PhD position in bioinformatics with focus on quantitative proteomics and single cell transcriptomics of the cardiac conductive system

Posted 03 Jul 2019

University of Copenhagen

Denmark (Ph.D.)

Description We are seeking a PhD fellow to apply bioinformatics to analyse high-resolution quantitative proteomics data as well as single cell transcriptomic data derived from the conductive system of the heart. The PhD fellow shall focus on analysis of data produced by colleagues in our team. This will involve in-depth characterization of the molecular differences between the primary components of the cardiac conduction system, specifically the sinus node, the AV node and the purkinje fibers. The position provides an opportunity to develop bioinformatics expertise in quantitative mass spectrometry, cutting-edge discovery proteomics and integrative analysis of big data.

The candidate will be part of the Cardiac Proteomics group led by Associate Professor Alicia Lundby at the Department of Biomedical Sciences and the Novo Nordisk Foundation Center for Protein Research at the University of Copenhagen, Denmark. The research focus of the Cardiac Proteomics group is to use high-resolution LC-MS/MS to obtain insights beyond the current molecular understanding of the heart; both at the level of protein expression, as well as phosphorylation mediated protein signaling. We work closely together with cardiologists in the clinic to ensure high impact and translatability of our research.

Responsibilities and Tasks The successful candidate will: • perform unbiased data-driven analyses of large-scale proteomics and transcriptomics datasets investigating the cardiac expression profiles underlying timely propagation of the cardiac electrical impulse.

• Perform bioinformatics data integration of proteomics and transcriptomics datasets.

• Adapt and translate cutting edge software tools and bio-statistical analyses into streamlined data analysis workflows for mass spectrometry applications and transcriptomic data sets.

• Make biological interpretation of “Omics” data and communicate the results internally and externally.

• The successful candidate will be working in a team of scientists across multiple scientific fields (experimental biologists, bioinformaticians and geneticists) focused on improving our molecular understanding of cardiac pathophysiology and to solve fundamental challenges in cardiac research.

Qualifications • Master degree in Bioinformatics, Computational Biology, Biostatistics or equivalent • Ability and enthusiasm to learn new methods/techniques • Good communication skills in English, both oral and written • Highly ambitious and self-driven • Previously demonstrated a capacity for excellence • Experience in high-resolution mass spectrometry (LC-MS/MS) and data analysis hereof (such as MaxQuant, Perseus, R) or experience in single cell transcriptomics (such as Seurat) • Hands-on experience in a Linux/Unix environment and with scripting languages (e.g. R/Bioconductor, Python) • Previous experience in cardiac research is an advantage • Proven experience in high throughput large-scale datasets • Strong work ethics and team player mentality The preferred applicant will possess an excellent academic track record and solid research experience and be highly motivated to perform bioinformatics analyses to extract novel findings of importance to cardiac (patho)physiology.

We offer

• An interesting and challenging job in an international environment focusing on cardiac research with state of the art facilities. • A challenging and stimulating work environment, at the edge of IT technologies and the latest research innovations • Start date: September 1st 2019

You will become part of a research environment spanning cardiologists, geneticists performing next generation sequencing on cardiac patient samples, experimental groups performing follow-up experiments in model organisms such as zebrafish, mouse and pig as well as molecular biologists. We strive for academic excellence, collegial respect and freedom tempered by responsibility.

Salary and terms of employment The appointment will be based on the collective agreement with the Confederation of Professional Associations (AC). The allowance will be agreed with the relevant union.

Workplace and period of employment The Panum Institute, University of Copenhagen, Denmark. The period of employment is 3 years.

Further information Further information may be obtained from Associate Professor Alicia Lundby: For administrative questions, please contact Ragnhild Mostert;

You can read more about the Cardiac Proteomics Group at You can read more about the Department of Biomedical Sciences at You can read more about the Center for Protein Research at

Application procedure Please submit your online application no later than July 24th 2019.

The File Must Include

Applications must be submitted as one PDF file containing all materials to be given consideration. Attach all your materials in English in one PDF file. The application should contain:

• application (cover letter) • CV • diploma (an official translation into English) • list of publications • Contact details for two referees

Applications and enclosures received after the deadline will not be considered.

How to Apply