Scientist I, Molecular Biology & Bioinformatics at Achaogen
South San Francisco, CA, US
Position Summary:

We are seeking a highly motivated Scientist to make significant and unique contributions to the discovery of novel antibacterial agents as an integral member of the Early Research team. The Scientist in this role will work at the critical interface between experimental and computational molecular biology in a dynamic, multidisciplinary research environment supporting both antibody and small-molecule antibiotic discovery programs. Achaogen is particularly interested in candidates who can contribute substantially to technological development for microbial genetic engineering and build our internal bioinformatics and computational biology workflows. The ideal candidate will take an integrated, computer-aided approach to the engineering of microbial systems for biotechnology applications, and will demonstrate a track record of collaborative teamwork to address challenging problems in biology. This role requires the ability to contribute intellectually to project strategy and design, to communicate effectively across multiple scientific disciplines, and to independently plan and execute internal research studies.

Key Attributes:

Passionate commitment to the discovery of novel medicines to treat multi-drug resistant Gram-negative bacterial infections.
Driven individual with demonstrated track record of proactively seeking resources/advice as needed to advance research.
Strong ability to identify most efficient path to advancing/de-risking projects/programs.

Essential Functions:

Establish/adapt genetic engineering methods to enable the efficient manipulation of clinically relevant bacterial pathogens.
Devise and optimize efficient, scalable strategies for gene/pathway synthesis and assembly to enable diverse projects in early discovery (e.g. design and construction of custom induction systems, mobile genetic elements, expression vectors, variant libraries for directed evolution, etc.).
Partner with project leaders to design, execute, and analyze “-omics” studies (whole-genome sequencing, comparative genomic and phylogenetic analysis, RNA-seq, Tn-seq, nCounter assays, de novo genome assemblies etc.).
Mine internal and publicly available genomic data for the identification of novel drug targets.
Interpret and clearly communicate findings to a multi-disciplinary team of research biologists and chemists.
Collaborate with Achaogen IT to develop genomics data management, integration and mining solutions to enable data analysis and utilization across research teams.
Actively seek, evaluate, and spearhead the adoption of new computational approaches to expand internal capabilities.
Identify, evaluate and ensure collaborators (academic and commercial) possess required scientific expertise and resources to advance collaborative research programs.

Essential Experience:

2+ years of postdoctoral experience in the academic or biotechnology sectors.
Strong background in experimental molecular microbiology and genetic engineering in model bacterial systems.
Familiarity with microbial physiology and prokaryotic mechanisms of gene regulation.
Proficiency in standard computational workflows for analysis of next-generation sequencing data.
Demonstrated ability to deploy computational tools for the design of custom genetic constructs and generation of recombinant genes/pathways.
Demonstrated track record of innovation through research programs and impactful publications.
Possesses exceptional ability to analyze and present applicable data and manage multi-disciplinary tasks.
Current US work authorization required.

Preferred Experience:

Proficiency in scripting languages commonly used in bioinformatics programming (e.g. Python, Perl, R) and the ability to develop custom scripts de novo.
Expert knowledge of and ability to adopt/customize modern algorithms for functional genomics, including genome assembly/annotation, gene expression analysis, sequence alignment, SNP identification, and comparative genomic analysis.
Experience with CRISPR/Cas-mediated genome editing and gene inactivation.
Proficiency in visualization and presentation of -omics data to enable data-driven decision making for discovery programs.
Experience with computational methods for enzyme engineering.
Demonstrated ability to work in an interdisciplinary, fast-paced environment.
Experience initiating and overseeing successful research collaborations.


Ph.D. in Bioengineering, Molecular Biology, Microbiology, Quantitative & Computational Biology, or related field

Preferred Additional Skills:

Exceptional written and verbal communication skills.
Excellent decision making and organization skills.
Committed to the values of integrity, accountability, transparency, scientific rigor and drive.
Proven ability to positively impact company culture and demonstrate flexibility in fast paced environment.
Ability to travel domestically and internationally.