Stats by Source
Total, split by cell line (COSMIC CL / DepMap / PubMed) vs tissue (COSMIC primary tissue)
Total = all mutations for this gene across every source.
Cell line = COSMIC Cell Lines Project + DepMap + PubMed.
Tissue = COSMIC primary-tissue (patient tumour) samples.
Total can exceed cell line + tissue: COSMIC tissue-derived models sit only in global, and a peptide can be shared across both.
| Total | Cell line | Tissue | |
|---|---|---|---|
| Mutations | 365 | 59 | 301 |
| Samples | 163 | 41 | 119 |
| Peptides | 114 | 21 | 95 |
Function
SDC1 · Syndecan 1
The protein encoded by this gene is a transmembrane (type I) heparan sulfate proteoglycan and is a member of the syndecan proteoglycan family. The syndecans mediate cell binding, cell signaling, and cytoskeletal organization and syndecan receptors are required for internalization of the HIV-1 tat protein. The syndecan-1 protein functions as an integral membrane protein and participates in cell proliferation, cell migration and cell-matrix interactions via its receptor for extracellular matrix proteins. Altered syndecan-1 expression has been detected in several different tumor types. While several transcript variants may exist for this gene, the full-length natures of only two have been described to date. These two represent the major variants of this gene and encode the same protein. [provided by RefSeq, Jul 2008].
Isoforms & Proteins
3 transcripts · UniProt mapping is sequence-verified (AA-safe)
Each Ensembl transcript (ENST) this gene is mutated on, with its matched UniProt accession.
The mapping is sequence-verified: the UniProt sequence is identical to the transcript translation, so amino-acid positions line up exactly. A * marks an unreviewed (TrEMBL) entry.
Counts are mutations and unique mutant peptides on each transcript.
Gene Properties
Recurrent Mutations
All 107 amino-acid changes on canonical ENST00000254351 · needle height = samples · drag the mini-map to zoom
A lollipop / needle plot – the standard way to show recurrent mutations along a protein (as used by cBioPortal and MutationMapper).
X-axis = amino-acid position in the protein.
Needle height & head size = how often that exact amino-acid change was observed (its recurrence). Tall/large heads are mutational hotspots.
The most recurrent changes are labelled; hover any needle for the change, position and counts.
Mutation frequency across cancer types
% of samples with a missense/complex mutation in SDC1 · cell line vs tissue
For each cancer type, the fraction of samples that carry at least one missense/complex mutation anywhere in SDC1 – counted as distinct samples (a sample counts once no matter how many mutations it has).
Split into cell line and tissue; each cell shows mutated / total and the percentage. Cohorts with <20 samples are omitted. Ordered by combined frequency.
| Cancer type | Cell lines | Tissue samples |
|---|---|---|
| T-Lymphoblastic Leukemia | 2/40 5% | 0/0 0% |
| Gastrointestinal Stromal Tumour | 0/0 0% | 6/133 5% |
| Melanoma | 3/210 1% | 16/1899 1% |
| Bladder Carcinoma | 0/58 0% | 9/956 1% |
| Gastric Carcinoma | 7/74 9% | 8/1809 0% |
| Colorectal Carcinoma | 10/143 7% | 16/3239 0% |
| Other Solid Cancers | 1/94 1% | 10/1515 1% |
| Cervical Carcinoma | 0/35 0% | 3/422 1% |
| Endometrial Carcinoma | 1/42 2% | 3/612 0% |
| Ovarian Carcinoma | 0/109 0% | 6/998 1% |
| Non-Small Cell Lung Carcinoma | 2/304 1% | 6/1390 0% |
| Burkitts Lymphoma | 1/32 3% | 0/196 0% |
| Biliary Tract Carcinoma | 0/54 0% | 4/950 0% |
| Meningioma | 1/3 33% | 0/252 0% |
| Glioma | 0/52 0% | 7/2127 0% |
| Esophageal Squamous Cell Carcinoma | 0/51 0% | 8/2550 0% |
| Head and Neck Carcinoma | 0/85 0% | 4/1574 0% |
| Breast Carcinoma | 6/144 4% | 2/3264 0% |
| Kidney Carcinoma | 0/85 0% | 4/1862 0% |
| Pancreatic Carcinoma | 1/89 1% | 2/1611 0% |
| Thyroid Gland Carcinoma | 0/45 0% | 3/1592 0% |
| Neuroendocrine Tumour | 1/154 1% | 0/577 0% |
| Hepatocellular Carcinoma | 1/46 2% | 2/2210 0% |
| B-Cell Non-Hodgkins Lymphoma | 1/88 1% | 2/2534 0% |
| Non-Cancerous | 0/104 0% | 1/830 0% |
| Neuroblastoma | 1/87 1% | 0/1331 0% |
| Prostate Carcinoma | 1/13 8% | 0/2105 0% |
| Other Blood Cancers | 1/61 2% | 0/2725 0% |
Mutation Distribution
Where SDC1 is mutated · all tissues, split by cell line vs tissue
How many mutations in SDC1 were found in each tissue, across the whole database.
Each bar is a tissue (cell-line and tissue names are merged to the standard tissue), split into cell line and tissue (patient tumour) contributions.
This shows the cancer-context where this gene is recurrently altered.
GTEx Expression
Median TPM across 54 healthy tissues
Median gene expression (TPM) in normal, non-cancer human tissues from the GTEx project.
Useful for judging tumour specificity – a strong neoantigen target ideally comes from a gene with low expression in healthy tissues.
Scroll or drag the mini-axis below the chart to browse all tissues.
Mutations
All 365 mutations in SDC1
Every mutation record for this gene, across all samples and sources.
The Sample column links to the cell line (cell-line samples) or the tissue type (tissue samples).
Use the Type / Source filters, the search box, and column sorting to explore; each CAN-IMMUNE ID opens the full mutation & peptide view.
| ID | Sample | Transcript | AA Change | CDS | Type | Source | Mutant Peptide | Wild-type Peptide |
|---|