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Projektmanager (Assistenz Standortsprecher HiGHmed)

Beginn: so bald wie möglich / Dauer: 2 Jahre mit der Option auf Verlängerung

Der erfolgreiche Bewerber wird Teil Aufgaben am Standort Heidelberg innerhalb des HiGHmed-Konsortiums (http://www.highmed.org) wahrnehmen. Er/Sie wird in der Arbeitsgruppe Bioinformatik und Systemkardiologie (www.dieterichlab.org) angestellt sein und den Standort Heidelberg als Projektmanager vertreten.

Aufgaben
Zu Ihren Aufgaben gehören unter anderem:

-        - die Koordinierung der HiGHmed Aktivitäten am Standort Heidelberg (UKL-HD)

-        - Projektmanagement, Monitoring und Ergebnispräsentation

-        - Vernetzung der Use Cases und Medizininformatik Aktivitäten am Standort

-        - Mitarbeit in Arbeitsgruppen zu Themen wie Datenschutz, Sicherheit und Austausch.

-        - Mitarbeit in Arbeitsgruppen zu Themen wie Interoperabilität und Datenmodellierung.


Benötigte Qualifikationen

Die idealen Kandidaten haben idealerweise
> 3 Jahre Berufserfahrung im Projektmanagement und besitzen einen Diplom- oder Master-Abschluss mit klarem Themenbezug zur Ausschreibung. Ihre Berufserfahrung haben Sie vorzugsweise in medizinischen Forschungsverbänden erhalten. Wir setzen eine selbstständige Arbeitsweise voraus und benötigen eine proaktive detaillierte Berichterstattung an den Standortsprecher. Sie besitzen Teamfähigkeit, Freude am Anwenderkontakt und verfügen über Reisebereitschaft.

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Biological-Technical Assistant (m/f)

Start: as soon as possible / Duration: 18 months with the option to renew

The main focus of the group is the interaction of non-coding RNAs (ncRNAs), RNA-binding proteins (RBPs) and their effect on different stages of RNA processing. The position will be announced jointly with the DZHK Junior Research Group Cardiac Proteostasis (Dr. Shirin Doroudgar). The work is mainly focused on working with cell culture models and is dedicated to the research of circular RNA species in particular and RNA interactions as well as functions in general.

tasks
Cell culture (both standard cell lines, as well as hIPSCs and NRVMs)
• Isolation of DNA, RNA and proteins
PCR (for amplicon sequencing and RNA quantification)
• Western blots
• knock downs (siRNAs)
Cloning and transfection of adenoviruses and AAVs.
• Preparation and Sequencing of Nanopore Libraries (Oxford Nanopore Technologies)
• Acquisition and evaluation of microscopic images
• General laboratory tasks and organization (including orders, request for quotation, control and procurement of consumables, disposal, maintenance of equipment)
• Establishment of new methods
• Evaluation, documentation and presentation of the results

Required qualifications

• You already have experience working in a research laboratory
• Experience in the development and troubleshooting of molecular biology experiments
• Experience in DNA isolation, amplification and cloning, RNA isolation and RTPCR, and immunoblotting
• Experiences with tissue culture, including primary cardiac myocytes, cell lines and iPS cells
• Expertise in immunocytofluorescence and microscopy
• Background in cardiac biology, including expertise in in vitro and in vivo models
• Expertise in cardiac, biochemical and phenotypic analyzes
• Experience in the development of gene delivery platforms such as adenovirus and adeno-associated virus
• Computer literacy including expertise in using Excel, ImageJ, Prism, PowerPoint and Illustrator
• You speak English well because you will work in an international team
• Strong teamwork, flexibility, reliability and independence while working

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Postdoc in Computational ncRNA Biology (m/f)

Starting date: as soon as possible / Duration: Initially 2 years; option of further extension.

The successful applicant will enter a collaborative research environment focusing on Non-coding RNAs in renal and cardiac disorders. We are looking for a talented investigator to analyze the sequence, structure and conservation of the ncRNA transcriptome in mammals. You will be part of a collaborative DFG-funded research unit “Disease pathways in podocyte injury”.

Tasks
You will apply state-of-the-art bioinformatics methods to assemble cell-specific non-coding transcriptomes, assess dynamic expression and localization, as well as sequence-structure conservation from next-generation RNA sequencing data.

You will further develop methods to predict ncRNA interactions with protein, RNA and DNA binding partners. Herein, you will benefit from our membership in the FANTOM6 consortium, which addresses lncRNA function. Moreover, you will look into the impact of RNA modifications on ncRNA function.

Required Qualifications
The ideal candidates will have a PhD or equivalent in Bioinformatics, Computational Biology, 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 (e.g. at least two out of C/C++, R, Perl, Python, Java) is essential. Other relevant qualifications include a good understanding of RNA Biology.

 

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Scientist (f/m) / PhD position

Project description:

 

Title: Circular RNAs: novel regulators of protein synthesis in neurons and cardiac myocytes

 

Summary:
Circular RNAs are a rediscovered class of RNA species that originate from back-splicing events in animals and plants. Many circular RNAs are stable, abundant and conserved between species. They exhibit context-dependent expression patterns, which are linked to disease states. Putative circular RNA functions are numerous and range from regulation of transcription and splicing to RNA/protein sponging and scaffolding.

We have carefully mapped the complete internal structure of many circular RNAs in adult mouse brains and hearts with innovative RNA sequencing and software approaches. Based on the primary sequence and contextual splicing events, we classified circular RNAs into functional candidate categories, such as mRNA traps, splicing regulators, and sponges.

The Dieterich Lab wants to accurately understand, manipulate and design circular RNA biology in terms of functional aspects. We will predominantly use in vitro cell culture systems of human and mouse cell lines together with our collaborators. Given success, we will use circular RNAs to open up novel therapeutic avenues in animal models of neuronal disease & heart failure.

 

Given previous experience, the applicant will either work on:
(1) Enhancing our understanding of circular RNA biogenesis, modification, localization, decay and interactions in an unbiased manner using latest high-throughput technologies combined with metabolic labeling, sub-cellular fractionation, and affinity capture experiments.

Alternatively, (2) the applicant will work in quantitative computational models to predict circular RNA dynamics, folding and, interaction networks with the goal to tailor molecular interventions in the heart.

 

Methods that will be used:
• Molecular RNA Biology
• High-throughput sequencing technologies
• Metabolic labelling
• Sub-cellular fractionation
• Knock-down
Computational RNA Biology
:
• R Programming
• Python Programing

 

Keywords:
hiPSC, neuron, cardiomyocyte, circular RNA, Computational Biology, bioinformatics, heart failure, neuronal diseases

 

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.

Additionally we offer:
– individual, goal-oriented further education
– ticket for public transport
– Kindergarten as well as holiday organization for schoolchildren
– Information about finding a flat
– Health promotion
– University sports / Library access

Contact & Application

Applications including all relevant credentials should be sent to (email: in ONE pdf-file):

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

Email: sekretariat.dieterich@med.uni-heidelberg.de

Interested ?
Please contact us.

We are always looking for talented students with a background in bioinformatics / medical informatics who wish to do an internship, master’s thesis or similar.

We also encourage medical students who would like to pursue a computational
project in their dissertation (Medical Structured Scientific Program / MEDISS)
to contact us.

We stand for equal opportunities. People with disabilities are given priority with the same suitability. The university hospital aims at a general increase in the proportion of women in all areas and positions where women are underrepresented. Qualified women are therefore particularly encouraged to apply. Full-time positions are, in principle, divisible insofar as there are no official or legal grounds.

For specific job descriptions, please check back regularly.