Notre Dame, Indiana, United States
► Innovative, problem-solving biology Ph.D. student with 9 years of training in bioinformatics, genomics, and genetics ► Strong skills with next-generation sequencing data analysis, including RNA-seq and metagenomics ► Hands-on experience in a wide range of analytical techniques, including Perl, Python, R, Shell scripting and statistics
Fish Biodiversity Assessment with Environmental DNA - Investigated fish biodiversity via environmental DNA and NGS to monitor endangered and invasive species resulting in 1 first-author and 4 co-author papers published in scientific journals - Species assignment optimization: applied data mining algorithms (including Decision Tree, Naïve Bayes, and Sequential Minimal Optimization) to fast and accurately identify fish species - Developed bioinformatics pipelines to improve assembly and annotation for mixed mitochondrial genomes - Built bioinformatics pipelines to analyze batch metagenetic samples in parallel (>200 samples) based on Sun Grid Engine Insect Oxidative Phosphorylation Evolution Study with RNA-seq - Studied functional gene evolution in large-scale of insect lineages across 4 insect orders using RNA-seq with 1 first author paper and 1 co-author paper published in scientific journals - Performed assembly, annotation, variant calling, testing gene family evolutionary rate, gene family expansion and contraction analysis - Collaborated with corporate partner, BGI, on the 1000 Insect Transcriptome Evolution project
- Developed a PCR-independent approach that reduced the false positive rate of metabarcoding - Built bioinformatics pipeline to assemble and annotation mitochondrial genomes
- Investigated gut microbiome difference between premature and fullterm infants using metagenomics and qPCR - Developed bioinformatics pipeline for 16S rRNA gene analysis