Correlation of Clinical Features to DNA Methylation-Based Prognostic Subtypes in Chordoma Patients
Bibliographic record
Abstract
Background: Chordomas are rare aggressive primary bone cancers affecting the skull-base and spine. Despite standard of care treatment with radical surgical resection and radiotherapy, the overall survival at 10 years is only 40%, with most patients experiencing disease recurrence. Moreover, many experience devastating neurological morbidity that significantly impairs quality of life. Much of the research on chordomas points to a dichotomization in outcomes with some experiencing rapid recurrence and mortality despite maximal treatment, while others experience progression-free survival of up to 10 to 20 years. We have previously identified robust DNA methylation-based prognostic subtypes of chordomas, a poorer performing immune-infiltrated subtype and a better performing cellular subtype. Here, we have aimed to further characterize these prognostic subtypes with an extensively annotated clinical database to potentially identify factors that correlate with each subtype and, therefore, can be used as markers of chordoma subtype.
Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.
How this classification was reachedexpand
Full frame distilled prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. Learned from the 10,348 direct Codex labels and 10,348 direct Gemma labels. Candidate is the union of thresholded teacher heads; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels or direct frontier model labels.
Codex and Gemma teacher scores by category
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.001 | 0.008 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.001 | 0.000 |
| Bibliometrics | 0.000 | 0.001 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.000 | 0.000 |
| Open science | 0.000 | 0.000 |
| Research integrity | 0.000 | 0.000 |
| Insufficient payload (model declined to judge) | 0.000 | 0.000 |
Machine scores (provisional)
The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.
Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.
score_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from itClassification
machine, unvalidatedMachine predicted; a candidate call from one teacher head, not a consensus.
How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".