HCSGD entry for KLF4
1. General information
| Official gene symbol | KLF4 |
|---|---|
| Entrez ID | 9314 |
| Gene full name | Kruppel-like factor 4 (gut) |
| Other gene symbols | EZF GKLF |
| Links to Entrez Gene | Links to Entrez Gene |
2. Neighbors in the network
This gene isn't in PPI subnetwork.
3. Gene ontology annotation
GO ID | GO term | Evidence | Category |
|---|---|---|---|
| GO:0000122 | Negative regulation of transcription from RNA polymerase II promoter | IDA | biological_process |
| GO:0000785 | Chromatin | IEA | cellular_component |
| GO:0000790 | Nuclear chromatin | IDA | cellular_component |
| GO:0000987 | Core promoter proximal region sequence-specific DNA binding | IDA | molecular_function |
| GO:0001010 | Sequence-specific DNA binding transcription factor recruiting transcription factor activity | IEA ISS | molecular_function |
| GO:0001077 | RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription | IEA IMP | molecular_function |
| GO:0001085 | RNA polymerase II transcription factor binding | IEA IPI ISS | molecular_function |
| GO:0001190 | RNA polymerase II transcription factor binding transcription factor activity involved in positive regulation of transcription | IDA | molecular_function |
| GO:0003690 | Double-stranded DNA binding | IEA | molecular_function |
| GO:0003700 | Sequence-specific DNA binding transcription factor activity | NAS | molecular_function |
| GO:0005515 | Protein binding | IPI | molecular_function |
| GO:0005634 | Nucleus | IDA IEA | cellular_component |
| GO:0005667 | Transcription factor complex | IEA | cellular_component |
| GO:0005730 | Nucleolus | IDA | cellular_component |
| GO:0006366 | Transcription from RNA polymerase II promoter | ISS | biological_process |
| GO:0007500 | Mesodermal cell fate determination | TAS | biological_process |
| GO:0008270 | Zinc ion binding | NAS | molecular_function |
| GO:0008285 | Negative regulation of cell proliferation | TAS | biological_process |
| GO:0009913 | Epidermal cell differentiation | IEA | biological_process |
| GO:0014067 | Negative regulation of phosphatidylinositol 3-kinase signaling | IEA | biological_process |
| GO:0014740 | Negative regulation of muscle hyperplasia | IEA | biological_process |
| GO:0019827 | Stem cell maintenance | IEA ISS | biological_process |
| GO:0031077 | Post-embryonic camera-type eye development | IEA | biological_process |
| GO:0032088 | Negative regulation of NF-kappaB transcription factor activity | IDA | biological_process |
| GO:0032526 | Response to retinoic acid | IEA | biological_process |
| GO:0034115 | Negative regulation of heterotypic cell-cell adhesion | IDA | biological_process |
| GO:0035014 | Phosphatidylinositol 3-kinase regulator activity | IEA | molecular_function |
| GO:0035166 | Post-embryonic hemopoiesis | IMP | biological_process |
| GO:0043154 | Negative regulation of cysteine-type endopeptidase activity involved in apoptotic process | IDA | biological_process |
| GO:0043565 | Sequence-specific DNA binding | IEA | molecular_function |
| GO:0044212 | Transcription regulatory region DNA binding | IEA ISS | molecular_function |
| GO:0045415 | Negative regulation of interleukin-8 biosynthetic process | IDA | biological_process |
| GO:0045444 | Fat cell differentiation | IEA ISS | biological_process |
| GO:0045595 | Regulation of cell differentiation | ISS | biological_process |
| GO:0045892 | Negative regulation of transcription, DNA-templated | IDA | biological_process |
| GO:0045893 | Positive regulation of transcription, DNA-templated | ISS NAS | biological_process |
| GO:0045944 | Positive regulation of transcription from RNA polymerase II promoter | IGI ISS | biological_process |
| GO:0046985 | Positive regulation of hemoglobin biosynthetic process | IMP | biological_process |
| GO:0048662 | Negative regulation of smooth muscle cell proliferation | IEA | biological_process |
| GO:0048730 | Epidermis morphogenesis | IEA | biological_process |
| GO:0050728 | Negative regulation of inflammatory response | TAS | biological_process |
| GO:0051247 | Positive regulation of protein metabolic process | IGI | biological_process |
| GO:0051898 | Negative regulation of protein kinase B signaling | IEA | biological_process |
| GO:0060761 | Negative regulation of response to cytokine stimulus | IDA | biological_process |
| GO:0070301 | Cellular response to hydrogen peroxide | IEA | biological_process |
| GO:0070373 | Negative regulation of ERK1 and ERK2 cascade | IEA | biological_process |
| GO:0071363 | Cellular response to growth factor stimulus | IDA | biological_process |
| GO:0071409 | Cellular response to cycloheximide | IEA | biological_process |
| GO:0090051 | Negative regulation of cell migration involved in sprouting angiogenesis | IDA | biological_process |
| GO:1901653 | Cellular response to peptide | IEA | biological_process |
| GO:2000342 | Negative regulation of chemokine (C-X-C motif) ligand 2 production | IDA | biological_process |
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4. Expression levels in datasets
- Meta-analysis result
| p-value up | p-value down | FDR up | FDR down |
|---|---|---|---|
| 0.1104152692 | 0.0220558223 | 0.6876469729 | 0.2858352043 |
- Individual experiment result
( "-" represent NA in the specific microarray platform )
( "-" represent NA in the specific microarray platform )
| Data source | Up or down | Log fold change |
|---|---|---|
| GSE11954 | Up | 0.2625030892 |
| GSE13712_SHEAR | Down | -0.4427207947 |
| GSE13712_STATIC | Down | -0.1686842173 |
| GSE19018 | Down | -0.5462583979 |
| GSE19899_A1 | Down | -0.0034136593 |
| GSE19899_A2 | Down | -1.6905002999 |
| PubMed_21979375_A1 | Down | -1.0666278936 |
| PubMed_21979375_A2 | Down | -1.6708055459 |
| GSE35957 | Down | -0.3419357452 |
| GSE36640 | Up | 0.4979671881 |
| GSE54402 | Down | -1.7060840959 |
| GSE9593 | Up | 1.0647664153 |
| GSE43922 | Down | -0.1090718525 |
| GSE24585 | Up | 0.0540503467 |
| GSE37065 | Up | 0.4071179705 |
| GSE28863_A1 | Up | 0.6607250287 |
| GSE28863_A2 | Up | 0.0087884148 |
| GSE28863_A3 | Up | 0.0576450747 |
| GSE28863_A4 | Up | 0.4932448828 |
| GSE48662 | Down | -0.2016796951 |
5. Regulation relationships with compounds/drugs/microRNAs
- Compounds
Not regulated by compounds
- Drugs
Not regulated by drugs
- MicroRNAs
- mirTarBase
- mirTarBase
MiRNA_name | mirBase ID | miRTarBase ID | Experiment | Support type | References (Pubmed ID) |
|---|---|---|---|---|---|
| hsa-miR-145-5p | MIMAT0000437 | MIRT000308 | FACS//Flow//GFP reporter assay//In situ hybridization//Luciferase reporter assay//qRT-PCR//Reporter assay;Western blot;qRT-PCR | Functional MTI | 19409607 |
| hsa-miR-10b-5p | MIMAT0000254 | MIRT003216 | Luciferase reporter assay//Western blot | Functional MTI | 20075075 |
| hsa-miR-25-3p | MIMAT0000081 | MIRT003605 | Western blot | Functional MTI | 19541842 |
| hsa-miR-135b-5p | MIMAT0000758 | MIRT005440 | Luciferase reporter assay//Microarray//qRT-PCR | Functional MTI | 20981674 |
| hsa-miR-130a-3p | MIMAT0000425 | MIRT005674 | Luciferase reporter assay//Microarray//qRT-PCR | Functional MTI | 20981674 |
| hsa-miR-103a-3p | MIMAT0000101 | MIRT006688 | Luciferase reporter assay//Western blot | Functional MTI | 22593189 |
| hsa-miR-107 | MIMAT0000104 | MIRT006692 | Luciferase reporter assay//Western blot | Functional MTI | 22593189 |
| hsa-miR-335-5p | MIMAT0000765 | MIRT016880 | Microarray | Functional MTI (Weak) | 18185580 |
| hsa-miR-128-3p | MIMAT0000424 | MIRT021926 | Reporter assay | Non-Functional MTI | 19409607 |
| hsa-miR-124-3p | MIMAT0000422 | MIRT022234 | Microarray | Functional MTI (Weak) | 18668037 |
| hsa-miR-30b-5p | MIMAT0000420 | MIRT046110 | CLASH | Functional MTI (Weak) | 23622248 |
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- mirRecord
- mirRecord
MicroRNA name | mirBase ID | Target site number | MiRNA mature ID | Test method inter | MiRNA regulation site | Reporter target site | Pubmed ID |
|---|---|---|---|---|---|---|---|
| hsa-miR-10b-5p | MIMAT0000254 | 1 | hsa-miR-10b | {Western blot} | {overexpression by miRNA mimics tranfection} | 20075075 | |
| hsa-miR-137 | MIMAT0000429 | 1 | hsa-miR-137 | 22003227 |
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6. Text-mining results about the gene
Gene occurances in abstracts of cellular senescence-associated articles: 8 abstracts the gene occurs.
PubMed ID of the article | Sentenece the gene occurs |
|---|---|
| 26096152 | Somatic cells can be reprogrammed into induced pluripotent stem cells (iPSC) by the forced expression of the transcription factors OCT4, SOX2, KLF4 and c-MYC |
| 25515777 | The acquisition of pluripotent cells can be achieved by combined overexpression of transcription factors Oct4, Klf4, Sox2 and c-Myc in somatic cells |
| 24788960 | Oxidative DNA damage causes premature senescence in mouse embryonic fibroblasts deficient for Kruppel-like factor 4 |
| 24788960 | Kruppel-like factor 4 (KLF4) is a zinc-finger-containing transcription factor with tumor suppressor activity in various cancer types |
| 24788960 | Recently, we found that mouse embryonic fibroblasts (MEFs) null for Klf4 are genetically unstable, as evidenced by the presence of DNA DSBs |
| 24788960 | However, it is yet unknown whether KLF4 is involved in regulating oxidative stress-induced DNA damage |
| 24788960 | With SA-beta-Gal staining, we show that Klf4(-/-) MEFs enter senescence earlier than Klf4(+/+) MEFs, and western blot shows accumulation of p21 and p53 with increasing passages |
| 24788960 | In addition, immunostaining against gamma-H2AX indicates that the increased level of DNA damage in Klf4(-/-) MEFs positively correlates with ROS accumulation |
| 24788960 | Our RT-PCR result demonstrates that Klf4(-/-) MEFs have decreased expression of the antioxidant gene, Gsta4 |
| 24788960 | Together these findings suggest a mechanism by which KLF4 protects against DNA damage and oxidative stress at least in part through the regulation of Gsta4 and likely related genes |
| 24763337 | Introduction of "reprogramming factors", Oct4, Sox2, Klf4, cMyc and Lin28, into senescent fibroblasts and measuring the changes in HP1beta mobility as reprogramming proceeds shows that the mobility of HP1beta in senescent cells increases and by day 9 is the same as that found in young fibroblasts |
| 23696417 | A chimeric luciferase reporter system was generated, tagged with the full-length 3'-UTR region of KLF4 harboring the seed-matched sequence with or without four nucleotide mutations |
| 23696417 | The luciferase activity was significantly repressed by the miR-10a mimic, proving the direct binding of miR-10a to the 3'-UTR of KLF4 |
| 23696417 | Direct suppression of KLF4 in aged hMSCs increased cell differentiation and decreased cell senescence |
| 23696417 | In conclusion, miR-10a restores the differentiation capability of aged hMSCs through repression of KLF4 |
| 23318426 | Here we demonstrate that the introduction of defined reprogramming factors (OCT4, SOX2, Klf4 and c-Myc) into MCF-10A nontumorigenic mammary epithelial cells, followed by partial differentiation, transforms the bulk of cells into tumorigenic CD44(+)/CD24(low) cells with CSC properties, termed here as induced CSC-like-10A or iCSCL-10A cells |
| 22683798 | Two hiPSC lines, hiPSC (1) and hiPSC (2) were generated from human dermal fibroblasts using OCT-4, SOX-2, KLF-4, c-Myc via retroviral-based reprogramming |
| 18668528 | Recently, isolation of patient-specific induced pluripotent stem (iPS) cells was achieved by transducing fibroblasts with four transcription factors, Oct4, Sox2, Klf4, and c-Myc |
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