Doctoral student in deep generative models for cancer research

Royal lnstitute of Technology

Sweden

October 19, 2022

Description

Project description

Third-cycle subject: Computer Science

Variational autoencoders (VAEs), a part of the Variational inference (VI) methodology, has recently become important in analysis of large single-cell and spatial bio data. Yet, employing them for posterior approximations in Bayesian phylogenetics is a difficult problem. Clear examples of successful applications are still outstanding. Following recent trends in VAE research, one may hypothesize that it may be addressed by incorporating inductive biases, modeling more advanced prior distributions, and/or via architecture design.

This project aims to explore the possibility of employing VAEs or other deep generative models in the setting of somatic cancer evolution and Bayesian phylogenetics. By doing so, the Ph.D. will simultaneously contribute to two highly impactful scientific fields: computational bio/cancer and Bayesian inference in deep learning.

Our group teaches and produces cutting-edge research in VAEs, VI and approximate Bayesian inference in general, especially for methods in phylogenetics. The group provides a fertile environment for the Ph.D.'s development. The group also has a national and international network including both methodological and cancer-research groups.

Jens Lagergren is proposed to supervise the doctoral student. Decisions are made on admission

What we offer
  • The possibility to study in a dynamic and international research environment in collaboration with industries and prominent universities from all over the world. Read more
  • A workplace with many employee benefits and monthly salary according to KTH's Doctoral student salary agreement.
  • A postgraduate education at an institution that is active and supportive in matters pertaining to working conditions, gender equality and diversity as well as study environment.
  • Work and study in Stockholm, close to nature and the water.
  • Help to relocate and be settled in Sweden and at KTH.
  • 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
  • In addition to the above, there is also a mandatory requirement for English equivalent to English B/6, read more here

    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
  • analyse and work with complex issues.
  • After the qualification requirements, great emphasis will be placed on personal competency.

    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.

    Union representatives

    You will find contact information for union representatives on KTH's website.

    Doctoral section (Students' union on KTH Royal Institute of Technology)

    You will find contact information for doctoral section on the section's website.

    Application

    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

    Striving towards gender equality, diversity and equal conditions is both a question of quality for KTH and a given part of our values.

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

    We firmly decline all contact with staffing and recruitment agencies and job ad salespersons.

    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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