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Open position: Postdoc opportunities in the Henriksson lab

Hen lab 0489 210120 MPN 1

Picture: Johan Henriksson, MIMS group leader. Credit: Mattias Petterson. 

The Henriksson lab is seeking two postdoctoral scientists to work on Project 1) in CAR T cells and CRISPR screening methods development, or on Project 2) in machine learning for single-cell data analysis. You will be based in the lab of Johan Henriksson (www.henlab.org). The Henriksson lab is based at the Department of Molecular Biology and is part of The Laboratory of Molecular Infection Medicine Sweden (MIMS), which is the Swedish node within the Nordic EMBL Partnership for Molecular Medicine.

Applications are reviewed as they come in. 

Project 1

Project description and working tasks
CAR T cells are an emerging anticancer therapy that has shown great promise. However, much more remains to make them viable against solid tumors such as pancreatic cancer. By using CRISPR screens, we aim to further improve their genetic reprogramming to increase the resilience against the tumor microenvironment (TME).
Screening in primary cells is difficult and to overcome this, we are developing improved tools based on CRISPR and single-cell multiomics. The project is at the technological cutting edge and can springboard both into academic excellence as well as industrial R&D positions.
You will work in a team, taking the main responsibility either for improving transduction of CRISPR based constructs, or improving the NGS screening readouts, or setting up new assays (co-culture and hypoxic conditions). Being able to independently identify and solve problems is expected. You will present your findings, write manuscripts, help supervising students, and actively contribute to a collegial lab culture.

You will be based in the lab of Johan Henriksson (www.henlab.org). The Henriksson lab is based at the Department of Molecular Biology and is part of The Laboratory of Molecular Infection Medicine Sweden (MIMS). The project is run in close collaboration with several other research groups, national and international, covering all the aspects of pancreatic cancer, design of CARs, and genetic engineering.

Eligibility
A person who has been awarded a doctorate in a relevant subject area or a foreign qualification deemed to be the equivalent of a doctorate qualifies for employment as a postdoctoral fellow. This eligibility requirement must be met no later than the time at which the appointment decision is made.
You should be highly motivated and able to work productively in a team as well as independently. Excellent communication skills for interacting effectively with senior colleagues and peers are required. Proficiency in written and spoken English is also required. Great emphasis will be placed on personal suitability.
A successful candidate should be familiar with several of the following: Cell culture, immunology and routine immunology methods (FACS, cell isolation), lentivirus work, cloning, and NGS library preparation.

Additional useful qualifications
Since appointment as a postdoctoral researcher is a career-development position for junior researchers, we are primarily interested in applicants who completed their doctoral degree no more than three years before the application deadline. If there are special reasons, an applicant who has completed their degree earlier than that may be considered. Special reasons include absence due to illness, parental leave, clinical practice, appointments of trust for a trade union organization or other similar circumstances, and for relevant duties/assignments within the subject area.
Experience in basic data analysis using R or Python is a merit.
More information about the position
The appointment is a full-time, fixed-term position for two years in accordance with the terms of contract for fixed-term employment as a postdoctoral researcher. Access as soon as possible or by agreement.

Application
Please send an application to This email address is being protected from spambots. You need JavaScript enabled to view it. containing:
An introductory letter including a 2-page statement of research interests relative to the above topics and a motivation of why your expertise is appropriate for the position.
Curriculum vitae (CV) with publication list,
Date of your PhD defense,
If data analysis experienced claimed: Example code or a link to your Github account,
Contact information for at least two reference persons,
Other documents that the applicant wishes to claim.

We will ensure that the formal requirements are met and that we have sufficient information to adequately rank eligible candidates.
Further details are provided by the supervisor Johan Henriksson This email address is being protected from spambots. You need JavaScript enabled to view it..
We look forward to receiving your application.
We kindly decline offers of recruitment and advertising help.

More about us
The Henriksson lab is part of The Laboratory for Molecular Infection Medicine Sweden (MIMS), the Swedish Node of the Nordic EMBL Partnership for Molecular Medicine, and part of the Umeå Centre for Microbial Research (UCMR), an interdisciplinary research centre devoted to top quality research and novel applications in the field of microbiology. You can find more information about us at http://henlab.org/, www.mims.umu.se, www.ucmr.umu.se.
For more information about The Department of Molecular Biology please visit our web page www.umu.se/en/department-of-molecular-biology or for The department of Computing science, https://www.umu.se/en/department-of-computing-science/
Umeå University strives to offer an equal environment where open dialogue between people with different backgrounds and perspectives lay the foundation for learning, creativity and development. We welcome people with different backgrounds and experiences to apply.
Umeå University is one of Sweden’s largest institutions of higher education with over 35,000 students and 4,200 faculty and staff. We are characterized by world-leading research in several scientific fields and a multitude of educations ranked highly in international comparison. Umeå University is also the site of the pioneering discovery of the CRISPR-Cas9 genetic scissors - a revolution in genetic engineering that has been awarded the Nobel Prize in Chemistry.
At Umeå University, everything is nearby. Our cohesive campus environment makes it easy to meet, collaborate and exchange knowledge, which promotes a dynamic and open culture where we rejoice in each other's successes.
The Faculty of Medicine, which consists of 13 departments, is responsible for biomedical research and courses in the field of nursing and health care and has an extensive research and graduate education in more than 80 subjects.
The Department of Molecular Biology has about 200 employees. The department's main tasks involve research, graduate education, and undergraduate education as well as interactions with the community. Affiliated with both the Faculty of Science and Technology and the Faculty of Medicine, the department's research and education activity includes several molecular biological areas within science and medicine: cell biology, microbiology, infection biology, tumour biology and neurobiology in conjunction with the use of genetic model organisms (except plants). The department offers a vital research environment with a broad setup of modern imaging, metabolomics, genomics and screening facilities.

 

Project 2

Project description and working tasks
Gene isoforms play key roles in disease etiology and outcome. Despite that gene isoforms are involved in most biological processes, they are commonly ignored because we lack tools to understand them. In this project we will build new large-scale machine learning tools to extract gene isoform information from commonly existing single-cell RNA-seq data.
The approach we consider is based on variational autoencoders and sequence models. The challenges lie in the data being extremely large, sparse, and noisy. The project will open doors into the currently most rapidly expanding field in biology.
You will carry out formulation, implementation and testing of machine learning approaches to model and understand single-cell RNAseq data. You will present your findings, write manuscripts, help supervising students, and actively contribute to a collegial lab culture.
You will be based in the lab of Johan Henriksson (www.henlab.org) in collaboration with the machine learning group of Associate Professor Tommy Löfstedt. The Henriksson lab is based at the Department of Molecular Biology and is part of The Laboratory of Molecular Infection Medicine Sweden (MIMS). The project is run in close collaboration with Tommy Löfstedt, docent and associate professor and head of the machine learning group at the Department of Computing Science.

Eligibility
A person who has been awarded a doctorate in a relevant subject area or a foreign qualification deemed to be the equivalent of a doctorate qualifies for employment as a postdoctoral fellow. This eligibility requirement must be met no later than the time at which the appointment decision is made.
You should be highly motivated and able to work productively in a team as well as independently. Excellent communication skills for interacting effectively with senior colleagues and peers are required. Proficiency in written and spoken English is also required. Great emphasis will be placed on personal suitability.
A successful candidate should be familiar with Python and at least one framework for deep learning (e.g. PyTorch or TensorFlow/Keras). The candidate should have documented experience in machine learning or mathematical/statistical modeling.

Additional useful qualifications
Since appointment as a postdoctoral researcher is a career-development position for junior researchers, we are primarily interested in applicants who completed their doctoral degree no more than three years before the application deadline. If there are special reasons, an applicant who has completed their degree earlier than that may be considered. Special reasons include absence due to illness, parental leave, clinical practice, appointments of trust for a trade union organization or other similar circumstances, and for relevant duties/assignments within the subject area.
Experience in basic biology, and especially sequence analysis, or experience in single-cell analysis is a merit.
More information about the position
The appointment is a full-time, fixed-term position for two years in accordance with the terms of contract for fixed-term employment as a postdoctoral researcher. Access as soon as possible or by agreement.

Application
Please send an application to This email address is being protected from spambots. You need JavaScript enabled to view it. containing:
An introductory letter including a 2-page statement of research interests relative to the above topics and a motivation of why your expertise is appropriate for the position.
Curriculum vitae (CV) with publication list,
Date of your PhD defense,
Example code or a link to your Github account,
Contact information for at least two reference persons,
Other documents that the applicant wishes to claim.

We will ensure that the formal requirements are met and that we have sufficient information to adequately rank eligible candidates.
Further details are provided by the supervisors Johan Henriksson, This email address is being protected from spambots. You need JavaScript enabled to view it. and Tommy Löfstedt, This email address is being protected from spambots. You need JavaScript enabled to view it.
We look forward to receiving your application.
We kindly decline offers of recruitment and advertising help.

More about us
The Henriksson lab is part of the Laboratory for Molecular Infection Medicine Sweden (MIMS), the Swedish Node of the Nordic EMBL Partnership for Molecular Medicine, and part of the Umeå Centre for Microbial Research (UCMR), an interdisciplinary research centre devoted to top quality research and novel applications in the field of microbiology. You can find more information about us at http://henlab.org/, www.mims.umu.se, www.ucmr.umu.se.
For more information about The Department of Molecular Biology please visit our web page www.umu.se/en/department-of-molecular-biology or for The department of Computing science, https://www.umu.se/en/department-of-computing-science/
Umeå University strives to offer an equal environment where open dialogue between people with different backgrounds and perspectives lay the foundation for learning, creativity and development. We welcome people with different backgrounds and experiences to apply.
Umeå University is one of Sweden’s largest institutions of higher education with over 35,000 students and 4,200 faculty and staff. We are characterized by world-leading research in several scientific fields and a multitude of educations ranked highly in international comparison. Umeå University is also the site of the pioneering discovery of the CRISPR-Cas9 genetic scissors - a revolution in genetic engineering that has been awarded the Nobel Prize in Chemistry.
At Umeå University, everything is nearby. Our cohesive campus environment makes it easy to meet, collaborate and exchange knowledge, which promotes a dynamic and open culture where we rejoice in each other's successes.
The Faculty of Medicine, which consists of 13 departments, is responsible for biomedical research and courses in the field of nursing and health care and has an extensive research and graduate education in more than 80 subjects.
The Department of Molecular Biology has about 200 employees. The department's main tasks involve research, graduate education, and undergraduate education as well as interactions with the community. Affiliated with both the Faculty of Science and Technology and the Faculty of Medicine, the department's research and education activity includes several molecular biological areas within science and medicine: cell biology, microbiology, infection biology, tumour biology and neurobiology in conjunction with the use of genetic model organisms (except plants). The department offers a vital research environment with a broad setup of modern imaging, metabolomics, genomics and screening facilities.

Emmanuelle Charpentier took the Nobel Prize in Chemistry

Emmanuelle has been awarded jointly with Jennifer Doudna the 2020 Nobel Prize in Chemistry for discovering the groundbreaking CRISPR-Cas9 gene editing technology. She is a former group leader at MIMS, honorary doctor at Umeå University and former visiting professor at UCMR.

Movie by Knut and Alice Wallenberg Foundation (https://kaw.wallenberg.org/)

MIMS is characterized by
ECharpentier about MIMS 2015 1

Emmanuelle Charpentier, Alumna at MIMS, Director of the Max Planck Unit for the Science of Pathogens, Berlin, Germany.

Link to the Emmanuelle Charpentier Lab

Battling antibiotic resistance

movie by Knut and Alice Wallenberg Foundation, with participation of scientists from MIMS and UCMR:
Or watch the original movie on:
https://kaw.wallenberg.org/

Research about infectious diseases:

Oliver Billker in movie of Knut and Alice Wallenberg Foundation:
Or watch the original movie on:
https://kaw.wallenberg.org/

Emmanuelle Charpentier
about her research at MIMS

footer all slides 2014-02-06


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