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Assistant Professor Job – Bioinformatics and Metagenomics, UCPH, Denmark, Jan 2022

Denmark, University of Copenhagen (UCPH)

The University of Copenhagen invites applications for an Assistant Professor position will be in the Human Proteome Variation group at The Novo Nordisk Foundation Center for Protein Research, Denmark – Jan 2022

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General Info

Position: Assistant Professor
No. of Positions: 1
Research Field: , , ,
Deadline to Apply: Expired
Joining Date: ASAP
Contract Period: 4 Years
Salary: 36,800 DKK/Month

Workplace:
The Human Proteome Variation group
The Novo Nordisk Foundation Center for Protein Research
University of Copenhagen (UCPH)

Copenhagen K, ,

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Qualification Details

Six overall criteria apply for Assistant Professor appointments at the University of Copenhagen. The six criteria (research, teaching, societal impact, organisational contribution, external funding, and leadership) are considered a framework for the overall assessment of candidates. Find information about each criterion here: https://employment.ku.dk/faculty/criteria-for-recognising-merit.

Furthermore, we are looking for a highly motivated and enthusiastic scientist with the following skills and experience:

Essential experience and skills:

  • You have a PhD in Bioinformatics and/or Metagenomics
  • You are highly experienced in developing and applying machine learning tools on biological data
  • You have an active interest in metagenomics and microbiome research
  • You have pre- and postgraduate teaching experience within bioinformatics topics such as bioinformatics of microbial communities, DNA- or RNA sequence analysis, or next-generation sequencing data.
  • Proficient communication skills and ability to work in teams
  • Excellent English skills written and spoken

Desirable experience and skills:

  • Experience in computational biology and using and developing R/Python programs for data analysis
  • Experience using machine learning to solve biological problems
  • Experience in analysis of shotgun metagenomics data

Responsibilities/Job Description

We are looking for a highly motivated and dynamic Assistant Professor for a 4-year position to commence on the 1st of April 2022 or soon hereafter. The position will be in the Human Proteome Variation group at The Novo Nordisk Foundation Center for Protein Research (CPR – www.cpr.ku.dk). CPR comprises a wide range of expertise and resources including proteomics, protein production, general characterization of disease mechanisms, and bioinformatics. The Programme for Disease Systems Biology (DSB) consists of three research groups covering many systems level aspects of biology and medicine, including large scale analysis of human variation data and integration of molecular-level and healthcare data.

The position is part of an international project that focuses on developing and extending our deep learning methods for identification of plasmid sequences in hundreds of thousands of metagenome samples. We will use these methods to perform large scale discovery of plasmids and link these to the spread of antimicrobial resistance genes.

Information on the department can be found at https://www.cpr.ku.dk.

Your job

Your task will be to develop and extend our machine learning algorithms for discovery of plasmids in large scale metagenomics data. You will work with a curated dataset of plasmid sequences generated using short and long-read metagenomics sequencing data by a world-leading lab. You will use this curated dataset to build a machine learning algorithm that can identify plasmids from metagenomics binning methods on hundreds of thousands of metagenomics samples. The methods that will be extended are VAMB and PHAMB that have been developed in our lab. You will work closely together with the Microbiome part of the group and will partly supervise a PhD student and take part in organizing and teaching a PhD-course on Deep Learning for Multi-omics data.

The Assistant Professor’s responsibilities will primarily consist of:

  • research, including publication/academic dissemination duties
  • research-based teaching
  • sharing knowledge with society
  • participation in formal pedagogical training programme for assistant professors

How to Apply?

Online Application through "Apply Now" Button from this page

Reference Number: -
(If any, use it in the necessary place)

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Documents Required

Application procedure

Your application must be submitted in English by clicking ‘Apply now’ below. Furthermore, your application must include the following documents/attachments – all in PDF format:

  1. Motivated letter of application (Max. one page)
  2. CV incl. education, work/research experience, language skills and other skills relevant for the position
  3. A certified/signed copy of a) PhD certificate and b) Master of Science certificate. If the PhD is not completed, a written statement from the supervisor will do
  4. List of publications
  5. Teaching portfolio (If applicable)

Deadline for applications: 21 January 2022 23.59pm CET

We reserve the right not to consider material received after the deadline, and not to consider applications that do not live up to the abovementioned requirements.

The further process

After the expiry of the deadline for applications, the authorized recruitment manager selects applicants for assessment on the advice of the hiring committee. All applicants are then immediately notified whether their application has been passed for assessment by an unbiased assessor. Once the assessment work has been completed each applicant has the opportunity to comment on the part of the assessment that relates to the applicant him/herself.

You can read about the recruitment process at https://employment.ku.dk/faculty/recruitment-process/

The applicant will be assessed according to the Ministerial Order no. 242 of 13 March 2012 on the Appointment of Academic Staff at Universities.

About the Research

The Human Proteome Variation group (https://www.cpr.ku.dk/research/disease-systems-biology/rasmussen-group/) is part of the Diseases Systems Biology program and led by Associate Professor Simon Rasmussen. The group focuses on developing and applying computational methods to human variation data, especially genome, proteome, microbiome and clinical data. A focus interest of the group is to develop and apply deep learning for integration of such dataset to generate new biological knowledge. We develop bioinformatics methods using either public data or data generated from our collaborators. The team spirit is inclusive, and we promote diversity.

About the Employer:

Other details

Place of employment

The place of employment is at the CPR, Panum Institute, University of Copenhagen. The research environment at CPR is ambitious and international, with approx. 30 different nationalities currently represented. The Center comprises modern laboratories, supercomputer resources and state-of-the-art facilities within protein science. Seminars with high-profile international speakers and regular internal research seminars are organized at the Center. The selected candidate should expect some travel activity.

Terms of employment

The average weekly working hours are 37 hours per week.

The position is a fixed-term position limited to a period of 4 years. The start date is April 1st 2022 or after agreement

Salary, pension and other conditions of employment are set in accordance with the Agreement between the Ministry of Finance and AC (Danish Confederation of Professional Associations) or other relevant organisation. Currently, the monthly salary starts at 36,800 DKK/approx. 4,940 EUR (October 2021 level). Depending on qualifications, a supplement may be negotiated. The employer will pay an additional 17.1 % to your pension fund

Foreign and Danish applicants may be eligible for tax reductions if they hold a PhD degree and have not lived in Denmark the last 10 years.

The position is covered by the Job Structure for Academic Staff at Universities 2020

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Contact details

For further information please contact Associate Professor Simon Rasmussen, mail simon.rasmussen@cpr.ku.dk.  

Foreign applicants may find this link useful: www.ism.ku.dk (International Staff Mobility).

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