Vladimir Makarov Email & Phone Number

Working on the SBIR grant "NIH/CDC SBIR Solicitation PHS2021-1 (Topic 427 - De-Identification Software Tools and Pipelines for Cancer Imaging Research)". Won both Phases 1 and 2.

Wakefield, Massachusetts, Us

Working on the AI Center of Excellence, a hub for pre-competitive research for the pharmaceutical industry. Created 3 international conferences, 2 drug repurposing datathons (one advanced to clinical trials), multiple webinars. Created a project in biological assay method (metadata) annotation, now being developed in cooperation with the US NIH (NIEHS) and the FDA.

Camarillo, Ca, Us

Professor in the Math and CS departments. Taught bioinformatics for CS majors, elementary statistics, and biostatistics courses.

Alameda, California, Us

Executive consultant in business / IT alignment area. Business analysis, strategic planning, and technology scouting.

Davis, California, Us

Leader of an international bioinformatics and data science team. Next Generation Sequence data processing, multi-omics, metagenomics, Machine Learning, and Knowledge Graph algorithms.

Program management in support of the workflow processing in bioinformatics (dockstore.org), Precision FDA (https://precision.fda.gov/), Human Cell Atlas (HCA, https://dev.data.humancellatlas.org/), and related federally-funded initiatives and commercial clients.

San Diego, Ca, Us

Work on commercial and technical development of BaseSpace Sequence Hub, Illumina’s NGS software platform. Prioritized requirements, wrote technical marketing literature, consulted on Scrum project management, release process improvements, team and business unit alignment, and the Illumina Clinical Transformation program.

London, Gb

Pharmaceutical and biotechnology industry domain and scientific lead for an internal start-up operation aiming to market BT Compute and compliance solutions to biotechnology customers.Pioneered projects in regulatory compliance and computer systems validation in the cloud, Big Data mining, translational research (TranSMART) PaaS, next-generation cloud-based collaborative research management service, digital transformation of supply chain and distribution.Managed collaboration with the Genomics Institute of Singapore (part of Singapore A*Star cluster).Managed technical requirements for BT Cloud Compute offerings, developed contracts and statements of work, introduced BT to decision makers in prospective client companies, consulted on risk-based project management, ran industry-specific computing benchmarks.

Prosapia Genetics commercialized computational ancestry algorithms developed at the University of Southern California (see Nature Communications, doi:10.1038/ncomms4513).I went through a full business start-up cycle from initial license agreement negotiation to product marketing and finally to business sale to a private investor. I sold my interest in November 2015.

Consulting work on the intersection of information technology and biomedical sciences. Notable clients include US Army, Pfizer, Baxter Bioscience and Moscow State University. I also advised venture capital firms. The most recent project was on a new computational methodology for elucidation of complex biomarker signatures from big data sets, conducted with support by a SBIR grant from US Army. Refer to Publications below.

St. Louis, Missouri, Us

Manager of a high-performance computational data science team.- Turned around the performance of the data management group by applying the best practices in business-IT alignment, project portfolio prioritization, and agile project management. Managed budgets, projects, and a team with multiple FTEs, contractors, and matrixed relationships.- Developed IT processes and process improvement plans. Participated in long-term information management strategy planning for the Protein Optimization Program and later for the Enabling Technologies organization.- Managed integration of the Cambridge site systems with the company-wide LIMS (Labware).- Contributed to R&D collaborations between Monsanto and MIT, Harvard University, Boston University and Protabit LLC (CalTech start-up firm) in the areas of bioinformatics, data management, and computational protein design.

Deerfield, Illinois, Us

- Architected enterprise solutions for automated data capture from analytical instruments, ELN, LIMS and long-term information retention. Developed risk-based validation plans for these systems.- Provided IT Management expertise. Advised client on stakeholder, expectation and risk management and iterative project development approaches. Wrote contracts for engagements with multiple third-party vendors, managed parts of Baxter’s relationship with IBM, planned vendor audits.

Small pharmaceutical venture fund.- Provided technology evaluation and scientific support for due diligence and venture development.- Served as an interim CIO for the venture firm. Established internal information technology team, created corporate technology roadmap, introduced standards and best practices.

Adelphi, Maryland, Us

Adjunct professor of business. Taught classes in project and project portfolio management, biotechnology business, bioinformatics.

New York, New York, Us

Consulting project manager in charge of a large software development program. The main aim of the effort was to automate collaborative business processes between Pfizer and its world-wide research partners. Led a team of over 50 IT and R&D professionals from multiple countries with a budget of just under $3 million, and delivered on time and under budget.

Thousand Oaks, Ca, Us

- Created information systems development strategy for the global Process Development and Clinical Operations, aiming at providing a sustainable competitive advantage to the company. Proposed and developed business cases for projects to implement the designed strategy, with estimated NPVs ranging from $2 million to $50 million.- Pioneered a number of management methodologies at Amgen: Whitaker-style 4 column strategy analysis, RUP project management, techniques for financial valuation of IT investments and quantitative models for work order queues, earning high praise from executive management.

Thousand Oaks, Calif, Ca, Us

I have worked for Ceres Biotechnology two times in my career, first in 1998-2000 (see below) and returned as a manger in 2003. Ceres Biotechnology went public in 2012.- Led Ceres research computing team. Implemented multiple quality control and business process improvements, resulting in a 300% increase in finished gene sequence yield.

Co-inventor and principal developer of an on-line glaucoma screening test, the only one approved by the FDA at that time. Conducted technical and clinical research, gathered requirements, developed software prototypes, hired and directed an off-shore development team.

Developed and validated methods and software for- proprietary technology for protein homology modeling and 3D structure analysis, in particular for prediction of structures of protein variants from SNPs and accurate mapping of splice junctions to protein structure- virtual screening based on pharmacophore and geometric hashing concepts- ADME property prediction of candidate drug compoundsInitiated research collaboration on these topics between Eidogen and the Keck Graduate Institute in Claremont, CA. Involved KGI students in this research.

Paracel was a business unit of Celera Genomics, the famous company that sequenced the human genome.- Accelerated prototype development with “Extreme Programming” project management methodology.- Fostered interaction with Paracel external customers and partners at Celera Genomics.

Thousand Oaks, Calif, Ca, Us

- Employee #36 in a biotechnology start-up. - Made a major development contribution to Ceres data warehouse, critical to company ability to secure a contract with Monsanto in excess of $147 million.- Massively parallel Linux computing pioneer. Researched, validated and coordinated construction of a Linux cluster supercomputer before they became common in the industry. Estimated overall economic effect in excess of $1,000,000.

Houston, Tx, Us

- High-intensity research projects in molecular dynamics simulations of proteins with different solvent models, homology modeling of bacterial periplasmic proteins, and NMR structure determination of low MW drug compounds and their DNA complexes.- System administration duties on local Silicon Graphics computers.

Ph.D., Computational Biology

Mba, Business

M.S., Chemistry

B.S., Biophysics