Senior microscopy expert

The (Bio-)Imaging Facility of the IST Austria provides state-of the art fluorescence microscopy services, FACS services, as well as custom image analysis and optical development services. We are enlarging our team and are searching for a full time (senior) microscopy expert (f/m).
Are you interested in how your future working place may look like? This video* provides a bird’s eye view of IST Austria.

Responsibilities

• Support and development of advanced quantitative microscopy-based measurement methods (FLIM, FRAP, TIRF, laser ablation, multiphoton -and atomic force microscopy)
• Support of basic facility operation: routine care of the microscopy equipment and basic training of the users of the (bio-)imaging facility
• Operation and support of Fluorescence Assisted Cell Sorting (FACS)
• Expert advice to users
• Optionally, support of image analysis projects
• Optionally, participation in the research projects initiated by research groups

Requirements

• PhD or relevant education and research experience involving microscopy
• Proven experience with at least some of imaging approaches: confocal, multiphoton, spinning disc, light sheet, TIRF microscopy is required – AFM, FACS, and/or FLIM/FRET experience will be advantageous
• Good communication skills in English is mandatory
• Organizational and project management skills are advantageous
• Work experience in a core facility and/or academic environment is advantageous

Please find all information about the vacant postion here:
http://ist.ac.at/fileadmin/user_upload/pdfs/Recruiting_documents/2018_01_Job_Ad_MicroscopyExpert_Englisch.pdf

Additional information:
information about IST Austria: https://ist.ac.at/
Scientific service units @ IST Austria: http://ist.ac.at/ssus
The BioImaging Facility @ IST Austria: http://ist.ac.at/ssus/list-of- facilities/bioimaging- facility/

Application:
To apply for this position send your application until March 1st, 2018 in one combined pdf (including CV, certificates and references) by e-mail to: gabriele.buchner-kranzl@ist.ac.at

* In case the ink to the video does not work: https://www.youtube.com/watch? v=nVsWLgkx9uE

Bioinformatician with focus on research support in image analysis

KTH Royal Institute of Technology, School of Computer Science and Communication

KTH Royal Institute of Technology in Stockholm has grown to become one of Europe’s leading technical and engineering universities, as well as a key centre of intellectual talent and innovation. We are Sweden’s largest technical research and learning institution and home to students, researchers and faculty from around the world. Our research and education covers a wide area including natural sciences and all branches of engineering, as well as in architecture, industrial management, urban planning, history and philosophy.

Department information

The position will be formally placed with the department for Computational Science and Technology (CST) at KTH, but work will be carried out at the Science for Life Laboratory. The CST department conducts research to understand and model physical and biological systems using computational techniques, which require efficient, high performance algorithms and implementations together with advanced visual analysis capabilities. For more information go to https://www.kth.se/en/csc/forskning/cst. The Science for Life Laboratory (SciLifeLab) is a collaboration between four universities in Stockholm and Uppsala: Karolinska Institutet, KTH, Stockholm University and Uppsala University. It combines advanced technology with broad knowledge in translational medicine and molecular life sciences. Since 2013, SciLifeLab has a mission from the Swedish government to run infrastructure to support researchers nationally and to be an internationally leading center for large-scale analyses in molecular life sciences targeting research in health and environment. For more information, visit https://www.scilifelab.se/.

Job description

We are looking for a PhD with a keen interest in implementation and adaption of image analysis algorithms for quantitative analysis of microscopy data to join the SciLifeLab BIIF (https://www.scilifelab.se/facilities/bioimage-informatics/). You will work in short and long-term projects, providing research support and education in image analysis. The BIIF has nodes in both Uppsala and Stockholm, but the assignment includes services to researchers at other universities in Sweden as well. The job includes involvement and organization of courses and workshops in digital image processing and analysis with life science applications. Supervision of master thesis students is part of the assignment. 20% time will be spent supporting projects at the LCI facility in Huddinge.

Qualifications

A PhD in computer vision/image processing (or equivalent), or a PhD in bio-medicine/biology (or equivalent), combined with documented experience of computer programming and development of digital image analysis solutions is required. In addition, the following qualifications are considered highly desireable:

• Experience with analysis software such as Imaris, ImageJ/Fiji, CellProfiler, NIS and Amira
• Experience with algorithm development and development of analysis pipelines aiming to quantify and classify biological parameters extracted from microscopy data of e.g. cells and microorganisms in cultures and tissue samples
• Experience in medical image analysis
• Experience with teaching and student supervision
• Proficiency with a scientific programming language (Python, R, or Matlab)
• Excellent English communication skills, both spoken and written, as well as excellent interpersonal skills Other meriting experiences and skills
• Postdoctoral experience in image analysis, within or outside academia, especially focused on methods development

Familiarity with deep learning frameworks like Keras, TensforFlow, or PyTorch

Trade union representatives

You will find contact information to trade union representatives at KTH:s webbpage.

Application

Log into KTH’s recruitment system in order to apply to this position. You are the main responsible to ensure that your application is complete according to the ad. Your complete application must be received at KTH no later than the last day of application.

Applications shall include the following documents:
1. Statement of interest including a brief description of experience in bioimage analysis 2. Curriculum vitae
3. Reference contact information
4. Representative publications (or other example of scientific writing)

Please observe that all material needs to be in English.

Others

We firmly decline all contact with staffing and recruitment agencies and job ad salespersons.
Type of employment: Temporary position longer than 6 months
Contract type: Full time
First day of employment: According to agreement
Salary: Monthly salary
Number of positions: 1
Working hours: 100%
City: Stockholm
County: Stockholms län
Country: Sweden
Reference number: D-2017-0987

Contact
Kevin Smith / Assistant Professor, ksmith@kth.se
Maria Engman / HR-administratör, maengm@kth.se

Published  18.Jan.2018
Last application date:  28.Feb.2018 11:59 PM CET

BioImage Analyst

The Friedrich Miescher Institute for Biomedical Research (FMI) is an international biomedical research center with approximately 350 members. It is affiliated with the University of Basel and supported by the Novartis Research Foundation. We exploit a wide range of technologies to explore molecular mechanisms underlying biomedical processes in health and disease. Supporting the FMI scientists in their research are a number of outstanding technology platforms, including the Facility for Advanced Imaging and Microscopy (FAIM), which has a full-time position available immediately for an experienced and self-motivated BioImage Analyst.

IN THIS POSITION YOU WILL

• program cutting-edge image processing plugins and scripts (Matlab, Python and ImageJ) to help FMI researchers to answer their biological questions.
• collaborate with our Machine-/Deep-Learning specialist and Big Data systems administrator, as well as with other in-house programmers to setup workflows for big data processing.
• teach and help users with image processing using solutions developed in house as well as commercial packages (Imaris, Arivis, Huygens, ImageJ, Neurolucida, Amira) on a day-to-day basis.
• report to the facility managers.

 FOR THIS CHALLENGING POSITION YOU POSSESS

• a Ph.D. or equivalent experience in biology or computer/engineering sciences, with several years of experience in image processing of fluorescence and electron microscopy images in biology.
• very good knowledge of different image processing software, image-processing methods and programming languages (Matlab is mandatory; Python is a “plus”).
• excellent communication and teaching skills, the desire to work as a team member, and fluency in English.

Have we raised your interest? If you would like to join a dynamic research institute, we look forward to receiving your application. Please submit your application and documents including three names for references by January 31, 2018 at

www.fmi.ch/opening.

For informal inquiries, please contact
laurent.gelman@fmi.ch or christel.genoud@fmi.ch.

Friedrich Miescher Institute for Biomedical Research
Basel, Switzerland
www.fmi.ch

Postdoc in deep learning for medical image analysis

KTH Royal Institute of Technology, School of Computer Science and Communication, Stockholm, Sweden

KTH Royal Institute of Technology in Stockholm has grown to become one of Europe’s leading technical and engineering universities, as well as a key centre of intellectual talent and innovation. We are Sweden’s largest technical research and learning institution and home to students, researchers and faculty from around the world. Our research and education covers a wide area including natural sciences and all branches of engineering, as well as in architecture, industrial management, urban planning, history and philosophy.

Full-time logistician in image analysis and quantification (core facility staff)

GIGA – Imaging Platform (Liège, Belgium)

Full time 3 years fixed-term contract (with possibility of extension).
Starting date: as soon as possible.
This expert/logistician should collaborate closely with biomedical researchers, in collaboration with the GIGA Cell Imaging platform, for experimental planning: optimize their sample preparation procedures and their image acquisition protocols in order to minimize acquisition bias and artefacts and ease reproducible morphometric quantification;

• Maximize the use of existing image quantification softwares (including FIJI, Imaris, Cytomine, Image J, CellProfiler, …) by coordinating software installation, configuration and maintenance;
• Maximize the use of high-performance computing and mass storage equipment by developing software communication and user interfaces between imaging instruments (incl. whole-slide scanner, confocal microscopes, high content screening imaging system, lightsheet and epifluorescence microscopes managed by the Cell Imaging GIGA platform), computing infrastructure (grid computing and mass storage), and end-users (biomedical researchers and computer scientists developing algorithms);
• Implement image format conversion tools to ease image storage and sharing;
• Implement additional quantification software modules to answer specific biomedical questions;
• Implement research results (new algorithms) into usable and efficient software modules;
• Write protocols and documentation for end-users to describe quantification workflows, pipelines, platforms.
• Organize training sessions on basic image analysis principles and softwares. Organize workshops on advanced topics to foster sharing of knowledge between biomedical experts and computer scientists.
• Offer daily imaging data analysis consultation and services for users of the Cell imaging GIGA platform.
• Act as an interface between biomedical researchers and computer scientist researchers.
• Contribute to the submission of national/international research projects that involve biomedical image quantification.

The logistician should:

• Have a Master or PhD degree in Computer Engineering, Computer Science, Bioinformatics, Science or Applied Physics/Mathematics.
• Have experience in image analysis/computer vision and/or machine learning/pattern recognition;
• Have experience in software development and/or data management;
• Have experience or strong interest in biomedical cell imaging and data management;
• Experience with epifluorescence, confocal or lightsheet microscopes is a asset.
• Be creative, pragmatic, autonomous, and user and result oriented;
• Have excellent interpersonal and collaborative skills to collaborate both with biomedical researchers and computer scientist researchers;
• English is mandatory, French is an asset.

The logistician will act as an interface between all groups. The logistician will have direct access and contact to the GIGA Cell Imaging Platform (Dr. Sandra Ormenese) and the GIGA Immunohistochemistry platform (Dr. Chantal Humblet).

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The laboratory belongs to the GIGA Research Institute (Grappe Interdisciplinaire de Génoprotéomique Appliquée, http://www.giga.ulg.ac.be/, about 600 researchers). The GIGA is a unique research center offering up-to-date and centralized technological platforms (Cell imaging and immunohistochemistry core facilities, animal facilities (Mouse and Zebrafish), transgenics, genomics and proteomics platforms, see http://www.giga.ulg.ac.be/cms/c_5594/fr/plateformes

For further information regarding the equipment available in the GIGA- Imaging platform, please check http://www.giga.ulg.ac.be/cms/c_18283/fr/imaging-accueil- services

An intravital multiphoton microscope will be also available in the GIGA Institute from September 2017.

The GIGA/ULg computing infrastructure is composed of a grid computing environment (~500 computing nodes/3500 cores) and a mass storage facility (~1000TB).

Successful candidate will be offered a full time 3 years fixed-term contract (with possibility of extension). Starting date: as soon as possible. If this opportunity is matching your profile and you are looking for a new challenge, please do not hesitate to forward your CV with a cover note detailing your experience to: Sandra Ormenese (Sandra.Ormenese@ulg.ac.be) and Sandrina Evrard (rh.giga@ulg.ac.be), with the subject heading « GIGA Imaging Platform / Bioinformatician ».

Post-doctoral researcher at FIMM High-Content Imaging and Analysis unit

More information at: https://www.helsinki.fi/en/open-positions/post-doctoral-researcher-fimm