Processed data and analysis code for patient-balanced single-cell and matched spatial transcriptomic analysis of osteosarcoma

This record contains deidentified processed source data and analysis code supporting a patient-balanced single-cell RNA-sequencing study with matched spatial transcriptomic analysis of osteosarcoma. The release includes source data for Figures 1-6 and Supplementary Figures 1-9, Supplementary Tables 1-9, complete locked rank-7 NMF factor loadings and scaling vectors, patient-resampling and permutation outputs, external single-cell and multiome validation results, matched spatial analyses, and patient-aware cell-cell communication analyses. Three in-house single-cell specimens (BS3, BS5 and BS7) have matched 10x Visium sections (SP_BS3, SP_BS5 and SP_BS7). These represent matched cross-modal specimens from the same patients rather than an independent spatial validation cohort. Patient or tissue section is the biological replicate where applicable; cells and spots are nested observations. Patient names, medical-record numbers, directly identifying dates and raw clinical workbooks are not included. Public input datasets are referenced by accession rather than unnecessarily redistributed.