Kliniken & Institute … Kliniken Zentrum für Innere… Internal Medicine III:… Research Klaus-Tschira-Institut… Jobs

Jobs

Software developer and Systems administrator (m/f/d)

As soon as possible searched for the Klaus Tschira Institute for Integrative Computational Cardiology / Internal Medicine III.

Location: Zentrum für Innere Medizin, Klinik für Kardiologie, Angiologie, Pneumologie (Innere Medizin III), INF 669, 69120 Heidelberg
Contract: 1 year with option of further extension, begin as soon as possible
Salary: according to the German TV-L system (the salary agreement for public service employees).

The Klaus Tschira Institute for Integrative Computational Cardiology is active in three thematic areas. First: RNA maturation and processing. In particular, the development and physiology of the heart require strict control of RNA biology. Our laboratory has succeeded in publishing numerous software solutions for the investigation of the complex RNA world. Secondly, we have established the field of systems cardiology for in vitro and in vivo models of heart failure. Thirdly, we build a bridge into the field of clinical data science through the HiGHmed Consortium, as part of the German Medical Informatics Initiative. At this point, our AI work in the field of unstructured German texts from cardiological settings should be mentioned in particular. Further information is available at www.dieterichlab.org.

Tasks

The candidate is experienced with various Linux distributions (at least Debian/Ubuntu), software installation from source and troubleshooting of Unix/Linux issues on multiuser systems. The candidate is expected to have experience with Python, Perl, and shell scripting. The applicant must have working knowledge of network storage, server hardware, file system management (preferably BeeGFS/XFS/ext4), tape and disk-based backup/recovery (preferably Bareos), IT security concepts and cluster computing (preferably SLURM). Moreover, the applicant should have experience with cluster orchestration tools (preferably Ansible) to manage multiple systems efficiently. Knowledge of Windows and MacOS is a plus. The candidate will be responsible for ongoing performance tuning, software upgrades, and resource optimization of the group’s compute cluster. The successful candidate must be able to work independently and efficiently in a team setting and have strong communication and interpersonal skills. Previous experience with bioinformatics software will be a plus.

 

 

 

Required Qualification

Completed qualification as software developer or system administrator

Ideally experience in the areas:

  • Administration of Linux servers (Debian Linux)
  • Experience with high performance parallel file Systems (BeeGFS)
  • Compute cluster scheduling (SLURM)
  • Server provisioning (Ansible)
  • Planning and implementation of backup strategies (Bareos)
  • Installation and operation of Docker hosts and containers
  • Database administration (MariaDB, PostgreSQL)
  • Object-oriented, test-driven software development, continuous Integration

 

 


Postdoc in Machine Learning for RNA Biology

As soon as possible searched for the Klaus Tschira Institute for Integrative Computational Cardiology / Internal Medicine III.

The position is initially limited to 2 years with option of further extension. The salary is paid according to the German TV-L system (the salary agreement for public service employees).

The Klaus Tschira Institute for Integrative Cardiology is active in three thematic areas. First: RNA maturation and processing. In particular, the development and physiology of the heart require strict control of RNA biology. Our laboratory has succeeded in publishing numerous software solutions for the investigation of the complex RNA world. Secondly, we have established the field of systems cardiology for in vitro and in vivo models of heart failure. Thirdly, we build a bridge into the field of clinical data science through the HiGHmed Consortium, as part of the German Medical Informatics Initiative. At this point, our AI work in the field of unstructured German texts from cardiological settings should be mentioned in particular. Further information is available at www.dieterichlab.org.

Tasks

You will implement existing and develop new computational methods for the analysis and interpretation of sequencing data and contribute to at least one of our research areas:

  • Direct RNA sequencing data: RNA modification detection
  • Single Cell RNA sequencing data: Hybrid approaches on the ONT platform
  • Predictive Machine Learning Models for RNA biology (Splicing, Translation, NMD)

Required Qualifications

  • The ideal candidates will have a PhD or equivalent in Bioinformatics, Physics, Statistics or a related discipline
  • You offer solid expertise in handling high-throughput data sets and are fully competent in managing the underlying statistical challenges
  • Moreover, you are happy to work in a highly interdisciplinary team
  • A proven competence in scripting/programming (i.e. at least two out of C/C++, R, Python, Java) is essential
  • Other relevant qualifications include a good understanding of RNA Biology

What we offer

The Dieterich Lab (www.dieterichlab.org) offers a stimulating, diverse and international research environment. We are embedded in a vibrant community of cardiovascular research labs and collaborate with many experimentally or theoretically oriented labs in the Heidelberg area. Our computer cluster consists of 26 dedicated computing nodes with main memory of up to one terabyte, which is needed for genome assembly or parallel analysis of large OMICS data sets, for example. In addition, the computer cluster has been equipped with dedicated servers that accommodates NVIDIA GPUs (Graphics Processing Units) for up-to-date machine learning approaches.

Additionally we offer:

  • Target-oriented individual further education and training opportunities
  • Targeted training on the job
  • Ticket for public transport
  • Possibility of child care (crèche and kindergarten) as well as subsidy for holiday care for school children
  • Active health promotion
  • Company pension scheme
  • Access to the university library and other university facilities (e.g. university sports)

 

Contact & Application

Please do not hesitate to contact us via e-mail: sekretariat.dieterich(at)med.uni-heidelberg.de if you have any further questions.

Interested?

Please send a covering letter/supporting statement, including a brief statement of research interests, CV and the details of two referees as part of your online application until December 15th, 2020.


Universitätsklinikum Heidelberg
Zentrum für Innere Medizin
Klinik für Kardiologie, Angiologie, Pneumologie (Innere Medizin III)
Prof. Dr. rer. nat. Christoph Dieterich 
Im Neuenheimer Feld 669
69120 Heidelberg
sekretariat.dieterich(at)med.uni-heidelberg.de

 

 

We are always looking for talented students and job application.

Contact & Application
Please upload a covering letter/supporting statement, including a brief statement of research interests, CV and the details of two referees as part of your online application.
Applications should be sent by email in ONE pdf-file to sekretariat.dieterich(at)med.uni-heidelberg.de

Please do not hesitate to contact us if you have any further questions.

University Hospital Heidelberg
Department of Internal Medicine III
Section of Bioinformatics & Systems Cardiology
Prof. Dr. rer. nat. Christoph Dieterich
Im Neuenheimer Feld 669
69120 Heidelberg
sekretariat.dieterich(at)med.uni-heidelberg.de

EN