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GSE58827: Dynamics of the Mouse Liver
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Results for Rfx3_Rfx1_Rfx4
Z-value: 1.97
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Transcription factors associated with Rfx3_Rfx1_Rfx4
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
| ENSMUSG00000040929.18 | regulatory factor X, 3 (influences HLA class II expression) | |
| ENSMUSG00000031706.8 | regulatory factor X, 1 (influences HLA class II expression) | |
| ENSMUSG00000020037.16 | regulatory factor X, 4 (influences HLA class II expression) |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| Rfx3 | mm39_v1_chr19_-_27988393_27988453 | -0.67 | 7.2e-06 | Click! |
| Rfx1 | mm39_v1_chr8_+_84793453_84793511 | -0.57 | 2.7e-04 | Click! |
| Rfx4 | mm39_v1_chr10_+_84674008_84674016 | 0.49 | 2.7e-03 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr11_-_5900019 Show fit | 10.68 |
ENSMUST00000102920.4
|
glucokinase |
|
| chr11_+_101358990 Show fit | 6.07 |
ENSMUST00000001347.7
|
Rho family GTPase 2 |
|
| chr5_+_30972067 Show fit | 4.65 |
ENSMUST00000200692.4
|
microtubule-associated protein, RP/EB family, member 3 |
|
| chr5_+_30971915 Show fit | 4.61 |
ENSMUST00000031058.15
|
microtubule-associated protein, RP/EB family, member 3 |
|
| chr10_-_39901249 Show fit | 3.98 |
ENSMUST00000163705.3
|
major facilitator superfamily domain containing 4B1 |
|
| chr7_+_44114815 Show fit | 3.52 |
ENSMUST00000035929.11
ENSMUST00000146128.8 |
aspartate dehydrogenase domain containing |
|
| chr12_+_113104085 Show fit | 3.43 |
ENSMUST00000200380.5
|
cysteine rich protein 2 |
|
| chr1_-_192946359 Show fit | 3.38 |
ENSMUST00000161737.8
|
hydroxysteroid 11-beta dehydrogenase 1 |
|
| chr7_+_44114857 Show fit | 3.26 |
ENSMUST00000135624.2
|
aspartate dehydrogenase domain containing |
|
| chr7_-_30754193 Show fit | 3.23 |
ENSMUST00000205778.2
|
FXYD domain-containing ion transport regulator 1 |
Network of associatons between targets according to the STRING database.
First level regulatory network of Rfx3_Rfx1_Rfx4
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.1 | 12.3 | GO:1903797 | positive regulation of sodium ion export(GO:1903275) positive regulation of sodium ion export from cell(GO:1903278) positive regulation of inorganic anion transmembrane transport(GO:1903797) |
| 2.1 | 10.7 | GO:0051594 | detection of carbohydrate stimulus(GO:0009730) detection of hexose stimulus(GO:0009732) detection of monosaccharide stimulus(GO:0034287) detection of glucose(GO:0051594) |
| 2.3 | 9.3 | GO:1903033 | regulation of microtubule plus-end binding(GO:1903031) positive regulation of microtubule plus-end binding(GO:1903033) |
| 1.1 | 6.8 | GO:0006742 | NADP catabolic process(GO:0006742) |
| 0.4 | 6.1 | GO:0048672 | positive regulation of collateral sprouting(GO:0048672) |
| 0.1 | 5.6 | GO:0022900 | electron transport chain(GO:0022900) |
| 0.1 | 4.9 | GO:0022617 | extracellular matrix disassembly(GO:0022617) |
| 0.9 | 4.4 | GO:0044375 | regulation of peroxisome size(GO:0044375) |
| 0.0 | 3.9 | GO:0006487 | protein N-linked glycosylation(GO:0006487) |
| 0.0 | 3.7 | GO:0006626 | protein targeting to mitochondrion(GO:0006626) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 10.8 | GO:0034707 | chloride channel complex(GO:0034707) |
| 0.6 | 10.7 | GO:0045180 | basal cortex(GO:0045180) |
| 0.2 | 7.6 | GO:0035371 | microtubule plus-end(GO:0035371) |
| 1.2 | 5.0 | GO:0097123 | cyclin A1-CDK2 complex(GO:0097123) |
| 0.2 | 4.4 | GO:0005779 | integral component of peroxisomal membrane(GO:0005779) |
| 0.1 | 4.3 | GO:0005747 | mitochondrial respiratory chain complex I(GO:0005747) NADH dehydrogenase complex(GO:0030964) respiratory chain complex I(GO:0045271) |
| 0.1 | 3.6 | GO:0005665 | DNA-directed RNA polymerase II, core complex(GO:0005665) |
| 0.0 | 3.5 | GO:0005811 | lipid particle(GO:0005811) |
| 0.2 | 2.8 | GO:0036513 | Derlin-1 retrotranslocation complex(GO:0036513) |
| 0.2 | 2.7 | GO:1990635 | proximal dendrite(GO:1990635) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.1 | 10.7 | GO:0004340 | glucokinase activity(GO:0004340) hexokinase activity(GO:0004396) |
| 0.1 | 7.9 | GO:0017080 | sodium channel regulator activity(GO:0017080) |
| 0.2 | 6.8 | GO:0016638 | oxidoreductase activity, acting on the CH-NH2 group of donors(GO:0016638) |
| 0.0 | 5.8 | GO:0047485 | protein N-terminus binding(GO:0047485) |
| 0.0 | 5.4 | GO:0004867 | serine-type endopeptidase inhibitor activity(GO:0004867) |
| 0.1 | 5.3 | GO:0005355 | glucose transmembrane transporter activity(GO:0005355) |
| 1.5 | 4.5 | GO:0022865 | transmembrane electron transfer carrier(GO:0022865) |
| 0.3 | 3.7 | GO:0017154 | semaphorin receptor activity(GO:0017154) |
| 0.7 | 3.6 | GO:0016971 | flavin-linked sulfhydryl oxidase activity(GO:0016971) |
| 0.3 | 3.5 | GO:0000774 | adenyl-nucleotide exchange factor activity(GO:0000774) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 10.6 | ST JNK MAPK PATHWAY | JNK MAPK Pathway |
| 0.3 | 5.3 | SA REG CASCADE OF CYCLIN EXPR | Expression of cyclins regulates progression through the cell cycle by activating cyclin-dependent kinases. |
| 0.1 | 3.6 | PID DNA PK PATHWAY | DNA-PK pathway in nonhomologous end joining |
| 0.0 | 2.8 | PID BETA CATENIN NUC PATHWAY | Regulation of nuclear beta catenin signaling and target gene transcription |
| 0.0 | 2.7 | PID ERBB1 DOWNSTREAM PATHWAY | ErbB1 downstream signaling |
| 0.0 | 2.6 | PID ECADHERIN STABILIZATION PATHWAY | Stabilization and expansion of the E-cadherin adherens junction |
| 0.1 | 2.5 | PID HDAC CLASSIII PATHWAY | Signaling events mediated by HDAC Class III |
| 0.0 | 2.1 | NABA PROTEOGLYCANS | Genes encoding proteoglycans |
| 0.0 | 2.1 | PID RAC1 REG PATHWAY | Regulation of RAC1 activity |
| 0.0 | 2.0 | PID TNF PATHWAY | TNF receptor signaling pathway |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 11.2 | REACTOME MITOCHONDRIAL PROTEIN IMPORT | Genes involved in Mitochondrial Protein Import |
| 0.3 | 10.2 | REACTOME REGULATION OF GENE EXPRESSION IN BETA CELLS | Genes involved in Regulation of gene expression in beta cells |
| 0.2 | 5.0 | REACTOME CYCLIN A B1 ASSOCIATED EVENTS DURING G2 M TRANSITION | Genes involved in Cyclin A/B1 associated events during G2/M transition |
| 0.1 | 4.3 | REACTOME RESPIRATORY ELECTRON TRANSPORT | Genes involved in Respiratory electron transport |
| 0.1 | 3.6 | REACTOME MICRORNA MIRNA BIOGENESIS | Genes involved in MicroRNA (miRNA) Biogenesis |
| 0.1 | 3.4 | REACTOME STEROID HORMONES | Genes involved in Steroid hormones |
| 0.2 | 3.3 | REACTOME SYNTHESIS OF SUBSTRATES IN N GLYCAN BIOSYTHESIS | Genes involved in Synthesis of substrates in N-glycan biosythesis |
| 0.1 | 2.9 | REACTOME FGFR4 LIGAND BINDING AND ACTIVATION | Genes involved in FGFR4 ligand binding and activation |
| 0.1 | 2.9 | REACTOME TRANSPORT OF VITAMINS NUCLEOSIDES AND RELATED MOLECULES | Genes involved in Transport of vitamins, nucleosides, and related molecules |
| 0.1 | 2.7 | REACTOME GLYCOSPHINGOLIPID METABOLISM | Genes involved in Glycosphingolipid metabolism |