Jeffry Yaplee Email & Phone Number

Seattle, Washington, United States

Use TwinStrand’s Duplex Sequencing technology to prepare Illumina Next Generation Sequencing (NGS) libraries for the purposes of: 1. Client proof of concept (POC) projects, such as - CAR-T therapy assays - AML MRD remission prediction - Mutagenesis time course studies - De-multiplexing samples containing multiple individuals by micro-haplotyping - Testing custom probe panels2. Product research and development. for example - AML VAF standard ladder - Cell line typing - Reagent testing and QC - Testing different client library preparation conditionsWork involved: - Experimental design - gDNA shearing - NGS library preparation following detailed SOP - NGS library quantification and pooling using High Sensitivity Qubit and Agilent Tapestation - Loading Illumina sequencers (NextSeq500, NextSeq2000, NovaSeq6000) - Maintaining electronic notebook - Sequencing analysis using Microsoft Excel - Presenting findings using Microsoft PowerpointAdditional duties include, but not limited to: - gDNA extraction, sample preparation, Qubit quantification and QC using Agilent Genomic Tapestation - Duplex sequencing and other reagent preparation - Ordering supplies when low - Lab maintenance

Seattle, Wa

Member of the chemistry team applying the hyb & seq method to develop a diagnostic sequencer and an instrument using MERFish for spatial transcriptome profiling. Worked independently and in collaboration with Senior Scientists, using a wide variety of molecular biology tools/protocols at a cGMP facility. During tenure with Nanostring, worked on two projects: 1) Hyb & Seq, and 2) spatial transcriptome profiling. For the Hyb & Seq project, responsibilities included: Ensuring the team never ran out of reporters by preparing sufficient reporter supplies by pooling reporter oligonucleotides, hybridizing reporters, HPLC purifying reporters, and functional QC testing of reportersDesign & conduct experiments to assess new reporter designs, the effect of various reporter concentration, and reagent concentrations on reporter kinetics/efficiencies and UV cleaving efficienciesAutomate reporter production by helping to develop a Hamilton Nimbus robot program to pool reporter oligonucleotidesAssess viability of CNVK UV cross linking targets with substrate L-DNA lawn oligonucleotides by designing and conducting experiments to improve sample survival from 65% to 80%. Automate oligonucleotide QA analysis by developing a Python program that analyzed traces from a OliProII CE. For the spatial transcriptome profiling project, responsibilities included: FFPE sample preparation (sectioning, manually using a modified RNAScope protocol, and automatically on a Leica Bond RX) ISH probe hybridization of FFPE samplesDesign and conduct experiments on prototype instruments to assess various conditions to improve specificityDesign and conduct Crispr/Cas9 based ISH probe hybridization method to reduce overnight 37C incubations to 1 hour 37C incubations and at the same time improve specificity

Bothell, Wa

Member of Research & Development group. Worked independently and under the direction of Senior Scientists to: • Develop new processes (protocols and workflows) for gene synthesis, PCR, and cloning. - Analyze scientific papers and create working process from paper’s method. - Design and perform experiments to generate test data, and analyze data for process optimization. • Developed a protocol for NGS sequencing library construction by blunt end cloning sheared DNA fragments. • Analyze existing processes for improvements, develop solutions, assess impact of change, and make recommendations to management for implementation. • Automated the PCR gene synthesis process on robots. Developed functional requirements for the system; managed vendor implementation; created test scenarios and scripts; during testing period wrote incident reports to vendor and worked with vendor to resolve system problems; reviewed vendor deliverables before final approval of system. • When a process had problems, created and analyzed data about problem to identify the root cause of the problem, and developed a solution to fix the problem. • Improved cloning efficiency by introducing the use of fluorometric DNA concentration measurements and using molar concentrations to balance reaction stoichiometry. Wrote a MS Excel function to convert ng/uL to pmol/uL to support this. • Improved PCR protocols by using additives for high GC, high AT and long accurate PCR.• Established cGMP practices for the protocols and processes developed/automated. • Maintain laboratory notebook, including data analysis, and documenting experimental results in reports. • Presentations of research and discoveries to Research and Development colleagues and CSO. Additional duties included constructing and preparing vectors; analysis, assembly and cloning of problematic genes; special projects; maintaining laboratory equipment; backup for oligonucleotide synthesis; and mentoring colleagues.

Bothell, Wa

Part of the production team for gene synthesis. Primary duties: restriction digests; PCR reactions; electrophoresis gels; HPLC and gel isolation DNA purification; electrophoresis gel analysis; analyze gene sequences; and cloning. Additional duties: transformations; measuring oligonucleotide & DNA concentrations; preparing & cleaning sequencing samples; operating & maintaining sequencers; preparing reagents; operating & maintaining manufacturing robots.

Seattle, Wa

Member of Advanced Internet Technologies Group in DEC's Professional & Managed Services division. Worked with Marketing to define and analyze functional requirements to create service offerings based on Microsoft’s Commercial Internet System (later MS Hosted Exchange) that DEC Professional and Manager Services could sell & deliver to Internet Service Providers (ISPs). This ISP service was sold as a managed service and consisted of: • A repeatable & scalable Distributed Internet Data Center design comprised of pre-configured rack-mounted systems with fibre-channel storage, & data center LAN components• Professional and Managed Services delivery of buildout & installation• Managed Services for ongoing data center & network management & operationsAccomplishments: • Lead analyst of ad hoc teams for over 5 key proposal & delivery efforts worldwide. Managed the development of the technical response to the client’s RFP, & analyzed client’s requirements to develop the overall technical solution. Presented & defended the technical solution to client. Won each RFP effort involved in, leveraging services to bring in $2-3 million per proposal in hardware & additional services. • Provided tier 2-3 technical support to implementation teams. Escalated problems to Microsoft contacts as needed. • Developed training materials & coursework in Powerpoint & Visio to train over 100 DEC consultants & end users worldwide on the delivery of this ISP service offering. • Worked with DEC’s ISP Solutions Hardware Engineering Group to analyze server performance data to characterize the performance of pre-configured hardware product offerings. • Provided business requirements to technology solutions analysis for DEC’s key wired & wireless ISP clients. • Used MS Sharepoint to collaborate with & transfer knowledge to colleagues.

Seattle, Wa

Senior network analyst in DEC’s Network Consulting Group delivering business analysis, network management policies and procedures, network change management, and technology consulting to major customers nationwide. Responsible for all phases of the consulting engagements, from sales through delivery. Accomplishments: • Lead analyst delivering over 10 consulting engagements for Fortune 500 clients. Used consultative selling to understand client’s business problems, and create a network assessment proposal to: - Interview client personnel to define and document client’s business, user and functional requirements- Perform a computing environment and network assessment analysis- Use requirements and assessment analysis to develop technical solutions and recommendations for follow-on work- Present and defend technical solutions and follow-on work to client, including upper and C-level management• Analyzed OSF/1 Unix TCP/IP code for RFC compliance for DEC Unix Engineering group. • Presented papers to evangelize DEC’s networking products at major conferences such as Interop, and SuperComm.

Seattle, Wa

Lead Data Communications Analyst, Boeing Computer Services, Seattle, WATechnical lead and principal analyst for the implementation of the Boeing-wide TCP/IP network. Worked with representatives from each Boeing Operating Company (BOC) to understand the business processes the network needed to support. Worked with the BOC representatives to develop: 1) a design for the wide area router network interconnecting Boeing sites in alignment with business processes; 2) recommendations for LAN design; 3) structured network distribution systems; and 4) network management policies and procedures (including change management). Used project management skills to manage implementation schedules and budgets. Boeing’s representative to the ANSI X3S3.3 Committee on Network and Transport Layer Protocols to analyze proposed network and transport layer protocols to ensure that the protocols reflected Boeing’s requirements. Data Communications Analyst, Boeing Computer Services, Seattle, WAAnalyzed business requirements from the Boeing Architecture Office to develop a technical solution called the Technical Office Protocol (TOP) that aligned with these business requirements. Led ad hoc committee composed of representatives from each Boeing Operating Company to develop the technical definition of the TOP protocol to standardize Boeing’s office automation purchases.Operating Systems Analyst, Boeing Computer Services, Seattle, WAOperating Systems Consultant, Boeing Computer Services, Vienna, VATechnical Representative, Boeing Computer Services, Seattle, WA

Bachelor’S Degree, Mathematics And History With Honors, Magna Cum Laude

Activities and Societies: Phi Eta Sigma, Dean’s List

Associate’S Degree, Biotechnology

Activities and Societies: Phi Theta Kappa, Dean’s ListNSF Undergraduate Research Program (Summer 2005). Effect of Preprocessing.