Postdoc in Bioinformatics and Epigenetics

University of Copenhagen

Postdoc Position in Bioinformatics and Epigenetics

A highly attractive postdoctoral position is available in the Choudhary group at the Novo Nordisk Foundation Center for Protein Research (CPR – www.cpr.ku.dk), University of Copenhagen. Salary: approx. 55,872€ PA, plus 17.1% in pension contributions.

About the groups

The postdoc will be employed in the Choudhary group, and will collaborate closely with the Rasmussen group. The Choudhary and Rasmussen laboratories are technically and internationally diverse and embedded in an excellent environment that supports high-quality research and encourages interdisciplinary collaboration. The Choudhary lab primarily conducts experimental research using interdisciplinary, state-of-the-art technologies, including quantitative proteomics, next-generation nucleic acid sequencing, advanced microscopy, and CRISPR-based genome editing. The lab uses diverse cell models, including stem cells and their derivatives. The Rasmussen lab uses computational approaches to analyze large-scale biomedical data. In addition, the group develops and applies deep learning methods to integrate and mine proteomic, genomic and microbiome datasets.

Both labs work closely with almost all other groups at CPR. Notably, the Rasmussen group works closely with the group of Prof. Søren Brunak, and the Choudhary lab works with the “Clinical Proteomics” group led by Prof. Matthias Mann. Both of the groups extensively collaborate with top-level international researchers, routinely publish in top-ranked journals, and have an outstanding track-record in training the next generation of researchers. The major publications from the groups include Nissent et al. Nat Biotechnol. 2021; Rascovan et al. Cell 2019; Narita et al. Nat Rev Mol Cell Biol 2019; Weinert and Narita et al., Cell 2018; Gupta et al., Cell 2018; Scholz et al., Nat Biotech 2015; Weinert et al., Mol Cell 2013; Povlsen and Beli et al., Nat Cell Biol 2012; and Beli et al. Mol Cell 2012.

We are now looking for enthusiastic candidates with a PhD and/or MD, level of education corresponding to the Danish PhD degree.

Project description

The project aims to understand the epigenetic basis of gene transcription, with a focus to understand how distal-acting enhancers control gene transcription. In this project, we will use embryonic stem cells and their derivatives and apply quantitative proteomics, CRISPR-based genome editing, PROTACs, and next generation genomics technologies to understand the epigenetic basis of cellular differentiation and cell fate maintenance. The candidate will perform bioinformatic analyses of next-generation sequencing data, including ChIP-seq, RNA-seq, Nascent-seq, ATAC-seq. The candidate will use community-generated software packages, will write scripts to devise custom-based solutions, and will be interested in applying machine learning approaches to analyze the data. The candidate will be jointly working with the Choudhary and Rasmussen groups. If you would like to know more about the project(s), please contact us!

Tentative start date: Spring 2021 or later.

Qualifications

The candidate should have demonstrated excellent scientific productivity, evidenced by high-quality research publications, be able to conduct independent and creative research, and show good interpersonal and communication skills.

  • The candidate is required to have a PhD/MD level of education corresponding to the Danish PhD degree in natural or medical science.
  • Excellent scientific track-record, including at least one publication in a high-quality, peer-reviewed international journal.
  • Expert knowledge in one or more of the following areas is required:
    Experience in computer programming languages, such as R, Python
    Hands-on experience in analyzing next-generation sequencing dataset, such as ChIP-seq, RNA-seq, ATAC-seq
    Strong background in the statistical analysis of large-scale data
  • Prior experience in the application of machine learning and neural network approaches will be considered an advantage.
  • Prior experience in wet lab research is not essential but will be considered an advantage.
  • Good communication skills, both oral and written.
  • An analytical aptitude for devising innovative scientific or technical solutions.
  • Demonstrate enthusiasm, motivation, flexibility and confidence.

For further information, please contact Professor Chunaram Choudhary, email: chuna.choudhary@cpr.ku.dk

Place of employment and work

The employment is at CPR (www.cpr.ku.dk), University of Copenhagen, located in central Copenhagen. In the past 10 years, CPR has established itself as a top-level research institute in protein signaling and network biology research. 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 research facilities. Seminars with high-profile international speakers and regular internal research seminars are organized at the Center. Denmark is often ranked as the happiest nation and Copenhagen is consistently ranked as one of the best cities for living. For more information on working and living in Denmark visit www.ism.ku.dk  (International staff mobility) and www.workingconditions.ku.dk

Terms of salary and employment

Salary, pension, and terms of employment will be in accordance with the agreement between the Ministry of Finance and The Academics Central organization. Currently, the monthly salary is around 34.622 DKK approx. 4,656 €, (February 2021-level) plus 17.1 % in pension contribution. Depending on qualifications, a supplement may be negotiated.

The Danish Ministry of Finance and the Danish Confederation of Professional Associations (AC) have agreed on a protocol that makes it possible for all international researchers employed by the University to achieve a pension exemption, where the pension can be paid out as salary. For more information about the different pension schemes www.ism.ku.dk/onarrival/pension/

Duration: The duration of the full-time position is 2 years with a possibility of extension (depending on the performance, and previous employment at the University of Copenhagen).

Application procedure

Your application must be submitted electronically by clicking ‘APPLY NOW’ below or via this advertisement found on https://employment.ku.dk/faculty/ 

Your application should include the following documents:

1. Cover letter

2. Curriculum vitae, incl. educational qualifications, experience, and a list of publications

3. A scanned copy of the final degree (PhD or equivalent) certificate. If the degree is not yet awarded, it is sufficient to mention in the cover letter when the applicant expects to submit the thesis, and/or receive the qualifying degree

4. Names and contact details for 2-3 referees

The applicants can submit these materials in the given fields in the online submission system. We reserve the right not to consider material received after the deadline, and not to consider applications that do not live up to the above-mentioned requirements and that do not have a least one publication as first author.

Deadline for application: April 12, 2021.

After the expiry of the application deadline, the authorized recruitment manager selects applicants for assessment on the advice of the Appointments Committee. All applicants are then immediately notified whether their application has been passed for assessment by an expert assessment committee. Selected applicants are notified of the composition of the committee and 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 www.employment.ku.dk . For further information about the position or the process or if you experience any technical difficulty with the online submission system, please contact SUND HR: sund-hr-cpr@sund.ku.dk

CPR and the University of Copenhagen wish to reflect the diversity of society and welcome applications from all qualified candidates regardless of personal background.

APPLY NOW

Part of the International Alliance of Research Universities (IARU), and among Europe’s top-ranking universities, the University of Copenhagen promotes research and teaching of the highest international standard. Rich in tradition and modern in outlook, the University gives students and staff the opportunity to cultivate their talent in an ambitious and informal environment. An effective organisation – with good working conditions and a collaborative work culture – creates the ideal framework for a successful academic career.

Contact

Chuna Ram Choudhary
E-mail: chuna.choudhary@cpr.ku.dk

Info

Application deadline: 12-04-2021
Employment start: Start as soon as possible
Working hours: Full time
Department/Location: Novo Nordisk Foundation Center for Protein Research