 | 5.6 | ST INTERLEUKIN 4 PATHWAY | Interleukin 4 (IL-4) Pathway |
| 0.0 | 4.3 | PID AP1 PATHWAY | AP-1 transcription factor network |
| 0.1 | 4.2 | PID S1P META PATHWAY | Sphingosine 1-phosphate (S1P) pathway |
| 0.0 | 4.2 | PID RHOA REG PATHWAY | Regulation of RhoA activity |
| 0.1 | 4.0 | PID P38 MKK3 6PATHWAY | p38 MAPK signaling pathway |
| 0.1 | 3.2 | ST PHOSPHOINOSITIDE 3 KINASE PATHWAY | PI3K Pathway |
| 0.0 | 2.0 | PID HNF3A PATHWAY | FOXA1 transcription factor network |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 31.0 | REACTOME CROSS PRESENTATION OF SOLUBLE EXOGENOUS ANTIGENS ENDOSOMES | Genes involved in Cross-presentation of soluble exogenous antigens (endosomes) |
| 0.4 | 20.3 | REACTOME NOD1 2 SIGNALING PATHWAY | Genes involved in NOD1/2 Signaling Pathway |
| 0.1 | 10.1 | REACTOME INTERFERON ALPHA BETA SIGNALING | Genes involved in Interferon alpha/beta signaling |
| 0.2 | 5.4 | REACTOME ORGANIC CATION ANION ZWITTERION TRANSPORT | Genes involved in Organic cation/anion/zwitterion transport |
| 0.1 | 5.1 | REACTOME ACTIVATION OF GENES BY ATF4 | Genes involved in Activation of Genes by ATF4 |
| 0.1 | 4.8 | REACTOME SPHINGOLIPID DE NOVO BIOSYNTHESIS | Genes involved in Sphingolipid de novo biosynthesis |
| 0.3 | 4.6 | REACTOME THE NLRP3 INFLAMMASOME | Genes involved in The NLRP3 inflammasome |
| 0.0 | 4.6 | REACTOME DOWNSTREAM SIGNAL TRANSDUCTION | Genes involved in Downstream signal transduction |
| 0.1 | 4.1 | REACTOME SIGNALING BY BMP | Genes involved in Signaling by BMP |
| 0.2 | 3.6 | REACTOME ER PHAGOSOME PATHWAY | Genes involved in ER-Phagosome pathway |