Highly analytical and result oriented scientist with years of experience in performing sophisticated statistical data analyses, software development and mining of big data on large Linux workstation farms. Bioinformatics certification. Web and Java programming certification. IonTorrent PGM system certification. MiSeq operation. Wet lab experience.
Specialties:
o) Wet lab experience: IonTorrent PGM system certification, Illumina library prep & MiSeq operation.
o) Multiplexed PCR primer design.
o) NGS analysis pipeline development: WES, WGS, RNA-Seq, ATAC-Seq, ChIP-Seq.
o) Genome & transcriptome assemblies & annotation, BLAST searches.
o) Sequence alignment, SNP & large variant analysis: bowtie, bwa, BLAST, clustalw, GATK, manta, etc.
o) Variant effect prediction: snpEff, VEP.
o) Data mining, machine learning, pattern recognition, graph theory, cluster finding, neural networks.
o) High performance computing: AWS, OpenLava, Torque.
o) Software Development: Linux/bash, SQL, C/C++, java, perl, python/Biopython, R/bioconductor.
o) Software version control: svn, git, gitlab.
o) Project management: jira, confluence.
o) Workflow management: cwl, wdl, nextflow, snakemake.
o) Web Development: HTML/XML/XSL, PHP & MySQL, JavaScript.
o) Data storage, data pipelines.
o) Problem solver.
o) Operate well in cross-functional teams.
o) Technical leadership, bioinformatics operations.