Doctoral student in Generative Modeling of Biomolecules Full-time

Doctoral Student In Generative Modeling Of Biomolecules

KTH Royal Institute of Technology, School of Electrical Engineering and Computer Science

Project Description

Third-cycle subject: Computer science

Cryo-EM is a method for reconstructing the 3D structure of a biological molecule using images from electron microscopes. However, the images obtained from the electron microscope are often plagued by high levels of noise, which is typically mitigated by using a large number of images, which in turn leads to high data collection costs.

This project proposes a new method for reconstructing 3D structures of molecules from cryo-EM images using generative models. The prospective student will join Azizpour's group and develop novel generative models of biomolecules' structures to be used, by other project members, as a prior in a Bayesian inference of the biomolecules' dynamics in order to construct more reliable 3D structures. The results are expected to be published at top machine learning venues such as NeurIPS, ICML, and ICLR.

The project is a collaboration within Digital Futures between the Departments of Intelligent Systems and Mathematics at KTH and the Department of Biochemistry and Biophysics at SU.

Admission Requirements

To be admitted to postgraduate education (Chapter 7, 39 § Swedish Higher Education Ordinance), the applicant must have basic eligibility in accordance with either of the following:

• passed a second cycle degree (for example a master's degree), or
• completed course requirements of at least 240 higher education credits, of which at least 60 second-cycle higher education credits, or
• acquired, in some other way within or outside the country, substantially equivalent knowledge,
• strong programming skills, esp. deep learning,
• prior education and research experience in machine learning.

In addition to the above, there is also a mandatory requirement for English equivalent to English B/6.

Selection

In order to succeed as a doctoral student at KTH you need to be goal oriented and persevering in your work. During the selection process, candidates will be assessed upon their ability to:

• independently pursue his or her work
• collaborate with others,
• have a professional approach and
• analyze and work with complex issues.
• research experience and education in theory and practice of generative modeling,
• research experience or education in life science data and
• prior experience with remote GPU and HPC services.

After the qualification requirements, great emphasis will be placed on personal skills.

Target Degree: Doctoral Degree

Information Regarding Admission and Employment

Only those admitted to postgraduate education may be employed as a doctoral student. The total length of employment may not be longer than what corresponds to full-time doctoral education in four years' time. An employed doctoral student can, to a limited extent (maximum 20%), perform certain tasks within their role, e.g. training and administration. A new position as a doctoral student is for a maximum of one year, and then the employment may be renewed for a maximum of two years at a time. In the case of studies that are to be completed with a licentiate degree, the total period of employment may not be longer than what corresponds to full-time doctoral education for two years.

As a doctoral student, you are entitled to a workplace with many employee benefits and monthly salary according to KTH's Doctoral student salary agreement. Read more about Doctoral studies (PhD) | KTH | Sweden.

To Apply For The Position

Apply for the position and admission through KTH's recruitment system. It is the applicant's responsibility to ensure that the application is complete in accordance with the instructions in the advertisement.

Applications must be received at the last closing date at midnight, CET/CEST (Central European Time/Central European Summer Time).

Applications must include the following elements:

• CV including your relevant professional experience and knowledge.
• Application letter with a brief description of why you want to pursue research studies, about what your academic interests are and how they relate to your previous studies and future goals. (Maximum 2 pages long)
• Copies of diplomas and grades from previous university studies and certificates of fulfilled language requirements (see above). Translations into English or Swedish if the original document is not issued in one of these languages.Copies of originals must be certified.
• Representative publications or technical reports. For longer documents, please provide a summary (abstract) and a web link to the full text.

Other Information

For information about processing of personal data in the recruitment process.

It may be the case that a position at KTH is classified as a security-sensitive role in accordance with the Protective Security Act (2018:585). If this applies to the specific position, a security clearance will be conducted for the applicant in accordance with the same law with the applicant's consent. In such cases, a prerequisite for employment is that the applicant is approved following the security clearance.

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Disclaimer: In case of discrepancy between the Swedish original and the English translation of the job announcement, the Swedish version takes precedence.

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