TF information
| TF name: | PDX1 |
| TF family: | Homeobox |
| Ensembl gene ID: | ENSG00000139515 |
| Ensembl protein ID: | ENSP00000370421 |
| Entrez gene ID: | 3651 |
| Database name | Link | Database name | Link |
| NCBI Gene: |  |
Genecards: |  |
| Uniprot: |  |
Wikipedia: |  |
| Cosmic 3D: |  |
Geneontology: |  |
| CCLE: |  |
Frequency of PDX1 in all biosamples
| Sample ID | Biosample type | Tissue type | Biosample name | TF Frequency |
|---|---|---|---|---|
| Sample_02_189 | Cell line | Stomach | SNU016 | 0.5 |
| Sample_02_354 | Cell line | Colon | Colo205 | 0.51051051051051 |
PDX1 distribution in samples’ most representative CRC
| Sample ID | Tissue type | Biosample type | Biosample name |
|---|
PDX1 distribution in all CRCs
Genomic distribution of SEs associated with PDX1
Genomic distribution of SEs associated with TF
Figure legend:
Genomic distribution of SEs associated with TF: It can roughly understand the genomic regions of SEs associated with TF, and help to carry out the next analysis, such as knocking down the experiment.
What is important information?
The yellow box can be thought of as the common genomic regions that regulates the SEs associated with TF. For example, if a knockdown experiment is performed on this region, then theoretically, the expression of the TF will be greatly reduced.
| Database name | Link |
|---|---|
| Cosmic: |  |
| Cosmic cell lines: |  |
| Depmap: |  |
TCGA somatic mutations and clinical variants of PDX1
| rsID | Chr | Start | Stop | Ref | Alt | Gene_region | Gene_symble | Effect | TCGA_Occurrence |
|---|---|---|---|---|---|---|---|---|---|
| - | chr13 | 28498646 | 28498646 | C | T | exonic | PDX1 | synonymous | SKCM|1|368|0.00272 |
| - | chr13 | 28498598 | 28498598 | G | A | exonic | PDX1 | synonymous | SKCM|1|368|0.00272 |
| - | chr13 | 28498713 | 28498713 | C | - | exonic | PDX1 | frameshift | STAD|1|395|0.00253,STES|1|395|0.00253 |
| - | chr13 | 28498435 | 28498435 | G | A | exonic | PDX1 | nonsynonymous | ESCA|1|185|0.00541 |
| - | chr13 | 28498525 | 28498525 | C | T | exonic | PDX1 | nonsynonymous | LIHC|1|373|0.00268 |
| - | chr13 | 28494313 | 28494313 | T | - | exonic | PDX1 | frameshift | HNSC|1|512|0.00195 |
| - | chr13 | 28494294 | 28494294 | T | C | exonic | PDX1 | nonsynonymous | ACC|1|90|0.01111 |
| - | chr13 | 28494641 | 28494641 | G | T | exonic | PDX1 | nonsynonymous | HNSC|1|512|0.00195 |
| rs776932903 | chr13 | 28498619 | 28498619 | C | T | exonic | PDX1 | synonymous | ESCA|1|185|0.00541 |
| - | chr13 | 28498617 | 28498617 | G | A | exonic | PDX1 | nonsynonymous | LUAD|1|543|0.00184 |
| - | chr13 | 28498618 | 28498618 | G | A | exonic | PDX1 | nonsynonymous | BRCA|1|982|0.00102 |
| - | chr13 | 28494606 | 28494606 | G | A | exonic | PDX1 | nonsynonymous | BLCA|2|396|0.00505 |
| - | chr13 | 28498512 | 28498512 | C | A | exonic | PDX1 | synonymous | LUAD|1|543|0.00184 |
| - | chr13 | 28498541 | 28498541 | G | C | exonic | PDX1 | nonsynonymous | BLCA|1|396|0.00253,HNSC|2|512|0.00391 |
| - | chr13 | 28498614 | 28498614 | G | A | exonic | PDX1 | nonsynonymous | HNSC|1|512|0.00195 |
| - | chr13 | 28498408 | 28498408 | C | T | exonic | PDX1 | nonsynonymous | PAAD|1|185|0.00541 |
| - | chr13 | 28498415 | 28498415 | G | T | exonic | PDX1 | synonymous | LUAD|1|543|0.00184 |
| - | chr13 | 28498678 | 28498678 | C | T | exonic | PDX1 | nonsynonymous | SKCM|1|368|0.00272 |
| rs200411304 | chr13 | 28498679 | 28498679 | C | T | exonic | PDX1 | synonymous | SKCM|1|368|0.00272 |
| - | chr13 | 28498687 | 28498687 | A | C | exonic | PDX1 | nonsynonymous | SKCM|1|368|0.00272 |
| - | chr13 | 28498640 | 28498640 | C | T | exonic | PDX1 | synonymous | UCEC|1|248|0.00403 |
| - | chr13 | 28498513 | 28498513 | G | T | exonic | PDX1 | nonsynonymous | LIHC|1|373|0.00268 |
| - | chr13 | 28498509 | 28498509 | C | T | exonic | PDX1 | nonsynonymous | CESC|1|194|0.00515 |
| - | chr13 | 28494404 | 28494404 | G | C | exonic | PDX1 | synonymous | TGCT|1|155|0.00645 |
| - | chr13 | 28498625 | 28498625 | A | T | exonic | PDX1 | synonymous | LUAD|1|543|0.00184 |
| rs771445149 | chr13 | 28498612 | 28498612 | G | A | exonic | PDX1 | nonsynonymous | STAD|1|395|0.00253,STES|1|395|0.00253 |
| - | chr13 | 28498562 | 28498562 | C | A | exonic | PDX1 | synonymous | SARC|1|247|0.00405 |
| - | chr13 | 28494291 | 28494291 | C | A | exonic | PDX1 | nonsynonymous | COAD|1|367|0.00272,COADREAD|1|489|0.00204 |
| TF_name | Disease_name | Disease_class | Disease_semantic_type | TF_disease_source |
|---|---|---|---|---|
| PDX1 | Alloxan Diabetes | C18;C19 | Experimental Model of Disease | CTD_human |
| PDX1 | Diabetes Mellitus, Experimental | C18;C19 | Experimental Model of Disease | CTD_human |
| PDX1 | Diabetes Mellitus, Non-Insulin-Dependent | C18;C19 | Disease or Syndrome | CTD_human |
| PDX1 | Pancreatic Neoplasm | C04;C06;C19 | Neoplastic Process | CTD_human |
| PDX1 | Streptozotocin Diabetes | C18;C19 | Experimental Model of Disease | CTD_human |
| PDX1 | Maturity onset diabetes mellitus in young | C18;C19 | Disease or Syndrome | ORPHANET |
| PDX1 | Malignant neoplasm of pancreas | C04;C06;C19 | Neoplastic Process | CTD_human |
| PDX1 | DIABETES MELLITUS, PERMANENT NEONATAL | C18;C19 | Disease or Syndrome | CTD_human;ORPHANET |
| PDX1 | MATURITY-ONSET DIABETES OF THE YOUNG, TYPE IV (disorder) | C18;C19 | Disease or Syndrome | CTD_human |
| PDX1 | Pancreatic Agenesis, Congenital | C06 | Disease or Syndrome | CTD_human;ORPHANET |
| pathway_ID | pathway_name | pathway_source | gene_number | edge_number |
|---|---|---|---|---|
| pathway0000825 | FOXA2 and FOXA3 transcription factor networks | pid | 45 | 202 |
| pathway0001834 | Regulation of gene expression in beta cells | reactome | 17 | 54 |
| pathway0001835 | Regulation of gene expression in early pancreatic precursor cells | reactome | 8 | 8 |
| pathway0002629 | Type II diabetes mellitus | kegg | 44 | 261 |
| pathway0002631 | Maturity onset diabetes of the young | kegg | 25 | 76 |
| GO_term_name | GO_term_type | TF_name |
|---|---|---|
| GO_NEGATIVE_REGULATION_OF_RESPONSE_TO_ENDOPLASMIC_RETICULUM_STRESS | BP | PDX1 |
| GO_RESPONSE_TO_NITROGEN_COMPOUND | BP | PDX1 |
| GO_HEPATICOBILIARY_SYSTEM_DEVELOPMENT | BP | PDX1 |
| GO_REGULATION_OF_EPITHELIAL_CELL_APOPTOTIC_PROCESS | BP | PDX1 |
| GO_ORGAN_REGENERATION | BP | PDX1 |
| GO_RESPONSE_TO_ACID_CHEMICAL | BP | PDX1 |
| GO_RESPONSE_TO_CORTICOSTEROID | BP | PDX1 |
| GO_POSITIVE_REGULATION_OF_BINDING | BP | PDX1 |
| GO_INSULIN_SECRETION | BP | PDX1 |
| GO_HORMONE_TRANSPORT | BP | PDX1 |
| GO_REGENERATION | BP | PDX1 |
| GO_PEPTIDE_SECRETION | BP | PDX1 |
| GO_POSITIVE_REGULATION_OF_DNA_BINDING | BP | PDX1 |
| GO_PANCREAS_DEVELOPMENT | BP | PDX1 |
| GO_NEGATIVE_REGULATION_OF_INTRINSIC_APOPTOTIC_SIGNALING_PATHWAY | BP | PDX1 |
| GO_NEGATIVE_REGULATION_OF_EPITHELIAL_CELL_APOPTOTIC_PROCESS | BP | PDX1 |
| GO_ENDOCRINE_PANCREAS_DEVELOPMENT | BP | PDX1 |
| GO_REGULATION_OF_DNA_BINDING | BP | PDX1 |
| GO_REGULATION_OF_ENDOPLASMIC_RETICULUM_STRESS_INDUCED_INTRINSIC_APOPTOTIC_SIGNALING_PATHWAY | BP | PDX1 |
| GO_EXOCRINE_SYSTEM_DEVELOPMENT | BP | PDX1 |
| GO_RESPONSE_TO_NICOTINE | BP | PDX1 |
| GO_RESPONSE_TO_FATTY_ACID | BP | PDX1 |
| GO_ENTEROENDOCRINE_CELL_DIFFERENTIATION | BP | PDX1 |
| GO_GLUCOSE_METABOLIC_PROCESS | BP | PDX1 |
| GO_SMOOTHENED_SIGNALING_PATHWAY | BP | PDX1 |
| GO_NEGATIVE_REGULATION_OF_ENDOPLASMIC_RETICULUM_STRESS_INDUCED_INTRINSIC_APOPTOTIC_SIGNALING_PATHWAY | BP | PDX1 |
| GO_REGULATION_OF_PEPTIDE_SECRETION | BP | PDX1 |
| GO_RESPONSE_TO_TRANSITION_METAL_NANOPARTICLE | BP | PDX1 |
| GO_NITRIC_OXIDE_MEDIATED_SIGNAL_TRANSDUCTION | BP | PDX1 |
| GO_RESPONSE_TO_NUTRIENT | BP | PDX1 |
| GO_POSITIVE_REGULATION_OF_INSULIN_SECRETION_INVOLVED_IN_CELLULAR_RESPONSE_TO_GLUCOSE_STIMULUS | BP | PDX1 |
| GO_RESPONSE_TO_IRON_ION | BP | PDX1 |
| GO_PEPTIDE_TRANSPORT | BP | PDX1 |
| GO_REGULATION_OF_TRANSCRIPTION_FROM_RNA_POLYMERASE_II_PROMOTER | BP | PDX1 |
| GO_GLANDULAR_EPITHELIAL_CELL_DIFFERENTIATION | BP | PDX1 |
| GO_TRANSCRIPTION_FACTOR_ACTIVITY_RNA_POLYMERASE_II_DISTAL_ENHANCER_SEQUENCE_SPECIFIC_BINDING | MF | PDX1 |
| GO_CORE_PROMOTER_SEQUENCE_SPECIFIC_DNA_BINDING | MF | PDX1 |