Michael Stromberg Email and Phone Number
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With over 20 years of diverse experience across bioinformatics, genomics, software development, and digital forensics, I am a seasoned professional with a track record of spearheading and delivering innovative projects. At Illumina, I have spent more than a decade leading critical initiatives, including the development of Nirvana, a state-of-the-art variant annotator, which has had a transformative impact on Illumina's product portfolio.My success as a Bioinformatics Scientist is underscored by significant improvements in core variant annotation speed, reduction of HGVS issues, and the creation of scalable, cost-effective solutions capable of processing millions of cases. I've led comprehensive evaluations of oncology knowledge bases, contributing to strategic decision-making in precision oncology initiatives. Beyond these, my leadership extends to managing teams that develop algorithms for medically relevant products.Before Illumina, I developed MOSAIK, an ultra-fast, versatile Next-Generation Sequencing (NGS) aligner, during my time at Boston College. I also contributed to significant projects such as the 1000 Genomes Project. My bioinformatics experience began at KTH and Harvard University, where I developed software tools for advanced data analysis and research.Parallel to my work in bioinformatics, I have a rich background in software development. As a co-founder at Alecti Group, I was involved in systems design with a focus on data integrity and security. In my early career, I leveraged my technical skills to support the Swedish National Police in a high-profile case, creating a custom high-performance password cracker.My expertise extends beyond pure science and technology to include leadership, collaboration, and the ability to establish successful partnerships. I am passionate about leveraging data and technology to improve healthcare and clinical diagnostics. As a visionary and a pragmatic executor, I am always ready to tackle the next challenging problem in genomics and bioinformatics.
Nephronomics
View- Website:
- nephronomics.com
- Employees:
- 2
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Head Of Data Science And BioinformaticsNephronomicsSan Diego, Ca, Us -
Head Of Data Science And BioinformaticsStealth Mode Biotech Jul 2024 - PresentSevenoaks, Gb -
Senior Staff Bioinformatics ScientistIllumina Mar 2020 - Mar 2024San Diego, Ca, Us● Spearheaded the development and release of multiple Nirvana versions, incorporating new features, improved accuracy, and optimizations for performance.● Improved core variant annotation speed by 2.4x● Reduced HGVS issues by a remarkable 59% making Nirvana the most accurate variant annotator in the field.● Conducted a comprehensive evaluation and comparison of six global oncology knowledge bases, including OncoKB, CKB, PierianDx, and three leading Chinese platforms, assessing data quality, accessibility, interoperability, features, validation, pricing, and legal/ethical considerations. This analysis informed strategic decision-making in precision oncology initiatives. -
Staff Bioinformatics ScientistIllumina Jul 2017 - Mar 2020San Diego, Ca, Us● Successfully led the Nirvana team in developing and maintaining a core variant annotation platform for major Illumina products, such as DRAGEN, BaseSpace Variant Interpreter, TruSight Oncology, VeriSeq NIPT, and TruSight Software Suite (rare disease).● Developed 10 Nirvana releases in a single year, with 7 containing an approved DHF for clinical IVD software.● Architected and implemented the Nirvana annotation service into a scalable and cost-effective solution, capable of processing 10 million cases per year per AWS region.● Established successful collaborations with several external commercial and academic partners. -
Senior Bioinformatics ScientistIllumina Dec 2014 - Jul 2017San Diego, Ca, Us● Developed Nirvana, a state-of-the-art variant annotator that is 30x faster than Illumina's previous annotator (IAS) and 235x faster than VEP, while providing nearly identical results on a single CPU. This innovation has led to significant cost savings and a unified annotation engine across Illumina's product portfolio.● Successfully managed the Genomic Algorithms Team, focusing on secondary analysis and developing algorithms for various medically-relevant products, contributing to Illumina's expansion in the clinical and diagnostic markets.● Pioneered the adoption of best practices for maintaining agility in clinical software development, including code and design documentation, increased unit test code coverage, and modernized CI/CD processes. -
Bioinformatics Scientist 2Illumina Sep 2011 - Dec 2014San Diego, Ca, Us● Enabled multi-node processing in the Isas secondary analysis pipeline, significantly reducing time-to-answer and making the platform more competitive.● Developed the targeted RNA-Seq workflow, including the creation of a custom amplicon aligner and implementation of the DESeq algorithm in C#.● Significantly boosted the metagenomics classification speed by an order of magnitude, while enhancing the accuracy and extending the classification sensitivity to the species level, and in certain cases, even to the strain level.● Actively participated in the Isas architecture group, refactoring core functionalities, and introducing independently-versioned plugin workflows, improving the overall performance and flexibility of the platform. -
Bioinformatics Scientist 1Illumina Aug 2010 - Sep 2011San Diego, Ca, Us● Dramatically reduced the overall analysis time in the CASAVA 1.8 analysis pipeline by a third. This was achieved by developing a new tool that leveraged dynamic sampling of the read fragment length distribution, thereby decreasing paired-end resolution duration from 4 hours to a mere 12-15 minutes.● Designed and developed a 16S metagenomics classification program tailored specifically for the MiSeq platform. The program utilized a Naive Bayesian classifier, enabling it to accurately detect microorganisms down to the genus level.● Conducted a comprehensive comparison of various aligners, including ELAND, BWA, SOAP, Bowtie, and iSAAC. The evaluation assessed speed, memory usage, accuracy, and usability, and involved researching alignment characteristics that reduced trio conflicts during variant calling.● Significantly reduced storage requirements for the CASAVA analysis pipeline by 60%, accomplished by updating it to produce and parse compressed export files. -
Postdoctoral Research FellowBoston College Apr 2010 - Jul 2010Chestnut Hill, Ma, Us● Developed MOSAIK, an ultra-fast, versatile NGS aligner supporting multiple sequencing technologies, including Roche 454, Illumina, AB SOLiD, Helicos, and Sanger capillary. Leveraging the Smith-Waterman algorithm, MOSAIK pioneered gapped-alignments for small INDEL discovery and facilitated combined multiple sequence alignments from different technologies for enhanced data analysis.● Overcame critical challenges in MOSAIK development, such as characterizing and compensating for sequencing technology-specific error modes and devising an accurate aligner error model to optimize mapping quality.● Successfully implemented MOSAIK in over 250 labs worldwide by mid-July 2010, demonstrating its widespread utility and impact.● Contributed to the 1000 Genomes Project's data analysis, by aligning and analyzing Roche 454 mate-pair reads and nearly six billion Illumina reads using MOSAIK. Employed our in-house variant caller, GigaBayes, for trio genotyping, and Spanner for structural variant calling.Keywords: MOSAIK, Next-generation sequencing (NGS), Aligner, Smith-Waterman algorithm, Gapped-alignments, INDEL discovery, 1000 Genomes Project, Data analysis, Variant calling, Trio genotyping -
Bioinformatics DeveloperHarvard University Oct 2007 - Jun 2008Cambridge, Massachusetts, Us● Engineered a Java-based software tool, Audacity, that analyzes confocal microscope image stacks to effectively characterize and track bacterial populations.● Devised an ingenious strategy integrating pulse-coupled neural networks (PCNN) and axis of symmetry calculations, ensuring precise object segmentation and accurate dimension measurement.● Leveraged the ImageJ API with Java and 3D deconvolution techniques, significantly enhancing image quality and resolution for advanced data analysis and research. -
Software ArchitectKarolinska Institutet May 2005 - Aug 2005Solna, Se● Designed and developed an innovative framework for simulating signal pathways in specified cell types, enabling a deeper understanding of cellular responses to various stimuli and targeted gene products.● Integrated microarray data to accurately capture the current state of gene expression, serving as the foundation for pathway analysis and simulations.● Successfully modeled and simulated the activation of specific receptors, such as the estrogen receptor (ER beta), and their subsequent signal pathways.Keywords: Computational modeling, Signal pathway simulation, Microarray integration, Gene expression analysis, Estrogen receptor (ER beta) -
Computer Forensics ExpertSwedish National Police Jun 2005 - Jul 2005● As a consultant for the Swedish National Police in a child pornography case, employed expert computer forensics skills to develop a custom high-performance decryption tool, facilitating the decryption of a proprietary encrypted image format.● Successfully extracted a critical password from the forensics data, which was instrumental in decrypting key evidence files, directly contributing to the dismantling of the ring.
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Co-FounderAlecti Group Dec 2001 - May 2005● Co-founded Alecti Group, a consulting firm specializing in cutting-edge technology solutions for mainly the telecom and financial industries.● Developing innovative micropayment solutions, enhancing financial transactions for clients.● Provided expertise to banks and affiliates on building secure B2B applications, bolstering their operational security and efficiency.
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Video CompressionistAdvanced Media Technologies Lab (Kth) May 1998 - Dec 2001● Successfully managed all media compression processes, including DVD production and real-time webcasts, ensuring high-quality output.● Designed and optimized media compression pipelines and applications by fine-tuning MPEG-2 algorithm parameters, resulting in improved video quality.● Boosted teleconferencing performance between the Royal Institute of Technology and Stanford University by delivering DVD-quality video on a dedicated high-bandwidth link.● Developed load balancing software to enhance video streaming server scalability and prevent system overloads as viewer numbers increased.
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3D AnimatorMicman Productions Jan 1997 - Jan 1999● Created a 75th-anniversary trailer for SF, Sweden's premier cinema chain, and an immersive OMNIMAX solar system film for children.● Applied expertise in particle animation systems to create engaging content for children's cartoons.● Demonstrated proficiency in multiple 3D animation software, including Alias, Wavefront, Maya, and Softimage.
Michael Stromberg Skills
Michael Stromberg Education Details
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Boston CollegeBioinformatics -
Kth Royal Institute Of TechnologyBiomedical Engineering -
University Of FloridaJapanese -
Kth Royal Institute Of Technology
Frequently Asked Questions about Michael Stromberg
What company does Michael Stromberg work for?
Michael Stromberg works for Nephronomics
What is Michael Stromberg's role at the current company?
Michael Stromberg's current role is Head of Data Science and Bioinformatics.
What is Michael Stromberg's email address?
Michael Stromberg's email address is sn****@****ail.com
What schools did Michael Stromberg attend?
Michael Stromberg attended Boston College, Kth Royal Institute Of Technology, University Of Florida, Kth Royal Institute Of Technology.
What skills is Michael Stromberg known for?
Michael Stromberg has skills like Bioinformatics, Genomics, Computational Biology, Algorithms, Perl, Molecular Biology, Life Sciences, Genetics, Dna Sequencing, Biotechnology, C++, Science.
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