Experience

Sonata Therapeutics

• United States
• Biotechnology Research
• 1 - 100 Employee

• Director of Informatics

  • Nov 2022 - Present



Sema4

• United States
• Biotechnology Research
• 200 - 300 Employee

• Assistant Director

  • Mar 2021 - Nov 2022

  Remote * Leader of data infrastructure, data engineering, applications, data science, and business service lines. * Created data models and cloud infrastructure to integrate various data types and formats including: EHR Data, Laboratory Informations Systems, Genome Sequencing, and RNA Sequencing. * Created data warehouse stores over 1.5 million patient EHR and a high throughput variant data curation pipeline processed over 750k raw genetic sequencing data. * Next generation sequencing data… Show more * Leader of data infrastructure, data engineering, applications, data science, and business service lines. * Created data models and cloud infrastructure to integrate various data types and formats including: EHR Data, Laboratory Informations Systems, Genome Sequencing, and RNA Sequencing. * Created data warehouse stores over 1.5 million patient EHR and a high throughput variant data curation pipeline processed over 750k raw genetic sequencing data. * Next generation sequencing data analysis pipeline design and management. Show less



Aperiomics (Acquired by Labcorp)

• CTO

  • Jun 2017 - Feb 2021

  * Managed and motivated a technical team responsible for all cloud & platform operations; analytics & AI platform; software design and development; product delivery; technical operations; and cybersecurity. * Designed and developed Xplore-Patho, an AWS cloud-based metagenomic deep shotgun sequencing data analysis platform under CLIA standard. The platform can identify over 37,000+ microbes in a single test. * Led the development of Xplore-AI, a natural language processing (NLP) based AI… Show more * Managed and motivated a technical team responsible for all cloud & platform operations; analytics & AI platform; software design and development; product delivery; technical operations; and cybersecurity. * Designed and developed Xplore-Patho, an AWS cloud-based metagenomic deep shotgun sequencing data analysis platform under CLIA standard. The platform can identify over 37,000+ microbes in a single test. * Led the development of Xplore-AI, a natural language processing (NLP) based AI system that collects microbes, drugs, environments, symptoms, diseases from published data and identifies pathogens based on the descriptions. * Served as PI and led the tech team successfully closed one NSF SBIR Phase II grant (1.6 million). Involved in many research projects among different institutions, such as Yale University, John Hopkins University, George Washington University, Temple University, Mayo Clinic and Janssen Pharmaceuticals. * Designed and developed Xplore-IMS system, a laboratory information management system (LIMS) under HIPAA compliance. The system is used for EHR login, sample tracking, report delivery. It is also syncing data with Salesforce and QuickBooks to retrieve client information and generating invoices. It used Django RESTFUL API for backend and Angular for frontend. The whole system has been deployed to AWS EKS. * Built in-house HPC system using DELL VRTX Server and OpenHPC. Show less



Aperiomics

• VP of Research and Development

  • Nov 2015 - May 2017

  Ashburn, VA



Broad Institute of MIT and Harvard

• Research Services
• 700 & Above Employee

• Remote Associate Researcher

  • Aug 2012 - Mar 2016



Duke University School of Medicine

• United States
• Higher Education
• 700 & Above Employee

• Postdoc Research Fellow

  • Jan 2012 - Oct 2015

  Durham, NC * Used RNA-seq data to identify genes that are likely crucial for the survival of Cryptococcus neoformans in human central nervous system. * Identified putative drug resistance genes of C. neoformans using whole-genome comparison between serial isolates collected from patients. * Performed population genetics and phylogeny analyses on hundreds of C. neoformans isolates from Botswana and Brazil. * Performed meta-transcriptomic analysis of ectomycorrhizal roots to reveal genes associated… Show more * Used RNA-seq data to identify genes that are likely crucial for the survival of Cryptococcus neoformans in human central nervous system. * Identified putative drug resistance genes of C. neoformans using whole-genome comparison between serial isolates collected from patients. * Performed population genetics and phylogeny analyses on hundreds of C. neoformans isolates from Botswana and Brazil. * Performed meta-transcriptomic analysis of ectomycorrhizal roots to reveal genes associated with symbiosis between microbes and plants. * Participated in the whole genome sequencing and annotation project of C. neoformans reference genome (H99). * Developed an efficient, cost-effective and high-throughput, multilocus sequencing typing (MLST) method, NGMLST, as well as the analytical software program MLSTEZ. Show less