TF information
| TF name: | SOX2 |
| TF family: | HMG |
| Ensembl gene ID: | ENSG00000181449 |
| Ensembl protein ID: | ENSP00000323588 |
| Entrez gene ID: | 6657 |
| Database name | Link | Database name | Link |
| NCBI Gene: |  |
Genecards: |  |
| Uniprot: |  |
Wikipedia: |  |
| Cosmic 3D: |  |
Geneontology: |  |
| CCLE: |  |
Frequency of SOX2 in all biosamples
| Sample ID | Biosample type | Tissue type | Biosample name | TF Frequency |
|---|---|---|---|---|
| Sample_02_228 | Cell line | Oesophagus | KYSE510 | 0.97483690587139 |
| Sample_02_250 | Tissue | Brain | tumormodel3691 | 0.65625 |
| Sample_02_310 | Cell line | Neuroblastoma | SJNB8 | 0.026212319790301 |
| Sample_02_413 | Tissue | Brain | GBM_2493 | 0.51098901098901 |
| Sample_02_424 | Cell line | Colon | SW620 | 0.39130434782609 |
SOX2 distribution in samples’ most representative CRC
| Sample ID | Tissue type | Biosample type | Biosample name |
|---|---|---|---|
| Sample_02_228 | Oesophagus | Cell line | KYSE510 |
| Sample_02_250 | Brain | Tissue | tumormodel3691 |
| Sample_02_413 | Brain | Tissue | GBM_2493 |
SOX2 distribution in all CRCs
Genomic distribution of SEs associated with SOX2
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 SOX2
| rsID | Chr | Start | Stop | Ref | Alt | Gene_region | Gene_symble | Effect | TCGA_Occurrence |
|---|---|---|---|---|---|---|---|---|---|
| - | chr3 | 181430542 | 181430542 | C | T | exonic | SOX2 | synonymous | STAD|1|395|0.00253,STES|1|395|0.00253 |
| - | chr3 | 181430398 | 181430398 | G | T | exonic | SOX2 | stopgain | CESC|1|194|0.00515 |
| - | chr3 | 181430266 | 181430266 | C | T | exonic | SOX2 | nonsynonymous | BLCA|1|396|0.00253 |
| - | chr3 | 181430384 | 181430384 | G | T | exonic | SOX2 | nonsynonymous | ACC|1|90|0.01111 |
| - | chr3 | 181431011 | 181431011 | C | - | exonic | SOX2 | frameshift | ESCA|1|185|0.00541 |
| - | chr3 | 181430281 | 181430281 | A | T | exonic | SOX2 | nonsynonymous | LUSC|1|178|0.00562 |
| - | chr3 | 181430308 | 181430308 | G | A | exonic | SOX2 | nonsynonymous | COAD|1|367|0.00272,COADREAD|1|489|0.00204,SKCM|1|368|0.00272 |
| - | chr3 | 181430750 | 181430750 | A | G | exonic | SOX2 | nonsynonymous | COAD|1|367|0.00272,COADREAD|1|489|0.00204 |
| - | chr3 | 181430930 | 181430930 | C | T | exonic | SOX2 | nonsynonymous | PAAD|1|185|0.00541 |
| - | chr3 | 181430438 | 181430438 | T | G | exonic | SOX2 | nonsynonymous | BLCA|1|396|0.00253 |
| - | chr3 | 181430901 | 181430901 | C | - | exonic | SOX2 | frameshift | STAD|1|395|0.00253,STES|1|395|0.00253 |
| - | chr3 | 181430702 | 181430702 | G | A | exonic | SOX2 | nonsynonymous | GBMLGG|1|820|0.00122,LGG|1|530|0.00189 |
| - | chr3 | 181430973 | 181430973 | C | T | exonic | SOX2 | synonymous | GBMLGG|1|820|0.00122,LGG|1|530|0.00189 |
| - | chr3 | 181430501 | 181430501 | C | T | exonic | SOX2 | nonsynonymous | STAD|1|395|0.00253,STES|1|395|0.00253 |
| - | chr3 | 181430846 | 181430846 | C | A | exonic | SOX2 | nonsynonymous | UCEC|1|248|0.00403 |
| - | chr3 | 181430802 | 181430802 | C | T | exonic | SOX2 | synonymous | UCEC|1|248|0.00403 |
| - | chr3 | 181430600 | 181430600 | C | T | exonic | SOX2 | nonsynonymous | UCEC|1|248|0.00403 |
| - | chr3 | 181430376 | 181430376 | C | T | exonic | SOX2 | synonymous | COAD|1|367|0.00272,COADREAD|1|489|0.00204 |
| - | chr3 | 181430503 | 181430503 | C | T | exonic | SOX2 | nonsynonymous | UCEC|1|248|0.00403 |
| - | chr3 | 181430265 | 181430265 | C | - | exonic | SOX2 | frameshift | THCA|1|504|0.00198 |
| - | chr3 | 181430405 | 181430405 | A | G | exonic | SOX2 | nonsynonymous | COAD|1|367|0.00272,COADREAD|1|489|0.00204 |
| - | chr3 | 181430346 | 181430346 | G | A | exonic | SOX2 | nonsynonymous | CESC|1|194|0.00515 |
| - | chr3 | 181430259 | 181430259 | C | T | exonic | SOX2 | synonymous | UCEC|1|248|0.00403 |
| - | chr3 | 181430873 | 181430873 | C | T | exonic | SOX2 | nonsynonymous | HNSC|2|512|0.00391 |
| - | chr3 | 181430441 | 181430441 | G | A | exonic | SOX2 | nonsynonymous | BLCA|2|396|0.00505 |
| - | chr3 | 181430208 | 181430226 | CGGCGGCGGCAACTCCACC | - | exonic | SOX2 | frameshift | CHOL|1|35|0.02857 |
| rs774944911 | chr3 | 181430808 | 181430808 | G | C | exonic | SOX2 | synonymous | COAD|1|367|0.00272,COADREAD|1|489|0.00204 |
| - | chr3 | 181430398 | 181430398 | G | A | exonic | SOX2 | nonsynonymous | BRCA|1|982|0.00102 |
| - | chr3 | 181430953 | 181430953 | G | T | exonic | SOX2 | nonsynonymous | BLCA|1|396|0.00253 |
| - | chr3 | 181430415 | 181430415 | G | A | exonic | SOX2 | synonymous | STAD|1|395|0.00253,STES|1|395|0.00253 |
| - | chr3 | 181430843 | 181430843 | C | T | exonic | SOX2 | nonsynonymous | HNSC|1|512|0.00195 |
| - | chr3 | 181430499 | 181430499 | G | A | exonic | SOX2 | synonymous | HNSC|1|512|0.00195 |
| - | chr3 | 181430445 | 181430445 | G | A | exonic | SOX2 | synonymous | COAD|1|367|0.00272,COADREAD|1|489|0.00204 |
| - | chr3 | 181430944 | 181430944 | C | G | exonic | SOX2 | nonsynonymous | CESC|1|194|0.00515 |
| - | chr3 | 181430349 | 181430349 | C | A | exonic | SOX2 | nonsynonymous | COAD|1|367|0.00272,COADREAD|1|489|0.00204 |
| - | chr3 | 181430864 | 181430864 | C | A | exonic | SOX2 | nonsynonymous | HNSC|1|512|0.00195 |
| - | chr3 | 181430977 | 181430977 | T | C | exonic | SOX2 | nonsynonymous | COAD|1|367|0.00272,COADREAD|1|489|0.00204 |
| - | chr3 | 181430620 | 181430620 | G | A | exonic | SOX2 | nonsynonymous | CESC|1|194|0.00515 |
| - | chr3 | 181430283 | 181430283 | G | C | exonic | SOX2 | nonsynonymous | BLCA|1|396|0.00253 |
| - | chr3 | 181430614 | 181430614 | C | T | exonic | SOX2 | nonsynonymous | BRCA|1|982|0.00102 |
| - | chr3 | 181431045 | 181431045 | G | A | exonic | SOX2 | synonymous | SKCM|1|368|0.00272 |
| - | chr3 | 181430832 | 181430832 | G | A | exonic | SOX2 | synonymous | COAD|1|367|0.00272,COADREAD|1|489|0.00204 |
| - | chr3 | 181430792 | 181430792 | C | T | exonic | SOX2 | nonsynonymous | COAD|1|367|0.00272,COADREAD|1|489|0.00204 |
| - | chr3 | 181430399 | 181430399 | A | - | exonic | SOX2 | frameshift | BLCA|1|396|0.00253 |
| - | chr3 | 181430877 | 181430877 | G | - | exonic | SOX2 | frameshift | HNSC|1|512|0.00195 |
| - | chr3 | 181430637 | 181430637 | G | A | exonic | SOX2 | nonsynonymous | BLCA|1|396|0.00253 |
| - | chr3 | 181430578 | 181430578 | G | C | exonic | SOX2 | nonsynonymous | LUAD|1|543|0.00184 |
| - | chr3 | 181430271 | 181430271 | C | G | exonic | SOX2 | synonymous | BRCA|1|982|0.00102 |
| TF_name | Disease_name | Disease_class | Disease_semantic_type | TF_disease_source |
|---|---|---|---|---|
| SOX2 | Anophthalmos | C11;C16 | Congenital Abnormality | CTD_human |
| SOX2 | Brain Neoplasms | C04;C10 | Neoplastic Process | CTD_human |
| SOX2 | Non-Small Cell Lung Carcinoma | C04;C08 | Neoplastic Process | CGI |
| SOX2 | Squamous cell carcinoma | C04 | Neoplastic Process | CTD_human |
| SOX2 | Congenital ocular coloboma (disorder) | C11;C16 | Congenital Abnormality | GENOMICS_ENGLAND |
| SOX2 | Esophageal Neoplasms | C04;C06 | Neoplastic Process | CGI |
| SOX2 | Lung Neoplasms | C04;C08 | Neoplastic Process | CTD_human |
| SOX2 | Neoplasm Recurrence, Local | C04;C23 | Neoplastic Process | CTD_human |
| SOX2 | Osteogenesis Imperfecta | C05;C16;C17 | Congenital Abnormality; Disease or Syndrome | GENOMICS_ENGLAND |
| SOX2 | Prostatic Neoplasms | C04;C12 | Neoplastic Process | CTD_human |
| SOX2 | Thoracic Neoplasms | C04 | Neoplastic Process | CTD_human |
| SOX2 | Cataract | C11 | Acquired Abnormality | GENOMICS_ENGLAND |
| SOX2 | Small cell carcinoma of lung | C04;C08 | Neoplastic Process | CTD_human |
| SOX2 | Adenocarcinoma of lung (disorder) | C04;C08 | Neoplastic Process | CTD_human |
| SOX2 | Malignant neoplasm of brain | C04;C10 | Neoplastic Process | CTD_human |
| SOX2 | Kallmann Syndrome | C12;C13;C16;C19 | Disease or Syndrome | ORPHANET |
| SOX2 | Sarcoma, Epithelioid | C04 | Neoplastic Process | CTD_human |
| SOX2 | Sarcoma, Spindle Cell | C04 | Neoplastic Process | CTD_human |
| SOX2 | Malignant neoplasm of lung | C04;C08 | Neoplastic Process | CTD_human |
| SOX2 | Squamous cell carcinoma of esophagus | C04;C06 | Neoplastic Process | CTD_human |
| SOX2 | Septo-Optic Dysplasia | C10;C16 | Disease or Syndrome | ORPHANET |
| SOX2 | Idiopathic hypogonadotropic hypogonadism | C19 | Disease or Syndrome | GENOMICS_ENGLAND |
| SOX2 | Malignant neoplasm of prostate | C04;C12 | Neoplastic Process | CTD_human |
| SOX2 | Benign neoplasm of brain, unspecified | C04;C10 | Neoplastic Process | CTD_human |
| SOX2 | Brain Tumor, Primary | C04;C10 | Neoplastic Process | CTD_human |
| SOX2 | Recurrent Brain Neoplasm | C04;C10 | Neoplastic Process | CTD_human |
| SOX2 | Primary malignant neoplasm of brain | C04;C10 | Neoplastic Process | CTD_human |
| SOX2 | Sarcoma | C04 | Neoplastic Process | CTD_human |
| SOX2 | Neoplasms, Intracranial | C04;C10 | Neoplastic Process | CTD_human |
| SOX2 | MICROPHTHALMIA, ISOLATED 1 | C11;C16 | Disease or Syndrome | ORPHANET |
| SOX2 | Microphthalmia, Syndromic 3 | C06;C10;C11;C16 | Disease or Syndrome | CTD_human;ORPHANET;UNIPROT |
| SOX2 | Optic Nerve Hypoplasia and Abnormalities of the Central Nervous System | C10;C11 | Disease or Syndrome | UNIPROT |
| SOX2 | Esophageal atresia with or without tracheoesophageal fistula | C06;C08;C16;C23 | Disease or Syndrome | CTD_human |
| SOX2 | Intellectual Disability | C10;C23;F01;F03 | Mental or Behavioral Dysfunction | GENOMICS_ENGLAND |
| pathway_ID | pathway_name | pathway_source | gene_number | edge_number |
|---|---|---|---|---|
| pathway0000549 | Deactivation of the beta-catenin transactivating complex | reactome | 42 | 236 |
| pathway0001701 | POU5F1 (OCT4), SOX2, NANOG activate genes related to proliferation | reactome | 13 | 36 |
| pathway0001702 | POU5F1 (OCT4), SOX2, NANOG repress genes related to differentiation | reactome | 10 | 27 |
| pathway0002301 | Transcriptional regulation of pluripotent stem cells | reactome | 28 | 184 |
| pathway0002740 | Hs_Endoderm_Differentiation_WP2853_88152 | wikipathways | 62 | 260 |
| pathway0002746 | Hs_Dopaminergic_Neurogenesis_WP2855_87239 | wikipathways | 19 | 37 |
| pathway0002821 | Hs_Wnt_Signaling_Pathway_and_Pluripotency_WP399_90291 | wikipathways | 12 | 20 |
| pathway0002826 | Hs_Mesodermal_Commitment_Pathway_WP2857_87780 | wikipathways | 47 | 175 |
| pathway0002841 | Hs_Ectoderm_Differentiation_WP2858_89329 | wikipathways | 56 | 137 |
| GO_term_name | GO_term_type | TF_name |
|---|---|---|
| GO_SOMATIC_STEM_CELL_POPULATION_MAINTENANCE | BP | SOX2 |
| GO_NEGATIVE_REGULATION_OF_NEURON_DIFFERENTIATION | BP | SOX2 |
| GO_FORMATION_OF_PRIMARY_GERM_LAYER | BP | SOX2 |
| GO_OSTEOBLAST_DIFFERENTIATION | BP | SOX2 |
| GO_PITUITARY_GLAND_DEVELOPMENT | BP | SOX2 |
| GO_NEGATIVE_REGULATION_OF_NITROGEN_COMPOUND_METABOLIC_PROCESS | BP | SOX2 |
| GO_CELL_FATE_COMMITMENT_INVOLVED_IN_FORMATION_OF_PRIMARY_GERM_LAYER | BP | SOX2 |
| GO_ENDODERMAL_CELL_DIFFERENTIATION | BP | SOX2 |
| GO_TISSUE_REGENERATION | BP | SOX2 |
| GO_MAINTENANCE_OF_CELL_NUMBER | BP | SOX2 |
| GO_NEUROGENESIS | BP | SOX2 |
| GO_NEURONAL_STEM_CELL_POPULATION_MAINTENANCE | BP | SOX2 |
| GO_POSITIVE_REGULATION_OF_CELL_CELL_ADHESION | BP | SOX2 |
| GO_GLIAL_CELL_FATE_COMMITMENT | BP | SOX2 |
| GO_ENDOCRINE_SYSTEM_DEVELOPMENT | BP | SOX2 |
| GO_GLIAL_CELL_DIFFERENTIATION | BP | SOX2 |
| GO_CELL_FATE_SPECIFICATION | BP | SOX2 |
| GO_ADENOHYPOPHYSIS_DEVELOPMENT | BP | SOX2 |
| GO_ENDODERMAL_CELL_FATE_COMMITMENT | BP | SOX2 |
| GO_NUCLEAR_ENVELOPE | CC | SOX2 |
| GO_INTRINSIC_COMPONENT_OF_GOLGI_MEMBRANE | CC | SOX2 |
| GO_MIRNA_BINDING | MF | SOX2 |
| GO_INTRAMOLECULAR_OXIDOREDUCTASE_ACTIVITY_TRANSPOSING_S_S_BONDS | MF | SOX2 |
| GO_INTRAMOLECULAR_OXIDOREDUCTASE_ACTIVITY | MF | SOX2 |