Eugene Bolotin, Ph.D. Email and Phone Number
Executive Leader with over 10 years’ experience in bioinformatics, genomics, and data science in thepharmaceutical and biotechnology industries. Instrumental in raising $168M in Series A and B funding as part of the most recent startup. Proven track record in drug development, genomic and analytics software development, synthetic biology, and early research. Expertise in building computation biology departments from the ground up. Available for consulting. • Leadership: Created and led analytics teams to solve challenging problems in drug development through deployment of innovative technologies, algorithms, and processes. Constantly collaborated with software, development, medical, research, and business divisions. Managed and mentored teams of scientists and associates in the US and offshore. Utilized Agile project management. • Expertise: Drug development: target discovery, biomarker discovery, patient identification and stratification, computational toxicity risk assessment in cell therapy and autoimmunity. Synthetic biology construct generation: promoter picking, splicing, amino acid, and other construct optimization. Bioinformatics software development: prototype and proof of concept generation, product ownership, usability, and deployment. Gene regulation: nuclear receptor function, protein-DNA binding, and chromatin structure.• Data Analysis: scRNA-seq, CITE-seq, ChIP-seq, ATAC-seq, RNA-seq, Spatial Transcriptomics, CosMx, WGS. GenBank, Ensembl, dbGaP, ERA, and UCSC genome databases. Technical and project lead of enterprise grade software products with budgets more than $1M. • Machine Learning: classical statistics, parametric, non-parametric estimation, Markov chains, and queue theory, Bayesian classifiers, XGBoost, SVM, glmnet, NMF, neural networks.• Languages, Tools, Environments: R, RStudio, Python, all SQL, GitHub.• Environments: Linux, AWS Cloud, Google Cloud.• Lab: Next-generation sequencing library construction, cell culture handling, cloning.
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Chief Executive OfficerMiraomicsBerkeley, Ca, Us
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Chief Executive OfficerXcellerate Bio Aug 2024 - PresentUnited StatesFounded xcellerate bio, a boutique bioinformatics consultancy. -
DirectorThe Strategy & Design Group Jul 2024 - PresentSan Francisco Bay AreaDeveloping strategic plans, timelines and analytics for broad therapeutic discovery in small molecules, biologics and cell therapies. Helping computational biology startups craft product features and business strategy.
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Scientific AdvisorPythia Biosciences May 2023 - Jul 2024• Contributed early conception and proof of concept and continuing guidance to Pythia bio. -
Head Of BioinformaticsSanta Ana Bio, Inc Aug 2021 - Jun 2024Alameda, California, United StatesPrecision immunology pharmaceutical biotech startup. Instrumental in raising $168M in June 2024, started one of the first employees, and grew the data platform team to 4 with all milestones met.• Generated the key proof of concept and intellectual property critical to securing Series-A $43M of funding from Google Ventures and Versant Ventures and TPG.• Led the team to develop and apply methodology to support identification of essential patient populations, and validate, de-risk, and identify targets for the 5 main pipeline molecules. Results were critical to securing a Series-B $125M funding round with the Series-A investors as well as, Andreessen Horowitz (a16z), Access Biotechnology, and RTW.• Implemented cutting edge analytics, combining classical statistics, machine learning and AI, in genomics, RNA-seq, scRNA-seq and spatial technologies. Leveraged these methods to evaluate clinical relevance, drug toxicity, and patient populations.• Hired, trained, and on-boarded a productive core team. Coordinated Agile projects, procedures, and research plans. Produced deliverables on time and within budget.• Developed fully cloud-based infrastructure for reproducible high-performance computing. -
Associate DirectorKite Pharma Jan 2020 - Aug 2021Emeryville, California, United StatesCell therapy biopharmaceutical company.• Authored analytics section for 2 FDA-approved new drug applications - INDs: KITE-222 and KITE-363. Drugs are currently (2024) in promising clinical trials. • Led strategic initiative to improve construct expression and vector production through codon optimization and promoter enhancements. Method was applied by a molecular biology team to thousands of constructs eliminating issues and saving the organization more than $30M.• Advanced combinatorial antigens for 4 new CAR-T therapy pipelines in solid tumors. The project was conducted in collaboration with main departments: immunology, business development, molecular biology, and antibody generation.• Assisted manufacturing team in optimization of t-cell products.• Directed offshore software teams to develop analytic tools to support research teams. Tools provided insight into tumor micro-environments, target identifications, and clinical correlations.• Managed scientists and a contract research organization.• Developed a fully cloud-based infrastructure for reproducible high-performance computing. -
Head Of BioinformaticsCell Design Labs Mar 2017 - Mar 2018United StatesSynthetic biology and cell therapy biopharmaceutical company. Raised Series-A funding of $34M. Acquired by Kite/Gilead for $567M in December 2017 within the first 2 years of company existence. • One of the first employees in the startup and founded the bioinformatics department.• Identified cancer and tissue-specific CAR-T target antigens through RNA-seq and proteomics data integration from clinical genomic data.• Obtained, harmonized, and integrated data from multiomic databases. • Developed a cloud-based environment fully adopted by Kite/Gilead upon acquisition. • Provided critical analytics data during the due diligence process that helped enable the acquisition of the company by Kite/Gilead.
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Bioinformatics ScientistIllumina Dec 2013 - Mar 2017Santa Clara, CaliforniaDNA sequencing instrumentation and analytics provider.• Product owner and algorithms lead to BaseSpace Illumina Variant Interpreter used by Genomics England project to interpret and clinically diagnose 100,000 human genomes. This key invention during development resulted in an approved patent.• Developed key parts of main software products: BaseSpace Illumina Knowledge Network, BaseSpace Illumina Correlation Engine, and BaseSpace Illumina Cohort Analyzer.• Analyzed thousands of samples of Next Gen Sequencing data (RNA-seq, and ChIP-seq).• Managed and mentored scientists and interns.• Supported curation, engineering, product, and marketing departments. -
Post Graduate ResearcherChildrens Hospital Oakland Research Institute/Ucsf May 2011 - Dec 2013Oakland, CaDr. Ronald M. Krauss and Dr. Marisa Wong Medina Laboratory, statin and cholesterol research.• Investigated the relationship between chromatin state (epigenetics), genetics, smRNA and drug response to statins.• Investigated the effect of EBV transformation on lymphoblastoid cell lines in the context of statin treatment.• Investigated genome wide association of RNA splicing quantitative trait loci on drug response to statins using RNA-seq and microarray technology.• Conducted bench work and data analysis. • Took active leadership roles in the Staff and Clinical Scientist and Postdoctoral Fellow Association (SPAC).
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ReviewerPublic Library Of Science (Plos) Jan 2012 - Jan 2013Reviewed manuscripts for PLOS ONE journal.
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Chair Of Staff And Clinical Scientist And Postdoc Association Chori (Spac) ChairChildren'S Hospital Oakland Research Institute Jan 2010 - Jan 2013Oakland, CaAs a chair of SPAC, I served on a committee which promoted cohesion and continuing education of Postdoctoral and Clinical Fellows. I organised meeting, and networking events, and kept fellowship community abreast of the opportunities in Bay Area. -
Post Graduate ResearcherUniversity Of California, Riverside Jun 2009 - Sep 2011Dr. Frances M. Sladek Laboratory, Nuclear Receptor Research • Discovered the importance of repetitive elements in evolution of gene regulation for nuclear receptor HNF4a. • Discovered the crosstalk between nuclear receptor HNF4a and Wnt signaling pathway. • Expansion of wetbench, genomic and bioinformatic approaches to characterize regulation of transcription, specifically mammalian nuclear receptors such as: GR, COUPTF, HNF4A RXR/RAR, their binding sites and target genes. -
Graduate ResearcherUniversity Of California, Riverside Sep 2002 - Jun 2009Riverside,CaDr. Frances M. Sladek Laboratory, Nuclear Receptor Research• Developed genomic and bioinformatics approaches to characterize regulation of transcription, specifically mammalian nuclear receptors, their binding sites and target genes. • Developed a novel assay using Protein Binding Microarrays to determine the binding sites for several nuclear receptors. Combined the results of in vitro transcription factor binding with R/Perl based machine learning support vector machine algorithm for state-of-the-art transcription factor binding site prediction.• Developed an online tool “HNF4 Motif Finder” which greatly helped the nuclear receptor community identify new binding sites and target genes for potential drug development. Integrated the binding data with ChIP-seq and ChIP-on-ChIP and expression arrays.• Developed Perl/CGI based tools to simplify common laboratory tasks such as short sequence searches increasing lab productivity.
Eugene Bolotin, Ph.D. Education Details
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Genetics Genomics And Bioinformatics
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Genetics
Frequently Asked Questions about Eugene Bolotin, Ph.D.
What company does Eugene Bolotin, Ph.D. work for?
Eugene Bolotin, Ph.D. works for Miraomics
What is Eugene Bolotin, Ph.D.'s role at the current company?
Eugene Bolotin, Ph.D.'s current role is Chief Executive Officer.
What schools did Eugene Bolotin, Ph.D. attend?
Eugene Bolotin, Ph.D. attended University Of California, Riverside, University Of California, Davis.
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