PhD scholarship in Computational Analysis of Single-Cell Transcriptomics and Multimodal Datasets

Updated: 3 months ago
Job Type: FullTime
Deadline: 05 Aug 2022

We are looking for a highly motivated candidate for a 3-year PhD scholarship, to join the group of Associate Professor Kedar Natarajan from 15 November 2022 or soon thereafter.

Our research
Our group investigates how individual cells undertake cell-fate decisions in pluripotent stem cells and complex tissues, particularly in development and during differentiation. We develop, utilise experimental methods including single-cell transcriptomics, ATAC-seq, multi-omics and spatial transcriptomics, and also develop computational approaches for large-scale analysis of next-generation sequencing data.

This PhD position is funded by Sino-Danish Centre (SDC), and the project involves building computational methods for analysis of multi-modal single-cell genomics datasets. Our science and team is highly collaborative and interdisciplinary, and we welcome new members with varied competences in relevant fields. More details can be found at: http://www.bioengineering.dtu.dk/Kedar-Natarajan .<br">http://www.bioengineering.dtu.dk/Kedar-Natarajan .<>< a=""> />
Responsibilities and qualifications
You roles will include analysis of bulk and single-cell genomics datasets (scRNA-seq, scATAC-seq, imaging/seq-based spatial Tx), implementing and developing new methods. You will also be involved in setting up workflows for the lab and ongoing collaborative projects.

We seek a motivated and enthusiastic candidate with Master’s degree, with documented experience in handling high-throughput datasets. Prior experience with method development, single-cell genomics analysis and/or big-data integration and analysis is preferable. As a part of a multidisciplinary team and research environment, the candidate is expected to be passionate about science, hardworking, learning oriented and work collectively within the group and with collaborators.

Profile
We are looking for a motivated and enthusiastic researcher with following competences:
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  • Master’s degree in Bioinformatics, Computational biology, Biostatistics, or related biological or quantitative fields (Computer Science, Mathematics, Physics)
  • Experience analysing large, high-throughput datasets (preferably genomics and single-cell datasets)
  • A high proficiency in spoken and written English

Desirable experience and skills:


  • Experience with computational method development
  • Documented experience with machine and deep learning methods
  • Experience with analysis of single-cell genomics methods (scRNA-seq, scATAC-seq etc.,)
  • Contribution to peer-reviewed publications.

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.

The 3-year project is funded by the Sino-Danish Centre (SDC), with research stays at Chinese co-supervisor’s lab at UCAS, Beijing totalling ~9 months. The candidate will receive a PhD degree from both Technical University of Denmark (DTU) and University of Chinese academy of Science (UCAS). Prior experience with SDC is considered a plus.

You will work primarily at the DTU Bioengineering, and interacting locally with other groups at DTU Bioengineering and across departments (DTU Compute and Health Tech). A collaborative mindset is expected as well as a proven ability to work in teams and communicate scientific research through presentations and submitted manuscripts. Working independently and charting research direction are valued. If you are highly driven, you will have opportunities to grow, drive research directions and contribute to broader collaborations.

Approval and Enrolment
The scholarship for the PhD degree is subject to academic approval, and the candidate will be enrolled in one of the general degree programmes at DTU. For information about our enrolment requirements and the general planning of the PhD study programme, please see https://www.dtu.dk/english/Education/PhD/Rules DTU's rules for the PhD education.

Assessment
The assessment of the applicants will be made by Associate Professor Kedar Natarajan together with relevant project partners.

We offer
DTU is a leading technical university globally recognized for the excellence of its research, education, innovation and scientific advice. We offer a rewarding and challenging job in an international environment. We strive for academic excellence in an environment characterized by collegial respect and academic freedom tempered by responsibility.

Salary and appointment terms
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. The period of employment is 3 years.

Starting date is 15 November 2022 or soon thereafter or according to mutual agreement.

You can read more about http://www.dtu.dk/english/about/job-and-career/working-at-dtu/career-paths career paths at DTU here.

Further information
Further information may be obtained from Assoc. Prof. Kedar Natarajan (kenana@dtu.dk )

You can read more about the lab at http://www.bioengineering.dtu.dk/Kedar-Natarajan ">www.bioengineering.dtu.dk/Kedar-Natarajan and DTU Bioengineering at http://www.bioengineering.dtu.dk/english <br">www.bioengineering.dtu.dk/english <>< a=""> />
If you are applying from abroad, you may find useful information on working in Denmark and at DTU at https://www.dtu.dk/english/about/job-and-career/moving-to-denmark DTU – Moving to Denmark. Furthermore, you have the option of joining our monthly free seminar “https://www.dtu.dk/english/about/job-and-career/moving-to-denmark/before... PhD relocation to Denmark and startup “Zoom” seminar” for all questions regarding the practical matters of moving to Denmark and working as a PhD at DTU.

Application procedure
Your complete online application must be submitted no later than 15 August 2022(Danish time). Apply online here: https://www.dtu.dk/english/about/job-and-career/vacant-positions/?inst=5... Positions at DTU Bioengineering.

Applications must be submitted as one PDF file containing all materials to be given consideration. 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. The file must include:

  • Cover/motivation letter of application (max. 2 pages).
  • CV incl. education, work/research experience and skills relevant for the position.
  • Grade transcripts and BSc/MSc diploma (in English) including official description of grading scale
  • List of publications
  • Contact information of 2-3 referees

You may apply prior to ob­tai­ning your master's degree but cannot begin before having received it.

Applications received after the deadline will not be considered.

All interested candidates irrespective of age, gender, race, disability, religion or ethnic background are encouraged to apply.

The Department of Biotechnology and Biomedicine (DTU Bioengineering) is an international leader in the areas of biotechnology and biomedicine. Our engineering approach to all aspects of biotechnology and biomedicine positions us as a valuable player with unique competences in a growing bio-based economy and with health systems transforming towards personalized medicine. We have a clear focus on the needs in the life science industry and point towards innovation, new businesses, and scientific services for the benefit of society. The department has extensive collaborations with national and international research units and industry. DTU Bioengineering has approx. 400 employees, of which 2/3 are scientific staff. The department is located at DTU Lyngby Campus.

Technology for people
DTU develops technology for people. With our international elite research and study programmes, we are helping to create a better world and to solve the global challenges formulated in the UN’s 17 Sustainable Development Goals. Hans Christian Ørsted founded DTU in 1829 with a clear vision to develop and creat<>


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