PhD in Explainable Machine Learning for Studying Biology at Single-Cell Resolution

University of Amsterdam; Amsterdam; On-site; EUR 32,000 - 42,000; Full time

Benefits offered by this job

Holiday hours

Courses from Teaching and Learning Cen

Educational program for PhD students

ABP pension with two-thirds company贡献

Dutch language courses

Housing assistance for moving from abv

Job summary

The University of Amsterdam invites applications for a four-year PhD position at the interface of machine learning and biology. You will develop novel algorithms for analysing single-cell (multi)-omics data and design in silico experiments to test them.

As an active member of the research group you will collaborate with biologists, contribute to teaching and supervision, and lead manuscript writing for publication in peer-reviewed journals and conferences.

Qualifications

• MSc in Bioinformatics, AI, Data Science, Biostatistics or related discipline.
• Experience training ML/DL models, preferably with Python.
• Basic biology knowledge or interest in computational biology.
• Fluent in English, written and spoken.

Responsibilities

• Complete a four-year PhD thesis within official appointment duration.
• Develop novel algorithms for analyzing single-cell (multi)-omics data.
• Lead manuscript writing for publication in peer-reviewed journals and conferences.
• Participate in PhD training programme and assist with teaching and supervision.

Skills

Python

Machine learning

Deep learning

English fluency

Education

MSc in Bioinformatics, AI, Data Science, Biostatistics or closely related discipline

Job description

complete a PhD thesis within the official appointment duration (four years); develop novel algorithms for analyzing single-cell (multi)-omics data and design and perform in silico experiments to test them; be an active and responsible member of the research group and collaborate closely with fellow group members; discuss work with group members and at departmental meetings, and incorporate feedback; take a leading role in writing manuscripts for publication in peer-reviewed journals and conferences; participate in the PhD training programme of the University of Amsterdam; assist with teaching and supervision of Bachelor’s and Master’s students.

work at the interface of machine learning and biology; collaborate closely with biologists from a variety of disciplines including immunology and cancer biology; present results at national and international scientific conferences; expand academic, professional and personal skills; use high-end compute infrastructure via the national ICT cooperative (SURF)

hold a MSc in Bioinformatics, Artificial Intelligence, Data Science, Biostatistics or a closely related discipline; have demonstrable experience with training machine and deep learning models, preferably using Python; have a basic understanding of biology and/or are interested in using computational methods to understand biology; are fluent in English, written and spoken.

• 232 holiday hours per year (based fulltime)
• multiple courses to follow from our Teaching and Learning Centre
• a complete educational program for PhD students
• a pension at ABP for which UvA pays two third part of the contribution
• the possibility to follow courses to learn Dutch
• help with housing for a studio or small apartment when you’re moving from abroad.

dr. ir. Stavros Makrodimitris, [e-mail] prof. Dr. Aalt-Jan van Dijk, [e-mail].

a detailed CV including the months (not just years) when referring to your education and work experience; a letter of motivation; the names and email addresses of two references who can provide letters of recommendation.