PhD scholarship in Bioinformatics or Mucosal Immunology

    PhD scholarship in Bioinformatics or Mucosal Immunology

    Bioinformatics or Mucosal Immunology – PhD scholarship  to join our team within the Mucosal Immunology group at the Section of Experimental and Translational Immunology, DTU HealthTech, Denmark

    Deadline to Apply

    June 30, 2021 (23: 59 GMT +1)


    PositionPhD Position
    No. of Position(s)1
    Research Area– Bioinformatics
    – Mucosal Immunology
    ScholarshipAccording to standard norms
    WorkplaceSection of Experimental and Translational Immunology
    DTU Health Tech
    Technical University of Denmark
    Contract Period3 Years
    Starting dateOct 01, 2021


    You must have a two-year master’s degree (120 ECTS points) or a similar degree with an academic level equivalent to a two-year master’s degree.


    • You must have prior experience/expertise in the analysis of scRNA-seq data.
    • Experience in in R and unix based systems is necessary as our main pipelines are based on these.
    • Prior documented experience and/or courses in the field of Immunology will be seen as a considerable strength in the final judgement of applicants for this position.


    You will contribute to driving the analysis of scRNA-seq data sets of human intestinal immune (T cells, antigen presenting cells, B cells) and stromal (endothelial and mesenchymal stromal cells) isolated from the human healthy and Crohn’s disease intestine and associated lymphoid tissues. In doing this you will work closely with wet lab and bioinformatic colleagues at DTU HealthTech, clinical collaborators at nearby Hvidovre, Herlev Hospitals as well as expert bioinformatics and immunologists at Stanford University.

    Types of analysis will include processing of single cell RNA, CITE-seq and TCR/BCR data from raw sequencing data to publication ready plots including:

    • Establishment of pipelines integrating current and novel bioinformatic tools and algorithms
    • Identification of cellular subsets and cellular states, cellular trajectories, intra- and inter-cellular signaling and communication modules,
    • Tracing of T (TCR) and B cell (BCR) clonality and transcriptional states during activation in intestinal lymphoid tissues
    • Assessment of tissue and disease specific alterations cellular composition and states

    How to Apply?

    To apply, please open the link “Apply online”, fill out the online application form, and attach all your materials in English in one PDF file

    Documents Required

    • A letter motivating the application (cover letter)
    • Curriculum vitae
    • Grade transcripts and BSc/MSc diploma
    • Excel sheet with translation of grades to the Danish grading system (see guidelines and Excel spreadsheet here)
    • A one page summary documenting experiences/training with single-cell RNA-seq analysis and, where applicable, the field of Immunology.

    About DTU Health Tech

    DTU Health Tech engages in research, education, and innovation base on technical and natural science for the healthcare sector. The Healthcare sector is a globally expanding market with demands for the most advanced technological solutions. DTU Health Tech creates the foundation for companies to develop new and innovative services and products which benefit people and create value for society. DTU Health Techs expertise spans from imaging and biosensor techniques, across digital health and biological modelling, to biopharma technologies. The department has a scientific staff of about 175 persons, 130 PhD students and a technical/administrative support staff of about 80 persons.


    • The appointment will be based on the collective agreement with the Danish Confederation of Professional Associations. The allowance will be agreed upon with the relevant union
    • If you are applying from abroad, you may find useful information on working in Denmark and at DTU at DTU – Moving to Denmark


    Professor William Agace

    Official advertisement

    PhD scholarship in Bioinformatics/Mucosal Immunology

    Post expires at 8:59am on Thursday July 1st, 2021 (GMT+9)