Xiaoqi Jiao

Escondido, CA *****, (Cell) 650-***-**** Email, ad1z0w@r.postjobfree.com

ObjectiVE

Position with system, software, bioinformatics or quality for medical or IVD device.

QUALIFICATIONS

Over 10 years experience software and system development in IVD and medical devices.

In-depth engineering knowledge and discipline in design and development of system and software.

Skilled in object-oriented design and programming, UML, and application of design patterns.

Extensive experience in using algorithms to address diagnostic problems. Genomic Workflow, LIMS.

Next Generation Sequencing and Analysis and Interpretation of Clinic or Oncology Applications.

Dedicated, determined, and motivated team player and quick learner. Excellent collaboration and communications skills.

Design Control and System validation and verification for IVD and Medical Devices.

Experience

System Design Control and Quality, Illumina, San Diego, CA May 2018--Feb. 2023

System design Control and Quality Engineer (Whole Genome Sequencing (WGS) Sequencing for Linked Reads, Whole Exome for somatic and germline variants, NGS workflow, Cloud, Docker, SOA, Microservice, Oracle and MongoDB, LIMS, Pythons and R, Shell scripts).

Designing, implementation, configuration, integrations of Pipelines, Workflow for NGS primary and secondary data analysis. Algorithms development and validation for NGS clinic applications.

On-market clinic products based on NGS and Array, supporting and improve existing features and new features selection, identification, and implementation following regulatory guidance.

Instrument control software development and optimization. Hardware, firmware, and software integration for on-cloud and on-premise platforms. Linked Reads Devon Assemble and phasing applications.

Design Compliance with FDA (21 CFR Part 4, 11 and 820), ISO (13485 and 14971), and IEC (60601,62304 and 62366). CAP Accreditation, CLIA Certifications. Developing IQ, OQ, PQ processes and procedures for Clinic use of NGS System. Design control, Risk control and mitigation, Cybersecurity for medical and IVD systems.

LIMS design and implementation; machine learning for NGS Clinic Diagnostics Systems, MES validation and verification of clinic applications. ISA-95; SAP Enterprise resource planning (ERP), Siemens Camstar Manufacturing execution system (MES)

Human Longevity Inc. San Diego, CA March 2017- March.2018

Software Design and system engineering Lead (NGS Clinic Sequencing for Whole Genome Sequencing (WGS), and Whole Exome for somatic and germline variants, Cancer Search. System Integrations based on ESB and iPaaS. BPM for NGS workflow, Cloud, Docker, SOA, Oracle and MongoDB, LIMS, Pythons and R, Shell scripts).

Design, implementation, configuration, integrations of Pipelines, Workflow, BigData and LIMS; machine learning for NGSS Clinic Diagnostics Systems. Variants Data source and contents curation based on big date and machine learning platform, Variant Results classification, interpretations and reporting. Public and private Cancer Genomics database integrations, Client Service and physician portals Integrations.

Proactive project: Developing Predictive Maintenance with statistical and machine learning techniques for instruments. Collaborated closely with Software group and Product development teams to gather requirements, design and integrate models.

Data driven solutions for Commercial organization; Creating forecasting models for different use cases including Service and Support Resource Management, Demand Planning, and Inventory Estimation. Developing an Opportunity Scoring model to help sales reps work more efficiently

NGS System Integration, including the Sample Accession, Sample Preparation and Tracking, Scheduling, Integration with Pipelines for Primary, Secondary and Tertiary Data Analysis. Quality Monitoring and Control for Clinical Use of NGS workflows.

Design Compliance with FDA (21 CFR Part 11 and 820), ISO (13485 and 14971), and IEC (60601,62304 and IEC 62366). CAP Accreditation, CLIA Certifications. Developing IQ,OQ,PQ processes and procedures, He75_1311 for Clinic use of NGS System. Design and execute Verification and Validation Protocols, Scripts for V&V Workflows. Exam and review objective evidences, control and approval of Design Changes, V&V results and reports.

System Quality Assurance for Compliance of Regulator Standards for System Design V&V. Root cause analysis of system problems. . Fault Tree and Hazard analysis of Sequencing Instrument and diagnostic workflow, Design Control and Agile developments. Develop System risks mitigation, write and execute protocols, analyzes data, and document results. Integration of Sequencing Quality LIMS Systems.

Proactive project: Developing Predictive Maintenance with statistical and machine learning techniques for instruments. Collaborated closely with Software group and Product development teams to gather requirements, design, and integrate models.

Data driven solutions for Commercial organization; Creating forecasting models for different use cases including Service and Support Resource Management, Demand Planning, and Inventory Estimation. Developing an Opportunity Scoring model to help sales reps work more efficiently

Thermo Fisher Scientifics, South San Francisco, CA Feb. 2016 –March 2017

Staff Design and Compliance Engineer Program Lead (NGS Ion S5™ Dx for Oncology System based on targeted sequencing for human genomic DNA (gDNA), and complementary DNA (cDNA) derived from FFPE for somatic variants, Ion S5™ Dx companion diagnostic for Oncology).

Products definition, Customer and System Specification Requirements developments, review and approve. Design History (DHF) structure and deliverables definition. Processes and procedures development, regulatory compliance, SOPs, working instructions authoring.

System Architecture, Design, Implementation, Integration and Configuration of NGS Workflow and LIMS for Clinic Diagnostic Systems. NGS BPM and data analysis pipelines design and modeling and implementations. System Integration based on ESB and iPaaS. LIMS development and integrations with public database based with relation and no relation database.

Design Compliance with FDA (21 CFR Part 4, 11 and 820), ISO (13485 and 14971), and IEC (60601, 62304 and IEC 62366). CAP Accreditation, CLIA Certifications. Fault Tree and Hazard analysis of Sequencing Instrument and diagnostic workflow, Mitigations, Design Control and Agile developments.

Design NGS diagnostic system Verification and Validation (V&V), including the Sample Accession, Sample Prepare Tracking, Scheduling, Integration with Pipelines for Primary, Secondary and Tertiary Data Analysis. Monitoring Quality and Variants Databases. Integration with Client Service and Results interpretation and Report.

Developing and executing of verification and validation protocols and review objective evidence for inclusion in V&V reports. Interface with FDA and other regularly bodies to ensure the Compliance.

Feasibility and integration study and review, dFMEA, pFMEA, uFMEA, Fault Tree Hazard analysis of System,Sequencing Instrument and diagnostic software, and sequencing workflow IQ, OQ,PQ.

Complete Genomics, Mountain View, CA Oct.2013-Feb.2016

System and Clinic Software, Head/Manager (Design Control, Instrument Control and, Imaging Process and Fast Genomic Data pipeline, BPM, Workflow, ESB, J2EE, REST and SOA, SQL and MongoDB) Clinic Applications and Instrument control based on NGS techniques.

Managing System and Clinic Application software team and developing software for NGS based clinic applications. The Agile and XP software processes, JIRA, SCRUM.

Work with external and internal software partners to enhance existing algorithms, modify and develop new open source bioinformatics algorithms for cutting edge NGS platforms, across a range of applications.

Develop Database Centric LIMS applications to interface with library and sequencing Workflows.

Design, implementation and integration Business Process Management (BPM) for NGS workflow, include, MES integration, PAT, SCADA, Sequencing pipeline control, imagine registration, basecall, mapping and sequencing assembly, variants call, classification an integrations.

Feasibility, Fault Tree and Hazard analysis of Sequencing Instrument and diagnostic workflow, Design Control and Agile developments.

Oracle Corporation, Redwood Shore, CA Jan.2009- Oct. 2013

Principle System Software Engineer/Principle Member of Technical Staff of Server Technologies, Lead/Manager (J2EE, Java, Oracle Fusion, ADF,WebCenter,JSP, JSF, EJB, BC4J,SOA, RESTFul, SOUP) Develop Database Centric Web applications with Fusion middleware, SOA, ESB, WebCenter and Oracle Database.

System Framework development of Oracle ADF Fusion Applications of Oracle technology stack, include WebCenter, Enterprise Manager, SOA Suit (BPEL, Rules Engine, BAM, Composer, Human workflow) and Oracle DB.

Warroom Environments for Oracle Fusion Enterprise Applications System Triages, integrations verification and validation of CRM, FSCM HCM.

Apps Building and Implementation. Design and implement Use Cases based on Oracle ADF development pattern with JDeveloper and Fusion Middleware.

Develop Unit Test framework for Fusion Middleware base on JUnit and JFC Unit, abbot, Selenium.

Accuray Inc. Sunnyvale April. 2004-Jan.2009

Sr. System Development, lead/manager (C++, C, Perl, Shell Script, VxWork, Matlab,V&V) Design control, system architecture and integration, requirements and interface descriptions of Stereotactic Robotic Radiosurgery System CyberKnife (CK).

Design, implementation, integration of CK System, include Machine Control, Imagine process and Medical LIMS. Feasibility, Fault Tree and Hazard analysis of CK System.

Lead system integration, root cause analysis of system problems. Develop System mitigation, write and execute protocols, analyzes data, and document results. Integration of CK Patient Customer Hospital CDMS Systems.

Interface RD and Marketing and PM, Tractability implementation and risk analysis of CK. Responsible for the planning, system control and targeting locating algorithms.

Design Control and System Development, verification and validation (V&V) activities for FDA and Regulatory Compliance affairs. Development and implementation of Corrective Action and Preventive Action (CAPA). Design history and compliance analysis, produce and generate the necessary results and documentations for multiple of FDA 510k applications and approvals.

Applied Biosystems, Foster City, CA Mar. 1999–Aprl.2004

Sr. Software Engineer, Manager/lead (Java, J2EE, XML, Oracle, Junit, JFC, ANT, CI, FDA and XP process)

Translating user stories to task lists and schedules; design, development, and testing of software to meet

customers requirements in Sequence Detection System (SDS) group.

Design, development and testing of SDS software on 7900 HT real-time PCR machine for genotype and gene expression, resulting in the successful implementation of FDA 21 CFR part 11compliant capability. Responsible for many functional designs, implementation and testing utilizing Swing GUI, XML (JAXP, JAXB) message over JMS, automatic control with C++, JDBC in database layer, Application server JBoss and Oracle 9i at the backend.

Design, development and testing of high throughput genotype (SNP Manager), gene expression (RQ Manager) and their integration with LIMS Systems. Participated in validation of integration of software, chemistry, and instrumentation. Responsibility includes the implementation of Swing GUI, client side algorithms, JDBC, FDA 21 CFR part 11 capabilities.

Design, implementation and execution of Industry Best Practice and XP Programming Process. Participated in implementation of ANT-based building and continuous integration (CI) processes. Implemented unit test cases under the JUnit and JFCUnit frameworks.

Sr. Software Engineer (Java, J2EE, XML, Algorithms)

Design and implement PCR Primer Express software. Responsible for GUI development, algorithm development, J2EE integration and presentation framework (GUI) integration in PCR Group.

Designed and implemented distributed Primer Express software based on the Request and Response framework over JMS. Implemented XML messages and client and server side XML parse and persistence. Participated in J2EE component integration with PCR Primer Express software.

Designed and implemented stand-alone PCR Primer Express software. Implemented the algorithms and GUI and integrated them with the Presentation Framework.

Sr. Software Engineer (Java, XML, Algorithms, SCM)

Design, develop and debug of HIV Genotype software in Molecular Diagnostics Dept. Responsible for the

development of auto framework, drug logical design and validation of HIV Genotype systems.

Development, implementation and debugging of HIV and HLA Genotype software and diagnostic kit, resulting in 510(k) marketing clearance. HIV virus Sequences and base-calls signals processing. Sequence assembling. Drug logic development and clinic applications.

Functional integration and validation and verification resulted in FDA 510k approval. Designed and implemented auto scripting tools for HIV Genotype software. Implemented the framework and test scripts.

Software configuration and life cycles management. Capability, Maturity Model (CMM) management.

University of Rochester, Rochester NY May. 1995–Mar. 1999

Research Associate (DNA/RNA Dynamics and Structures Studies with Nuclear Magnetic Resonance and

Relaxation in biomolecular systems. Solid state NMR, NQR).

DNA/RNA sequencing and secondary structure folding and simulation. Oligonucleotide structure and dynamics study and modeling. 3-D structure modeling and predications of DAN and RNA.

Performed dynamic and 3-D structure modeling of oligonucleotide including distance geometry,

Molecular dynamics, Monte Carlo, energy minimization based on multi-dimensional NMR results.

Experienced with modern biophysical instruments such as Mass. spectroscopy (MALDI and ESI ), Core and real time PCR, Sequencer, Micro Array systems, HPLC, gas chromatography, UV/Vis CD and, Gel Electrophoresis and other CEs.

Used NMR and NMRD to study magnetic relaxation in heterogeneous biological system including structure and dynamics of proteins, relaxation properties of tissues, and MRI contrast control.

Designed and built a NQR spectrometer. Developed a method of non-invasive determination of

The protein contents in tissue by nuclear magnetic Relaxation. NQR studies of biological materials.

Institute of High Energy Physics, Academic Sinica, P.R. China Sep.1984–Sep. 1989

Engineer (Neutron and Photon Activation Analysis. Radiopharmaceuticals and Labeled Compounds).

Worked on 201TL, 67GA, 11C, 19F, etc short-lived radioisotopes and Labeled compounds.

Participated in the development and application of photon activation analysis.

Education

University of Rochester, Rochester, NY

Ph.D. BIOPHYSICAL Chemistry

Institute of High Energy Physics. Beijing, P. R. China

M.S. Nuclear Techniques in Life Science

Peking University. Beijing, P. R. China

B.S. Nuclear and Radiochemistry

Personal Information

RESIDENCY: U.S. Citizen.

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