Rachid O. Email & Phone Number

United States

Loma Linda, Ca, Us

• Integration of multi-omics datasets, including scRNA-seq, scATAC-seq, andspatial transcriptomics.• Collaboration with interdisciplinary teams to visualize, interpret and present results, research publications and grant writing.• Designed, built fast and scalable computational methods to capture relationships between gene dynamics, tissue morphology and functional process using spatial transcriptomics datasets (using self-supervised learning, generative neural networks, VAE / Transformers architecture).

Fremont, California, Us

• Gathered user requirements, functional, and technical specifications for two completed projects. Performed in-depth analysis of requirements and specifications, then designedproduction-ready Python libraries.• Led software quality improvement efforts (C#) in front-end and back-end with CI/CD and extensive testing.• Performed code review and code refactoring, leading to an acceleration instrument startup speed by +300%.

Redwood City, Ca, Us

Presentation: Karius is a life sciences company focused on saving lives. We are committed to advancing diagnostic science and technology to optimize treatment for infectious disease.The Karius Test® is a liquid biopsy for infectious diseases. From a single blood sample, the Karius Test can non-invasively and rapidly detect over 1,000 pathogens causing both deep-seated and bloodstream infections.Accomplishments: • collaborated with cross-functional teams to optimize current workflows and to build new products/solutions throughout all steps of the Software Development Life Cycle (SDLC), including user requirements, specifications, system design and architecture, implementation, deployment and testing, verification and validation, maintenance and user handbook ; • led the planning and coordination of a major product release across the Engineering, R&D, labops, and marketing teams and delivered it 2 weeks ahead of schedule (or 33% time reduction) ; • designed and implemented from the ground up a new visualization platform powered by a fast, scalable and secure cloud-based database ; • set tasks, milestones, deliverables and Key Performance Indicators of engineering projects for the annual / quarter plannings ;• planned and deployed data life cycle rules for R&D projects, and reduced the data storage costs by 44% after the first month ; • reviewed code, and implemented algorithmic features for the production code, a bioinformatics pipeline (company’s main product) ;

New York, New York, Us

Presentation: Biotia is a VC-backed startup in biotechnology helping hospitals and clinical centers to fight infectious diseases. Accomplishments:• Built the foundations of the company, leading all aspects of the MVP and proprietary data, driving strategic partnerships and scientific collaborations. • Served as CTO and Common Director of the Board.• While building a CLIA-accredited laboratory together with my co-founders, led the product design and development of the end-to-end clinical Test based on DNA shotgun sequencing with a clinical report. • Delivered a best-in-class rapid and secure cloud-based diagnostics platform that leverages machine learning models and a curated clinical database of microbial species genomic information, drug resistance markers and virulence factors. • Led the analytical analysis of clinical and environment sequenced samples, report generation and validation, and delivery of the actionable reports to clinicians/partner institutions. • Led all R&D projects and development of novel computational methods to analyze the microbiome of various sample types (including urine and stool). • Hired and retained a team of world-class scientists, advisors. Recruited and managed a team of engineers and bioinformaticians (interns, FTEs and contractors).• Built the whole IT infrastructure and environment for R&D projects and clinical studies. • Designed and integrated a myriad of computational components for the R&D team including: public genomic data ingestion, data exploration, automated clinical annotations, microbiome analysis, testing and validation, or assembly of fungal and bacterial species.

Riverside, Ca, Us

- Research in bioinformatics, metagenomics, genomics, epigenetics.- Co-authored 6 peer-reviewed publications, including novel algorithms and best-in-class bioinformatics tools for analyzing genomic/epigenetic data (2100+ citations total). These methods include the CLARK series tools (500+ citations) quickly adopted worldwide as state-of-the-art, used/referenced by the NIH or the WHO. - Lectured Software Construction for an upper-division undergraduate class, and several undergraduate/graduate classes as Teaching Assistant.- Reviewed manuscripts for 7 top ranked scientific journals and conferences (including Bioinformatics, RECOMB, or ISMB).

Houston, Texas, Us

- Designed, implemented and tested 3D Ray-tracing models- Conceived and built machine learning-based functions for enhancing performance and usage of computational resources. - Built a comprehensive NUnit-Test framework

New York, Ny, Us

- Designed and developed of an original reduced model of the locust olfactory system. The computational model used variants of the neural network tools. The prototype was built in C/C++ to process large-scale data and capture the mechanisms still unknown inside the locust olfactory system. - Wrote specifications from the technical translation of signals’ behaviors and neuronal activity within the locust olfactory system described in the literature.

Paris, Île-De-France, Fr

Évry-Courcouronnes, Fr

- Managed 10 commercials contracts (>23% of 2009 annual sales) and co-led the renewal of the quality certification (Afaq/Afnor)- Led the application for the "Credit d'Import Recherche" to the Ministry of Education and R&D, - Fostered the company's culture around of the 4 values (creativity, sustainability, customer satisfaction, self-development).As Responsable Comité Senior, I was in charge of providing the assistance and necessary support to any Engineering-oriented Junior-Entreprise in France, and collaborated with the CNJE for conducting regulatory/financial audits.

Pantin, Ile-De-France, Fr

- Joined the PLASMA project as IT analyst (intern)- Audited several software, which consisted for each software to a full review of quality, performance, security compliance, adherence to specifications/cost/regulations, with presentation (oral and written) of the deliverables.

Paris, France, Fr

Doctor Of Philosophy - Phd, Computer Science

Master Of Science - Ms, Computer Science & Business

Visiting Student, Computer Science

Bachelor'S Degree, Mathematics And Physics