Apply on Employer Site

Alaka`ina Foundation Family of Companies · 2 days ago

Genomics Computational Systems Biologist

Frederick, MD

Full-time

Onsite

Senior Level

5+ years exp

The Alaka`ina Foundation Family of Companies is a fast-growing government service provider seeking a Genomics Computational Systems Biologist to support their government customer. The role involves maintaining high-throughput analysis pipelines, processing large-scale genomics datasets, and collaborating with researchers to meet computing and data requirements.

CharityCommunitiesGovernment

No H1B

U.S. Citizen Only

Responsibilities

Support and maintain high-throughput analysis pipelines for omics data, pathogen discovery, genome analysis and to integrate with in-house databases

Process large-scale and high-throughput genomics datasets generated from Oxford Nanopore, and Illumina sequencers (e.g., whole genome sequencing and RNA-Seq)

Setup and maintain travel laptops for overseas training missions

Assist in monitoring and responding hardware/server issues, Manage and administer the Microsoft HPC cluster, including installing, configuring, and maintaining HPC software and related tools. Monitor and optimize the performance of the HPC infrastructure, identifying and resolving any performance bottlenecks

Collaborate with researchers and end-users to understand their computing and data requirements, provide guidance, and implement solutions to address their needs. Monitor HPC jobs and queues, troubleshoot issues, and perform system debugging to ensure job completeness and on-time delivery

Conduct regular system backups and develop disaster recovery plans to minimize downtime in case of system failures or data loss. Stay up to date with the latest advancements in HPC technologies, tools, and best practices, and make recommendations for system upgrades and optimizations. Document system configurations, procedures, and troubleshooting guides for internal reference and knowledge sharing

Assist to maintain laboratory records documenting sample processing, analysis pipeline design and usage, and data management and backups that meet current CGS and Institutional requirements and ensure continuity and collective sharing of resources. Communicate experimental data, laboratory issues, or other task-related issue to the PI or TPOC

Assist in maintaining laboratory equipment, network connectivity to equipment, regular equipment-specific updates and data storage management, as well as keeping an organized, safe, and professional work environment

May require minimum travel to provide training in installing pipelines and support to external collaborators

Under special circumstances, may be required to work varied schedules (second shift) and occasional weekends to accomplish time sensitive laboratory tasks

May be required to present work, attend meetings and training, and in collaboration with the government, engage with partners to support the biosurveillance and training missions which may require CONUS or OCONUS travel approximately 1-2 times per year

Other duties as assigned by Supervisor

Qualification

Bio surveillanceLinux environmentNGS data analysisHPC technologiesPythonPerlShellRC++JAVAAnalytical workflowsData pipeline development

Required

Master's degree in biomedical science/bioinformatics/math/computer science related field with a minimum of five (5) years' experience

Must have two (2) to three (3) years' experience in bio surveillance

Must have three (3) to five (5) years' experience working within a Linux environment and a good knowledge of scripting language for handling large-scale parallel data pipeline development, and programming language for implementing compute node server-side pipelines

Proficiency with Python, Perl, Shell, R, C++, and JAVA is preferable. Must have expertise in the areas of NGS data analysis

Must be able to build and maintain analytical workflows and tools for automated deployment of bioinformatics analytical pipeline for parallel processing of Next Generation Sequencing data

Must be knowledgeable in latest HPC technologies, including but not limited to Microsoft HPC cluster including installing, configuring, and maintaining HPC software and related tools, and best practices

U.S. Citizen

Must have or be able to obtain a valid U.S. Passport

Must pass NACI background check