Integrate predictive models (mechanistic and AI-based) and bioinformatics databases into a computational back-end that informs the design of DNA modifications on the front-end. Collaborate with partners in integrating in-house developed tools. Benchmark and validate existing databases and methods. Participate in end-user requirement gathering and usability testing related to the design components of the platform. Participate in the dissemination of research results and scientific research software via publications in peer reviewed journals, presentations at scientific conferences, and public outreach activities
Requirements:
You hold a PhD degree in Bioinformatics, Computational Biology, Bioengineering or related field. You have an interdisciplinary mindset and the ability to grasp complex concepts from diverse fields and do not shy away from asking questions to experts if you don’t. You command a programming language such as Python or R and know your way around the command line. You write high-quality, structured and maintainable code. Experience with Bioinformatics pipelines and workflow management systems is a plus (e.g. Snakemake, Nextflow, and similar) Experience with modern software development practices, including test-driven development and continuous integration is a plus. Experience with Docker/Singularity containers is a plus. Experience in Javascript and front-end development is a plus
Text:
Postdoc in Computational Aided Design of Cells Center for Biosustainability Del til Facebook Del til Twitter Del til LinkedIn Monday 18 Mar 19 Apply for this job Apply no later than 15 April 2019 Apply for the job at Center for Biosustainability by completing the following form. Apply online Modern genome engineering technologies have enabled the rapid and precise editing of DNA, causing a paradigm shift in biotechnology: with the focus shifted from reading to writing genetic information, which of the three billion DNA letters in a human cell need to be rewritten in order to prevent disease, live longer, or encode entirely novel features? The project we are hiring you for is about building a web-based application for computational aided design of cells. Communicating with biological knowledge bases and mathematical models (mechanistic and AI-based), the platform will guide engineers in writing the right DNA based on the entire computable knowledge available for a cell. You will establish the scientific foundation of the platform by integrating state-of-the-art computational biology tools and bioinformatics databases into a computational engine that facilitates the translation of desired phenotypes into a combinatorial library of the most promising DNA edits. Together with a team of software engineers and computational biologists you will then make the engine’s predictive capabilities accessible through an intuitive web-interface that enables users to explore, interpret and filter computed DNA modifications using interactive visualizations of DNA, protein structures, regulatory and signaling networks, and metabolic pathways. The use-case for the initial development of the platform will be the engineering of human T-cells for therapeutic purposes but will be extended to other cells and organisms in the future. Responsibilities and tasks Integrate predictive models (mechanistic and AI-based) and bioinformatics databases into a computational back-end that informs the design of DNA modifications on the front-end. Collaborate with partners in integrating in-house developed tools. Benchmark and validate existing databases and methods. Participate in end-user requirement gathering and usability testing related to the design components of the platform. Participate in the dissemination of research results and scientific research software via publications in peer reviewed journals, presentations at scientific conferences, and public outreach activities. Qualifications You hold a PhD degree in Bioinformatics, Computational Biology, Bioengineering or related field. You have an interdisciplinary mindset and the ability to grasp complex concepts from diverse fields and do not shy away from asking questions to experts if you don’t. You command a programming language such as Python or R and know your way around the command line. You write high-quality, structured and maintainable code. Experience with Bioinformatics pipelines and workflow management systems is a plus (e.g. Snakemake, Nextflow, and similar) Experience with modern software development practices, including test-driven development and continuous integration is a plus. Experience with Docker/Singularity containers is a plus. Experience in Javascript and front-end development is a plus. We offer DTU is a leading technical university globally recognized for the excellence of its research, education, innovation and scientific advice. We offer a rewarding and challenging job in an international environment. We strive for academic excellence in an environment characterized by collegial respect and academic freedom tempered by responsibility. Salary and terms of employment The appointment will be based on the collective agreement with the Danish Confederation of Professional Associations. The allowance will be agreed upon with the relevant union. The period of employment is two years. You can read more about career paths at DTU here . Further information Further information may be obtained from Scientific Directory, Ryan Gill at rtg@biosustain.dtu.dk . You can read more about DTU Biosustain at www.biosustain.dtu.dk . Application procedure Please submit your online application no later than 15 April 2019 (local time) . To apply, please open the link "Apply online", fill out the online application form. The following must be attached in English : Application (cover letter) CV Diploma (MSc/PhD) List of publications Applications and enclosures received after the deadline will not be considered. All interested candidates irrespective of age, gender, disability, race, religion or ethnic background are encouraged to apply. The focus of The Novo Nordisk Foundation Center for Biosustainability is synthetic biology and strain design. Living cells are being genetically modified in order to produce chemicals in a sustainable way. The list of things that can be made by engineered strains includes biofuels, bioplastics, drugs, food supplements and much more. DTU is a technical university providing internationally leading research, education, innovation and scientific advice. Our staff of 6,000 advance science and technology to create innovative solutions that meet the demands of society, and our 11,200 students are being educated to address the technological challenges of the future. DTU is an independent academic university collaborating globally with business, industry, government and public agencies.
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