Head of Microbiology and Agriculture

• Aug 2023 - Present

Platform Science Manager

• Aug 2022 - Aug 2023

Research Scientist -Endophyte Team Lead

• Mar 2021 - Aug 2022

Laboratory Coordinator

• Jan 2017 - Feb 2021

• Overall responsibility for daily operation of the sequencing center • Scheduling instrument runs/maintenance and lab staff personnel time off • Trained employees new protocols/techniques • Technical responsibilities as listed below: PacBio Sequencing Technology: <3kb, 10kb, 20kb library preparation, PacBio cDNA library preparation (Iso-seq). RSII Instrument Operation. Obtained site certification for PacBio Certified Sequencing Provider Program. Illumina… Show more • Overall responsibility for daily operation of the sequencing center • Scheduling instrument runs/maintenance and lab staff personnel time off • Trained employees new protocols/techniques • Technical responsibilities as listed below: PacBio Sequencing Technology: <3kb, 10kb, 20kb library preparation, PacBio cDNA library preparation (Iso-seq). RSII Instrument Operation. Obtained site certification for PacBio Certified Sequencing Provider Program. Illumina NGS Technology: HiSeq-2000, Custom Single-Cell RNA-Seq , RNA-Seq, DNA-Seq, ChIP-Seq, and Small RNA-Seq library preparation. NGS library preparation through automated methods using the Sciclone NGS liquid handler and sequencing for Illumina and Pacbio platforms. Oxford Nanopore MinION 1D and 1D^2 library preparation and sequencing. - Writing, validating and maintaining Standard Operating Procedures (SOP) - NGS Assay Development - Assist researchers in preparing and performing NGS experiments - Delegating tasks to lab personnel - Scheduling sequencing instrument runs (Illumina/PacBio) and maintaining weekly lab schedule - Log monthly billing in LIMS system for invoicing/accounting purpose - Ensure adequate reagents and consumables supply, monthly inventory, lab cleanup Customer service/communication providing quotes, project planning/management, and consultation. Research and develop lab protocols and technologies for use in production research environments.

Bioinformatics Research Associate

• Dec 2014 - Feb 2021

-Experience analyzing metagenomic and metatranscriptomic NGS data. -Familiar with one or more programming languages (e.g. R, Python). -Experience working with Illumina and PacBio sequencing data in DNA-seq and RNA-seq contexts. -Experience with genome, transcriptome, and metagenomic assemblies -Snp, INDEL and copy number variant detection with various bioinformatics tools, e.g., GATK and Freebayes and variant annotation with SnpEff, SnpSift and VEP. -Experience working in a… Show more -Experience analyzing metagenomic and metatranscriptomic NGS data. -Familiar with one or more programming languages (e.g. R, Python). -Experience working with Illumina and PacBio sequencing data in DNA-seq and RNA-seq contexts. -Experience with genome, transcriptome, and metagenomic assemblies -Snp, INDEL and copy number variant detection with various bioinformatics tools, e.g., GATK and Freebayes and variant annotation with SnpEff, SnpSift and VEP. -Experience working in a UNIX/Linux cluster environment. -Experience teaching bioinformatics at NCGR's/INBRE Bioinformatics Intensive Internship, including Differential Gene Expression and Pathway analyses, metagenomics, and transcriptomics.

Associate Director of Customer Support

• 2014 - Jan 2017

Simbiot Inc. and the National Center for Genome Resources joined forces to launch Lumenogix, a software company dedicated to making sophisticated bioinformatics analysis achievable to all researchers who handle NGS data. The flagship product, Lumenogix NGS includes: · Data analysis capability with five integrated pipelines and dozens of peer-reviewed algorithms. · Researcher-friendly interface allowing non-specialists to easily analyze complex data sets. · Data and information… Show more Simbiot Inc. and the National Center for Genome Resources joined forces to launch Lumenogix, a software company dedicated to making sophisticated bioinformatics analysis achievable to all researchers who handle NGS data. The flagship product, Lumenogix NGS includes: · Data analysis capability with five integrated pipelines and dozens of peer-reviewed algorithms. · Researcher-friendly interface allowing non-specialists to easily analyze complex data sets. · Data and information management, tracking samples through all steps of the data analysis process · Easy integration with corporate IT infrastructure and regulatory environments.

Associate Director of Customer Support

• 2014 - 2014

PhD Molecular Biology

• Sep 2008 - May 2014

Completed doctoral thesis and investigated the role of hypoxia-inducible factors (HIFs) in the regulation of alternative splicing and gene expression of HIF target genes. Conducted cell culture experiments to assess cancer progression in response to various stimuli and drugs. Authored peer-reviewed publications and presented results at symposia. Analyzed, interpreted, and disseminated scientific data at weekly lab meetings. Instructed 2 junior graduate students and research assistants on… Show more Completed doctoral thesis and investigated the role of hypoxia-inducible factors (HIFs) in the regulation of alternative splicing and gene expression of HIF target genes. Conducted cell culture experiments to assess cancer progression in response to various stimuli and drugs. Authored peer-reviewed publications and presented results at symposia. Analyzed, interpreted, and disseminated scientific data at weekly lab meetings. Instructed 2 junior graduate students and research assistants on complex biochemical procedures. Composed and edited research manuscripts and grant proposals. • Introduced multiple techniques to increase productivity, recommended acquisition of additional lab equipment, and optimized quantitative assays to reduce reagent use and cost by 75%. • Molecular Biology Techniques: RNA, DNA, & Protein Isolation - qPCR; Southern Blot; Western Blot Ribonuclease Protection Assays; Microarray & Exonarray Analysis; Gene Cloning; Clonogenic Survival ELISA and Proliferation Assays - Wound Healing Migration Assays; Site-Directed Mutagenesis; Luciferase Assays; Rapid Amplification of cDNA Ends (RACE); Chromatin Immunoprecipitation (ChIP); Co-IP; Flow Cytometry; Aseptic Cell Culture; siRNA/shRNA; Light Microscopy; Scanning Electron Microscopy. Highly experienced with expression of recombinant proteins in E. coli and human cells using transient and stable transfection and viral transduction methods. Show less Completed doctoral thesis and investigated the role of hypoxia-inducible factors (HIFs) in the regulation of alternative splicing and gene expression of HIF target genes. Conducted cell culture experiments to assess cancer progression in response to various stimuli and drugs. Authored peer-reviewed publications and presented results at symposia. Analyzed, interpreted, and disseminated scientific data at weekly lab meetings. Instructed 2 junior graduate students and research assistants on… Show more Completed doctoral thesis and investigated the role of hypoxia-inducible factors (HIFs) in the regulation of alternative splicing and gene expression of HIF target genes. Conducted cell culture experiments to assess cancer progression in response to various stimuli and drugs. Authored peer-reviewed publications and presented results at symposia. Analyzed, interpreted, and disseminated scientific data at weekly lab meetings. Instructed 2 junior graduate students and research assistants on complex biochemical procedures. Composed and edited research manuscripts and grant proposals. • Introduced multiple techniques to increase productivity, recommended acquisition of additional lab equipment, and optimized quantitative assays to reduce reagent use and cost by 75%. • Molecular Biology Techniques: RNA, DNA, & Protein Isolation - qPCR; Southern Blot; Western Blot Ribonuclease Protection Assays; Microarray & Exonarray Analysis; Gene Cloning; Clonogenic Survival ELISA and Proliferation Assays - Wound Healing Migration Assays; Site-Directed Mutagenesis; Luciferase Assays; Rapid Amplification of cDNA Ends (RACE); Chromatin Immunoprecipitation (ChIP); Co-IP; Flow Cytometry; Aseptic Cell Culture; siRNA/shRNA; Light Microscopy; Scanning Electron Microscopy. Highly experienced with expression of recombinant proteins in E. coli and human cells using transient and stable transfection and viral transduction methods. Show less

Graduate Student

• 2005 - 2008