DBSCAN and DBCV application to open medical records heterogeneous data for identifying clinically significant clusters of patients with neuroblastoma
Why this work is in the frame
A frame that forgets how it found something cannot be audited. These are the routes that admitted this work.
Bibliographic record
Abstract
Neuroblastoma is a common pediatric cancer that affects thousands of infants worldwide, especially children under five years of age. Although recovery for patients with neuroblastoma is possible in 80% of cases, only 40% of those with high-risk stage four neuroblastoma survive. Electronic health records of patients with this disease contain valuable data on patients that can be analyzed using computational intelligence and statistical software by biomedical informatics researchers. Unsupervised machine learning methods, in particular, can identify clinically significant subgroups of patients, which can lead to new therapies or medical treatments for future patients belonging to the same subgroups. However, access to these datasets is often restricted, making it difficult to obtain them for independent research projects. In this study, we retrieved three open datasets containing data from patients diagnosed with neuroblastoma: the Genoa dataset and the Shanghai dataset from the Neuroblastoma Electronic Health Records Open Data Repository, and a dataset from the TARGET-NBL renowned program. We analyzed these datasets using several clustering techniques and measured the results with the DBCV (Density-Based Clustering Validation) index. Among these algorithms, DBSCAN (Density-Based Spatial Clustering of Applications with Noise) was the only one that produced meaningful results. We scrutinized the two clusters of patients' profiles identified by DBSCAN in the three datasets and recognized several relevant clinical variables that clearly partitioned the patients into the two clusters that have clinical meaning in the neuroblastoma literature. Our results can have a significant impact on health informatics, because any computational analyst wishing to cluster small data of patients of a rare disease can choose to use DBSCAN and DBCV rather than utilizing more common methods such as k-Means and Silhouette coefficient.
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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 | 0.000 | 0.001 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.000 | 0.000 |
| Bibliometrics | 0.000 | 0.000 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.000 | 0.000 |
| Open science | 0.001 | 0.001 |
| 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 it