Daniel Spagnolo Email & Phone Number

Cambridge, GB

Cambridge, GB

Pittsburgh, PA, US

Lead role in Bioinformatics in the Molecular and Genomic Pathology division. Team consists of two bioinformatician and two software engineers. Maintains clinical NGS pipelines, and in-house clinical reporting software. Successfully released major upgrade of in-house software, which modified 70k+ lines of code, ported app from Python 2->3 and Django.

Pittsburgh, PA, US

• Developed and maintained next-generation sequencing (NGS) data analysis pipelines
• Performed statistical analyses and validations related to updating and improving our clinical assays
• Developed and maintained robust systems for managing and reporting NGS results
• Assisted with technical interpretation of NGS results in areas such as variant calling, copy number variation, or fusion detection.

Pittsburgh, Pennsylvania, US

• Performing tasks related to bioinformatics research, automated variant annotation for clinical reports, clinical decision support, genomic studies, machine learning, and data science for an integrated genomics and.
• Ran disease-specific genome-wide association study using the UK Biobank
• Developed a clinical decision support tool for acute pancreatitis management in the ER
• Discovered complex genetic interactions between pathogenic and risk-factor variants using statistical techniques
• Summarized genotype and phenotype of patients who underwent clinical testing using a multi-gene DNA sequencing panel
• Built rule-based systems to assist in automation of clinical reports and identify key risk-modifier variants

Pittsburgh, PA, US

• Received Ph.D. from Joint University of Pittsburgh - Carnegie Mellon University Program in Computational Biology. Thesis: Spatial statistics from hyperplexed immunofluorescence images: to elucidate tumor.
• Predicted metastatic potential with spatial statistics from tissue sections
• Developed open-source platform for characterizing tumor microenvironment
• Quantified heterogeneity in multiplexed immunofluorescence images
• Classified tissue image by origin using neural networks in Caffe

Pittsburgh, PA, US

• Supervised students performing wet lab tasks including polymerase chain reaction (PCR), brightfield & fluorescence microscopy, cell culture, and sterile techniques.
• Assisted students in genetic data analysis, interpreting experimental data, and maintaining proper lab notebooks.
• Lectured the class on Light Microscopy, Fluorescence, and Bioimage Informatics

Swarthmore, PA, US

Assisted students in Swarthmore's introductory computer science course. Supported a visually impaired student in an engineering class on environmental systems.

Swarthmore, PA, US

Graded problem sets for Fundamentals of Digital Systems in the Engineering department.

Pittsburgh, PA, US

• Applied computational techniques to assess the risk of unintended drug-inducedcardiotoxicities in zebrafish, as a model organism for drug development
• Used OpenCV to compute optical flow of zebrafish heartbeat from video file, converted to contractile force via spring model

Doctor Of Philosophy - Phd, Computational Biology

Doctor Of Philosophy - Phd, Computational Biology

Bachelor Of Science (B.S.), Engineering

Education record