Samuli Eldfors
Research Scientist @Massachusetts Eye and Ear
Signup · Get unlimited contacts
WORK HISTORY
Research Scientist @Massachusetts Eye and Ear
Boston, MA, US
Analyzed plasma cfDNA samples across diagnostic, longitudinal MRD, and pre-diagnostic cohorts (HPV-associated cancers + cancer-negative controls) on an HPC cluster.• Built and maintained an end-to-end, UMI-aware bioinformatics pipeline (QC, ctDNA quantification, SNV/indel calling, structural variant detection) enabling ultra-sensitive liquid biopsy and MRD monitoring.• Implemented a patient-linked SQL results/QC database for samples, enabling rapid cohort queries, reproducible reporting, and streamlined downstream analysis.• Developed a method to detect and map viral integration breakpoints and associated host structural variation from targeted-capture plasma cfDNA sequencing; validated key events with orthogonal long-read sequencing in matched tumor tissue.• Improved low-VAF signal detection by integrating duplex UMI error correction, index-hopping mitigation, background modeling, and data-driven QC thresholds—reducing false positives and improving robustness at the detection limit.• Built and evaluated ctDNA classification models for cancer vs control; optimized decision thresholds and reported cohort-level performance.
EDUCATION
University of Helsinki
M.Sc., Biochemistry
University of Helsinki
PhD, Genetics
Aalto University
Minor in Strategy and International Business Management, Industrial engineering and management
ABOUT SAMULI ELDFORS
Computational biologist and cancer researcher with 15+ years in bioinformatics and cancer genomics, focused on liquid biopsy, multi-omics integration, and biomarker discovery for precision oncology. I build robust NGS pipelines and analyze complex datasets in Python and R, with 36+ peer-reviewed publications in hematology and oncology.Specialities:Oncology Data ScienceTranslational BioinformaticsClinical Development AnalyticsLiquid Biopsy AnalyticsReal-World Data (RWD)Real-World Evidence (RWE)Clinical PhenotypingBiomarker Discovery and ValidationGenomics and Molecular OncologyNGS Data Processing and QCMulti-Omics Data AnalysisHigh-Dimensional Data AnalysisStatistical Modeling and BiostatisticsApplied Machine Learning in BiomedicineAI and Generative AI (Applied)Clinical Trial and Observational Data AnalysisDecision Support for Drug DevelopmentCross-Functional R&D Collaboration
This profile is compiled from publicly available professional sources. Unifers is not affiliated with or endorsed by LinkedIn. Request removal of this profile.