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PhD student computational biology / bioinformatics (m/f/d) (fulltime)

Arbeiten am Universitätsklinikum der Zukunft

Das Universitätsklinikum Schleswig-Holstein (UKSH) verbindet internationale Spitzenforschung mit interdisziplinärer Krankenversorgung. Wir sind einziger Maximalversorger und größter Arbeitgeber des Landes. Unsere mehr als 15.000 Mitarbeiter*innen stellen eine höchst individuelle Versorgung sicher - unverzichtbar für die Menschen in Schleswig-Holstein.

 PhD student computational biology / bioinformatics (m/f/d) (fulltime)


The position will be hosted at the Institute of Human Genetics, in the workgroup "Regulatory Genomics" of Prof. Martin Kircher. The bioinformatics group performs research in the fields of sequence analysis, data mining, machine learning and functional genomics ( Our research focuses on computational approaches of identifying functionally relevant genetic changes in disease and adaptation as well as developing more sensitive methods in diagnostics (especially exome, genome and cell-free DNA sequencing). Understanding how gene regulation is encoded in our genomes across development and the diversity of cell-types is one of our fundamental research questions. Within the NHGRI Impact of Genomic Variation on Function Consortium ( and with our international collaborators Dr Nadav Ahituv (University of California San Francisco) and Dr Jay Shendure (University of Washington, Seattle), we experimentally study variant effects in dynamic systems. We develop computational pipelines to infer activity measures from reporter assays and other regulatory screens. In combination with diverse functional read outs of for example promoters and enhancer sequences (like chromatin accessibility, histone marks and RNA expression), we use those to model how regulatory function is encoded in genomic sequence.


Start in our team:

The position is immediately available. The full-time contract will be issued for 3 years with the prospect of an extension to finish necessary thesis work and related publications.


What we offer:

  • A collaborative research environment that encourages and supports scientific curiosity, innovation, and development of its team members
  • Training in computational biology and independent research
  • Receive guidance on PhD requirements and thesis work
  • Career development
  • Collaboration with internal and external partners
  • Participation in international meetings and scientific conferences
  • Full-time payment
  • Salary based on the German E 13 TV-L scale, if terms and conditions under collective bargaining law are fulfilled. This for example also includes 30 paid vacation days per year.
  • Flexible working hours and a family-friendly environment


Your role:

  • Work on cutting-edge projects using state-of-the-art technology,
  • Implement data standards and prepare data for analysis or computational modeling,
  • Analyze expression effects of high-complexity MPRA and CRISPR experiments across cell-types ,
  • Develop deep neural nets or classical machine learning models that integrate sequence features and molecular measures
  • Improve methods for model interpretation to advance the study the regulatory mechanisms,
  • Gain insights into the sequence encoding of regulatory function and its relation to epigenetic annotations in dynamic cellular systems,
  • Actively contribute to an international consortium, to the lab, and the institute


Your profil:

  • Master degree or equivalent in bioinformatics, computation-al biology or similar, alternatively in computer sciences with experience in molecular biology and large-scale data analysis
  • Basic knowledge of molecular biology, gene regulation and epigenetics
  • Highly skilled in a programming language such as Python, R, C++, or Java
  • Deep understanding of sequence analysis, statistical concepts and machine learning
  • Intermediate skills in an analysis environment like R or Python scipy/scikit learn
  • Prior experience with Unix, previous exposure to HPC environments is an advantage
  • Exposure to reproducible work and FAIR principles
  • Highly motivated to expand knowledge and develop innovative approaches
  • Diligent, goal-oriented and independent work attitude
  • Team-oriented with interdisciplinary communication skills
  • Very good English language skills


If you have any questions, do not hesitate to contact Prof. Martin Kircher:


We are looking forward to your application. Please submit your application until 01.06.2022, indicating your earliest possible starting date as well as the reference number 15821.

Only applications submitted through the application form can be considered. In addition to the information in the form fields, please provide one combined PDF document including a cover letter describing your motivation, a CV, as well as relevant certificates and letters supporting the required qualifications.


Haben wir Ihr Interesse geweckt?

Dann freuen wir uns auf Ihre Bewerbung unter Angabe Ihres nächstmöglichen Eintrittstermins und der Ausschreibungsnummer.

Campus Lübeck

Veröffentlicht am:  05.05.2022

Lübeck, Schleswig-Holstein, DE, 23538


Unsere Stärken – Ihre Vorteile am UKSH

Bei der Vereinbarkeit von Beruf und Familie unterstützen wir Sie und auch an Ihre Zukunft ist gedacht - Mitarbeiterinnen und Mitarbeiter können von einer Vielzahl an Angeboten profitieren:

Innerbetriebliche Kinderbetreuung | Gesund im Beruf - betriebliches Gesundheitsmanagement | betriebliche Sozialberatung | Betriebs- und Hochschulsport | Fitness zum Firmentarif | Fort- und Weiterbildungsmöglichkeiten | betriebliche Altersvorsorge des öffentlichen Dienstes | individuelle Arbeitszeitmodelle | Starterpakete | E-Learning & Online-Wissensbibliotheken | UKSH Akademie | begleitende Karriereprogramme | attraktive Mitarbeiterrabatte und vieles mehr.


*Das UKSH und seine Töchter folgen den Grundsätzen der Chancengleichheit, wir schätzen Vielfalt. Darum begrüßen wir ausdrücklich Bewerbungen von allen Mitgliedern der Gesellschaft. Kontinuierlich arbeiten wir an der Gleichstellung von Frauen und Männern.

Campus Lübeck

Veröffentlicht am:  05.05.2022

Lübeck, Schleswig-Holstein, DE, 23538

Ausschreibungsnummer:  15821

Haben Sie Fragen?

Ihr Kontakt zu uns:  Prof. Martin Kircher #+49 451-31018880
Recruiter*in:  Sina Knodel # 0451 500 11190 # https://www.pflegez

Jobsegment: Biotech, Genetics, Molecular Biology, Scientist, Intern, Science, Entry Level