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Tenure-track assistant professor in Tissue Assembly, Physiology, and Engineering

The Biozentrum of the University of Basel in Switzerland invites applications for a tenure-track assistant professorship in Tissue Assembly, Physiology, and Engineering. This position will be supported by the Biozentrum (https://www.biozentrum.unibas.ch/) and the National Center of Competence in Research (NCCR) "AntiResist: New Approaches to Combat Antibiotic-Resistant Bacteria" (2020-2032; https://nccr-antiresist.ch/). The Biozentrum is one of the leading Life Sciences Institutes in the world. It investigates how molecules and cells create life, spanning the scale from atom to organism. The NCCR "AntiResist", whose home institution is the University of Basel, is a Swiss-wide interdisciplinary center for infection biology and antibiotic research.

We seek an imaginative and creative early career scientist who will bring his/her expertise in tissue assembly, physiology, and engineering to important problems in biology and medicine.

Your position

The new professor will complement and enhance the research portfolio of the Biozentrum and the NCCR "AntiResist", as well as the broader Basel Life Sciences Community, and will contribute to teaching at the undergraduate and graduate level.

Your profile

Applicants should have an outstanding track record of research accomplishments. We are interested in candidates with expertise in areas such as tissue development, organization, physiology, or engineering, stem cell biology, organogenesis or organoids. The candidate should have an interest in developing tissue models for human infections, and collaborate with basic and applied researchers to explore fundamental questions in biology and medicine.

We offer

We offer a very generous research endowment, including support for students, postdocs, technicians and consumables, and state-of-the-art core facilities. The Biozentrum accommodates 30 research groups and 250 postdoctoral fellows and graduate students from more than 50 countries researching in fields ranging from structural, computational, cellular and developmental biology to microbiology and neuroscience. The NCCR "AntiResist" comprises a network of academic institutions and collaborating companies in Basel, Zurich and Lausanne consisting of 29 research groups spanning five major disciplines: clinical medicine, engineering, biology, chemistry, and computational biology. The research environment of the Biozentrum and the NCCR "AntiResist" is a stimulating and vibrant environment offering unique opportunities for a wide range of collaborations across disciplines and with other departments. Basel is the home of a vibrant international life sciences community and provides a high standard of living and a superb cultural and cosmopolitan atmosphere.

Application/Contact

Applications (including CV, a list of publications, a letter of motivation, and a two-page summary of past, present and future research) should be addressed to Prof. Dr. Marcel Mayor, Dean of the Faculty of Science and submitted online as one single PDF via this platform. During online submission, applicants are asked to request three referees to submit confidential letters of reference. Requests for further information may be addressed to Alex Schier (alex.schier@unibas.ch) regarding the Biozentrum of University of Basel and Christoph Dehio (christoph.dehio@unibas.ch) regarding NCCR "AntiResist". If your question is about the online application process, please contact the Office of the Dean (dekanat-philnat@unibas.ch).

The deadline for receipt of applications is September 20, 2021. The University of Basel is an equal opportunity and family-friendly employer committed to excellence through diversity. We are keenly interested in diversifying our faculty and encourage applications from female candidates.

Apply now

Technical Associate FACS Core Facility (60%)

Starting immediately or as per agreement

The Biozentrum of the University of Basel is one of the leading life sciences institutes in the world. It consists of 32 groups and 500 employees that research how molecules and cells create life, spanning the scale from atom to organism. Founded in 1971, the Biozentrum has been the birthplace of many fundamental discoveries in biology and medicine, spawning several Nobel Laureates.

The FACS Core Facility (FCF) provides efficient and high quality flow cytometry services to all Biozentrum researchers and is supporting them in a broad range of basic research projects.

Your position

In this role you will support researchers in smooth and reliable cell sorting and cell analysis. You will operate and maintain flow cytometers and ensure instrument data is accurately acquired and managed. This will involve maintenance including QC and operation of machinery, training and consulting of facility users.

Your responsibilities will include:
  • Operation and maintenance of the high-speed cell sorters (BD FACSAriaFusion, BD FACSAriaIII, BD FACSMelody)
  • Instruction and supervision of users operating flow analyzers (BD LSRFortessa, BD FACS CantoII)
  • Responsibility for quality control, maintenance and troubleshooting of the instruments
  • Providing advice in experimental design, data analysis and interpretation of results

Your profile

We are looking to recruit a highly motivated person with a Bachelor or Master degree in Cell Biology, Molecular Biology or Immunology or equivalent experience. Previous experience with flow cytometry, cell sorting and/or flow cytometry data analysis is desirable. Excellent interpersonal and strong verbal and written communication skills in English are essential. It is required that the candidate has an independent work style but also enjoys working in a collaborative team environment.

We offer

The Biozentrum offers a cutting-edge research infrastructure, a highly international environment that provides numerous opportunities to learn more, and excellent working conditions. The University of Basel stands for excellence and is committed to diversity, equal opportunities and family friendliness. Female applicants are explicitly encouraged to apply.

The position is initially for 2 years with the possibility of further extension. Salary and benefits according to University of Basel standards.

Basel is an international city with people from 150 nations. Located on the border where three countries meet - Switzerland-Germany- France -, it is Europe’s most important life sciences hub. Basel provides a high standard of living and a rich and varied cultural atmosphere.

Application / Contact

Please apply online with a full, up-to-date CV, letter of motivation, diplomas, reference letters, and the name/address of two references. Please note that only online applications will be accepted.

Reviewing of applications will start on 15 June 2021 and continue until the position is filled.

For any informal enquiries, please contact Janine Bögli, Head of the FACS Core Facility (janine.boegli@unibas.ch).
Apply now

SNF-funded PhD position available on the stochastic control of toxin/antitoxin module in the human pathogen Pseudomonas aeruginosa

The Biozentrum of the University of Basel is one of the leading life sciences institutes in the world. It consists of 30 groups and 500 employees that research how molecules and cells create life, spanning the scale from atom to organism. Founded in 1971, the Biozentrum has been the birthplace of many fundamental discoveries in biology and medicine, spawning several Nobel Laureates.

An SNF-funded PhD position is available in the laboratory of Prof. Urs Jenal at the Biozentrum, University of Basel, Switzerland. The mission of the lab is to understand mechanistic principles responsible for virulence and persistence of important human pathogens. Towards these goals, we use a range of cutting-edge techniques including genetic engineering, CRISPRi screens, proteomics, metabolomics, biochemistry and structure-based approaches, microfluidics, tissue engineering, and live cell imaging. The project involves developing and using microfluidic devices, single cell tracking and quantitative image analysis to delineate the stochastic properties of a toxin/antitoxin module and its role in antibiotic tolerance of the human pathogen Pseudomonas aeruginosa. For more information, see: https://www.biozentrum.unibas.ch/jenal

Your profile

We are looking for a highly motivated, rigorous and creative scientist who wants to use quantitative means to address fundamental questions of stochastic control in microbes and how this relates to bacterial physiology and antibiotic resistance. The ideal candidate has a Master’s degree in nanoscience, physics, or in quantitative aspects of microbiology. Applicants with a background in physics, engineering, and/or computer science, and a strong interest in microbiology and infection biology are strongly encouraged to apply. The ability to work both independently and as part of a team is expected, along with good written and oral communication skills in English.

We offer

The position is funded by a grant of the Swiss National Science Foundation (SNSF) and offers the opportunity to join a multidisciplinary research group including microbiologists and cell biologist with strong expertise in studying molecular aspects of important human pathogens. We provide excellent internal support from various core facilities with expert staff, as well as a strong multi-disciplinary and highly collaborative environment within the Biozentrum and in frame of the NCCR AntiResist (www.nccr-antiresist.ch/en/).

Basel is an international city with people from 150 nations. Located on the border between Switzerland, Germany and France, it is Europe’s most important Life Science hub. Basel provides a high standard of living and a rich and diverse cultural atmosphere. We embrace diversity and equal opportunity in a serious way. We are committed to building a team that represents a variety of backgrounds, perspectives, and skills. The more inclusive we are, the better our work will be.

Application

Please apply online by uploading the following separate PDF documents: 1) Your CV with contact details of two references; 2) A short summary of your past research projects carried out during your studies (diploma thesis, honours project, MSc thesis, etc.). State the rationale and goals of the research, and indicate your own contributions to the results. List publications, if any; 3) A short description of your general scientific interests. What are the scientific questions that you are most passionate about? What brought you to science? 4) Copies of your certificate(s) and diploma(s).

Reviewing of applications will start immediately and continue until the position is filled. The position is available immediately but the starting date can be negotiated.

For any informal enquiries, please contact Claudia Erbel (claudia.erbel@unibas.ch).

Apply now

Postdoctoral Researcher – Establishing 3D microtissue models for studying urogenital bacterial infections (100%)

The Biozentrum of the University of Basel is one of the leading Life Sciences Institutes in the world. It accommodates 30 research groups and 500 employees investigating how molecules and cells create life, spanning the scale from atom to organism. Founded in 1971, the Biozentrum has been the birthplace of many fundamental discoveries in biology and medicine, spawning several Nobel Laureates.

A postdoctoral position is available in the group of Prof. Christoph Dehio (www.biozentrum.unibas.ch/dehio).

This position is supported by the NCCR AntiResist: New Approaches to Combat Antibiotic-Resistant bacteria. NCCR AntiResist (https://nccr-antiresist.ch/) is a Swiss-wide interdisciplinary center for antibiotic research with strong collaborations between biologists, clinicians, engineers, computational scientists and chemists. The goals of NCCR AntiResist are to elucidate pathogen physiology in infected patients, followed by the development of in-vitro models that faithfully mimic conditions in the patient, and to use these laboratory models to discover innovative strategies to combat antibiotic-resistant bacteria. In this position, the candidate will focus on establishing 3D microtissue models for studying urogenital bacterial infections. This research project is embedded within the work package Escherichia coli of NCCR AntiResist (www.nccr-antiresist.ch/en/research/work-packages-overview/escherichia-coli)

Your responsibilities are

  • to develop microtissue models of the human urogenital tract (e.g., bladder and kidney)
  • to utilize these microtissue models for studying infection with uropathogenic bacteria, and to visualize and quantify changes in bacterial physiology at single-cell level upon treatment with antibiotics
  • to analyze data using appropriate statistical methods
  • to present data in a professional format suitable for publication
  • to act as an experienced resource, and demonstrate clear and professional verbal and written communication skills

Your profile

You obtained a PhD in one of the following disciplines: microbiology, cellular/molecular biology, biophysics, or image analysis. You have a profound expertise in 3D microtissue or other microphysiological models of diseases, host-pathogen interaction or the development and use of single-cell analysis methods based on microfluidics, live-cell imaging and image analysis. Experience with advanced imaging techniques, single-cell reporters, machine learning-based image analysis or microfluidics would be of great advantage. Good teamworking skills are indispensable.

We offer

A highly motivated team as part of a multidisciplinary group at the Biozentrum including microbiologists and cell biologists with an expertise in virulence and persistence of Escherichia coli and other human pathogens. Moreover, the Biozentrum offers excellent internal support from various core facilities with expert staff as well as a very strong multidisciplinary collaborative environment within the frame of the NCCR AntiResist.

The position is available immediately and the prospective funding period is for at least three years.

Basel is an international city with people from 150 nations. Located on the border between Switzerland, Germany and France, it is Europe’s most important Life Science hub. Basel provides a high standard of living and a rich and varied cultural atmosphere. NCCR AntiResist embraces diversity and equal opportunity. We are committed to building a team that represents a variety of backgrounds, perspectives, and skills. The more inclusive we are, the better our work will be.

Application / Contact

Please apply online and upload the following three separate PDF documents: 1) Your CV with contacts for three references 2) Motivation letter explaining why you are a good candidate for this job offer 3) List of all your publications (including pre-prints). For up to three publications most relevant to this job offer describe shortly (up to 200 words) your role as well as why the publication is relevant (for example: what techniques you learned, what experience you gained, etc.).

Incomplete applications will be disregarded. Reviewing of applications will begin on April 1, 2021 and continue until the position is filled. For general inquiries, please send an e-mail to dehiostelle@unibas.ch.

Apply now

PhD position (no. 3) in biological microED and single molecule electron diffraction

Starting on 1 September or as per agreement

The Biozentrum of the University of Basel is one of the leading life sciences institutes in the world. It consists of 30 groups and 500 employees that research how molecules and cells create life, spanning the scale from atom to organism. Founded in 1971, the Biozentrum has been the birthplace of many fundamental discoveries in biology and medicine, spawning several Nobel Laureates.

A PhD position funded by the Swiss National Science Foundation is available from September 2021 onwards in the group of Prof Jan Pieter Abrahams at the Biozentrum of the University of Basel.

Cryo-electron microscopy can reveal the atomic structures of biological molecules by focusing the electrons that are scattered by the sample into an image. These electron images have low contrast and are very noisy, because electron beam damages the sample.

The Abrahams group has generated strong evidence that the signal-to-noise ratio of the electron image can be boosted significantly by measuring the scattered electrons directly. This resulted in the development of protein nano-crystallography (micro-ED) and we are extending the method to include non-crystalline samples and single molecule electron diffraction (simED). Novel, dedicated hardware will allow us to develop methods for automatically generating vast amounts of electron diffraction data short periods of time. We aim to develop novel tools based on Artificial Intelligence and Big Data technologies for interpreting these data. An important biological focus of our group is on molecular machines for protein degradation. (I. Mohammed, K. A. Schmitz, N. Schenck, T. Maier, J. P. Abrahams, Catalytic cycling of human mitochondrial Lon protease. Sci. Adv. 7, eabf0156 (2021). Part of the work will be performed at, and will be supported by the Paul Scherrer Institute (https://www.psi.ch/en).


Your project

Optimal data acquisition for protein simED. A dedicated single molecule diffraction instrument, based on a JEOL F200 with post-column energy filter and hybrid pixel detectors will be commissioned at the PSI (summer 2021), with a data collection capacity of 20 Gbyte/s. Optimizing beam – and scanning parameters, in close collaboration with a PhD student working on optimal data acquisition for microED, is part of your project. Data will be generated by scanning a narrow, parallel electron beam across a sample at liquid N2 temperature of biological macromolecular complexes suspended in a vitrified aqueous buffer. The thickness of the vitreous layer will be in the order of 100 nm and preferably less. The biomolecular complexes can range between 10 nm and 100 nm in diameter. We will pilot data collection with thin hydrated, vitrified protein samples containing nanocrystals (e.g. catalase) or TMV, a 300 nm long, 20 nm diameter cylindrical plant virus with helical symmetry.


Your profile

We are looking for a talented PhD student with the following research profiles:
  • -Background in either structural biology, crystallography, and/or electron microscopy
  • -A keen interest in developing break-through technologies

The project is highly synergistic, and you will work collaboratively as an enthusiastic team towards achieving the common goals. You will have prime responsibility for one particular project, while providing strong support for the other projects.


We offer

We offer an exciting and stimulating work environment with scientific collaborations within the institute and worldwide.

Basel is an international city with people from 150 nations. Located on the border where three countries meet - Switzerland-Germany- France -, it is Europe’s most important life sciences hub. Basel provides a high standard of living and a rich and varied cultural atmosphere.

Application / Contact

Please apply online with a cover letter, CV, reference letters, diplomas and contact information of two referees: Please note that only online applications will be accepted:

For any informal enquiries, please contact: jp.abrahams@unibas.ch
Apply now

PhD position (No. 4) in biological microED and single molecule electron diffraction

Starting on 1 September or as per agreement

The Biozentrum of the University of Basel is one of the leading life sciences institutes in the world. It consists of 30 groups and 500 employees that research how molecules and cells create life, spanning the scale from atom to organism. Founded in 1971, the Biozentrum has been the birthplace of many fundamental discoveries in biology and medicine, spawning several Nobel Laureates.

A PhD position funded by the Swiss National Science Foundation is available from September 2021 onwards in the group of Prof Jan Pieter Abrahams at the Biozentrum of the University of Basel.

Cryo-electron microscopy can reveal the atomic structures of biological molecules by focusing the electrons that are scattered by the sample into an image. These electron images have low contrast and are very noisy, because electron beam damages the sample.

The Abrahams group has generated strong evidence that the signal-to-noise ratio of the electron image can be boosted significantly by measuring the scattered electrons directly. This resulted in the development of protein nano-crystallography (micro-ED) and we are extending the method to include non-crystalline samples and single molecule electron diffraction (simED). Novel, dedicated hardware will allow us to develop methods for automatically generating vast amounts of electron diffraction data short periods of time. We aim to develop novel tools based on Artificial Intelligence and Big Data technologies for interpreting these data. An important biological focus of our group is on molecular machines for protein degradation. (I. Mohammed, K. A. Schmitz, N. Schenck, T. Maier, J. P. Abrahams, Catalytic cycling of human mitochondrial Lon protease. Sci. Adv. 7, eabf0156 (2021). Part of the work will be performed at, and will be supported by the Paul Scherrer Institute (https://www.psi.ch/en).


Your project

Phasing protein simED data. Your project is part of an overall project of our group to establish novel technologies and methods for biomolecular structure determination. This project has several sub-goals: (i) identifying diffraction patterns that likely correspond with single molecules, (ii) low-resolution phasing, for instance by molecular replacement methods or (in collaboration with another project) imaging and/or ptychography, (iii) phase extension through model building and refinement. This project is anticipated to lean heavily on novel concepts for pattern recognition, using Artifical Intelligence / neural network analysis of big data sets.


Your profile

We are looking for a talented PhD student with the following research profiles:
  • Background in either structural biology, crystallography, software development / big data analysis.
  • -A keen interest in developing break-through technologies

The project is highly synergistic, and you will work collaboratively as an enthusiastic team towards achieving the common goals. You will have prime responsibility for one particular project, while providing strong support for the other projects.


We offer

We offer an exciting and stimulating work environment with scientific collaborations within the institute and worldwide.

Basel is an international city with people from 150 nations. Located on the border where three countries meet - Switzerland-Germany- France -, it is Europe’s most important life sciences hub. Basel provides a high standard of living and a rich and varied cultural atmosphere.

Application / Contact

Please apply online with a cover letter, CV, reference letters, diplomas and contact information of two referees: Please note that only online applications will be accepted:

For any informal enquiries, please contact: jp.abrahams@unibas.ch
Apply now

Postdoc position in biological microED and single molecule electron diffraction

Starting on 1 September or as per agreement

The Biozentrum of the University of Basel is one of the leading life sciences institutes in the world. It consists of 30 groups and 500 employees that research how molecules and cells create life, spanning the scale from atom to organism. Founded in 1971, the Biozentrum has been the birthplace of many fundamental discoveries in biology and medicine, spawning several Nobel Laureates.

A postdoc position funded by the Swiss National Science Foundation is available from September 2021 onwards in the group of Prof Jan Pieter Abrahams at the Biozentrum of the University of Basel.

Cryo-electron microscopy can reveal the atomic structures of biological molecules by focusing the electrons that are scattered by the sample into an image. These electron images have low contrast and are very noisy, because electron beam damages the sample.

The Abrahams group has generated strong evidence that the signal-to-noise ratio of the electron image can be boosted significantly by measuring the scattered electrons directly. This resulted in the development of protein nano-crystallography (micro-ED) and we are extending the method to include non-crystalline samples and single molecule electron diffraction (simED). Novel, dedicated hardware will allow us to develop methods for automatically generating vast amounts of electron diffraction data short periods of time. We aim to develop novel tools based on Artificial Intelligence and Big Data technologies for interpreting these data. An important biological focus of our group is on molecular machines for protein degradation. (I. Mohammed, K. A. Schmitz, N. Schenck, T. Maier, J. P. Abrahams, Catalytic cycling of human mitochondrial Lon protease. Sci. Adv. 7, eabf0156 (2021). Part of the work will be performed at, and will be supported by the Paul Scherrer Institute (https://www.psi.ch/en).


Your project

Validating simED and comparing to cryo-electron ptychography. Your project is part of an overall project of our group to establish novel technologies and methods for biomolecular structure determination. For validation, we will initially use well characterized samples of which high resolution structures are available. These may include 3D crystals, helical structures (e.g. TMV, bacterial flagella of samples we analyzed by imaging), single macromolecular complexes (ribosomes, LonP1 samples). For these samples, we already know the whole structure or at least substantial parts of the structure in near-atomic resolution. Especially for the LonP1 samples, we will investigate if we can distinguish additional conformations to enhance the resolution. It will be augmented with density modification to get a clearer view of the parts for which no atomic model is available. The postdoc is also expected to help coordinating the overall project goals and instruct and assist the PhD students in cryo-EM data collection.


Your profile

We are looking for an expert in biological EM, preferably with in-depth knowledge of single cryo-EM data collection methods and data analysis. The project is highly synergistic, and you will work collaboratively as an enthusiastic team towards achieving the common goals. You will have prime responsibility for one particular project, while providing strong support for the other projects.


We offer

We offer an exciting and stimulating work environment with scientific collaborations within the institute and worldwide. This position is funded by the Swiss National Science Foundation (SNF). The salary complies with the guidelines of the SNF. The initial contract is limited to one year, with the possibility to extend it up to 4 years.

Basel is an international city with people from 150 nations. Located on the border where three countries meet - Switzerland-Germany- France -, it is Europe’s most important life sciences hub. Basel provides a high standard of living and a rich and varied cultural atmosphere.

Application / Contact

Please apply online with a cover letter, CV, reference letters, diplomas and contact information of two referees: Please note that only online applications will be accepted:

For any informal enquiries, please contact: jp.abrahams@unibas.ch
Apply now