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Stellenangebote

Postdoctoral position - Bioinformatics for Next Generation Sequence Analysis

The Helmholtz Centre for Infection Research (HZI) has an opening for a
Postdoctoral position - Bioinformatics for Next Generation Sequence Analysis
The Computational Biology for Infection Research (BIFO) Department of the HZI is offering a bioinformatics position at the advanced postdoctoral level.
The successful candidate will have the opportunity to collaborate with Next Generation Sequence (NGS) experts and infection biologists.

Area of research
The BIFO lab is based at the Braunschweig Centre for Systems Biology (BRICS) on the campus of Technical University of Braunschweig.
Key aspect of the applicant’s work will be the evaluation and analysis of next-generation sequencing data in various research projects conducted with partners from HZI,
the Medical School Hannover (MHH) and within the German Centre for Infection Research (DZIF), ranging from RNA sequencing, epigenomics and metagenomics to
de novo sequencing and comparative resequencing of bacterial, viral and human genomes. A server based computational infrastructure is established.
Applicants are expected to continuously improve and newly establish pipelines for processing primary sequence reads,
generated for example by the lllumina Genome Analyzer or the Pacific Biosciences technology, to obtain user-friendly data output for the researchers.

We offer a challenging work environment in a multidisciplinary team, composed of bioinformaticians, molecular biologists, computer scientists, biochemists, biologists and medical scientists.

Prerequisites
· PhD in bioinformatics, with proven publication record
· Familiarity with NGS analysis; experience with a scripting language like Perl/Python or Java/C
· Proficiency in major programming languages and in handling large datasets
· Ability to work independently and as part of a team, lead bioinformatics projects and supervise
  junior scientists
· High self-motivation and enthusiasm
· Excellent English communication skills (written and spoken)

Equal opportunities are part of our personnel policy – qualified women are especially invited to apply. Qualified applicants with a disability will be given preference.

Location                                Braunschweig (Germany)

Starting date                         As soon as possible.
Initial contract for 2 years.

Probation period                  6 months

Salary                                    TVöD E14

Published on                         13.02.2017

Closing date                          26.03.2017


Please send your application with a cover letter outlining briefly your research experience, motivation for applying for the position,
your scientific interests and a complete curriculum vitae, including a list of publications and academic references, referring to code 16/2017 to

Helmholtz Centre for Infection Research
Department of Human Resources
Inhoffenstrasse 7
38124 Braunschweig

or by email: Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!

All documents and information should be provided in English.

For questions regarding the bioinformatics projects, please contact Prof. Alice McHardy  (Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!).
Entitle your email with the subject line ‘DZIF postdoc application’.

The Helmholtz Centre for Infection Research (HZI) is a member of the Helmholtz Association of German Research Centres,
the largest scientific organization in Germany. The HZI offers a unique research environment in the field of infection biology,
excellent state-of-the-art equipment, a stimulating scientific community and intensive training of scientific and personal skills.

5 associate professors in chemoinformatics / bioinformactics

The University of Bergen (Norway) has established the Computational Biology Unit (CBU – www.cbu.uib.no) as a centre for research and education within the field of bioinformatics. CBU hosts research groups from multiple linked departments at the faculties of mathematics and natural sciences and medicine and odontology. Together with the Department of Informatics, CBU offers bachelor, master, and PhD programs within bioinformatics. CBU performs fundamental bioinformatics research involving development of novel methods - either as a goal on its own or as a means to pursue a biological research topic. CBU leads the Norwegian Node of ELIXIR, the pan-European research infrastructure for bioinformatics – www.elixir.org, a national research school in bioinformatics, biostatistics, and systems biology (www.norbis.no), and plays a central role within the research centre Digital Life Norway (www.ntnu.edu/dln).

With support from the Bergen Research Foundation (http://bfstiftelse.no/?lang=en) CBU will be strengthened with five new group leader positions. The ambition is to boost bioinformatics and computational life science research and education at UiB – through a strong centre with critical mass at the CBU and through tight collaboration with linked UiB departments. The five positions are announced as associate professor ('førsteamanuensis') posts, each within one of 5 linked departments. Each of the appointed candidates will hold office both at CBU and at a relevant university department as specified in this call. We seek ambitious candidates who will contribute to research and educational activities both within CBU and at the relevant departments. When appointed, candidates may apply to be promoted to full professor – depending on qualifications.

For me information, see here: https://www.jobbnorge.no/en/available-jobs/job/134177/associate-professors-in-bioinformatics-up-to-five-positions

 

SOFTWAREENTWICKLER (M/W) FÜR KÜNSTLICHE INTELLIGENZ

Wir, FUSE-AI, sind der Spezialist für Künstliche Intelligenz und intelligente Bilderkennung im Gesundheitswesen. Unser Ziel ist es, die Kapazitäten, Aufgaben und Kompetenzen eines Arztes mittels Artificial Intelligence zu ergänzen - beispielsweise in den Bereichen der Fenstertechnik nuklearmedizinischer Untersuchungsmethoden (Hounsfield-Skala), Medical Apps und Virtual Reality.
Wir bieten Ihnen spannende Zukunftsprojekte im Umfeld Medizin, Medizintechnik und IT. Ihr Thema ist Künstliche Intelligenz und Sie sind ein Teil firmenübergreifender, interdisziplinärer Projektteams bestehend aus verschiedenen Medizintechnik-Herstellern (u.a. Olympus Medical), Kliniken (u.a. Asklepios) und Biobanken.

Unser Wunsch:
- Erfolgreich abgeschlossenes Studium z.B. Medizininformatik, Informatik, Machine Learning, Cognitive Science oder vergleichbare Qualifikation.
- Erste Erfahrung mit Methoden und Tools aus dem Bereich Künstliche Intelligenz und Maschinelles Lernen.
- Sie sehen ihre Zukunft in der Softwareentwicklung und möchten das Thema Artificial Intelligence in Healthcare vorantreiben.
- Sie interessieren sich für Technologietrends und arbeiten gerne im interdisziplinären Team.

Bei uns finden Sie flache Hierarchien, verantwortungsvolle Aufgaben und eine gute Arbeitsatmosphäre in einem Büro direkt am Hamburger Rathaus.
Gerne unterstützen wir Sie bei der Wohnungssuche.
Frau Margit Frahm freut sich auf Ihre Fragen und Ihre Bewerbung.
Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!
040 450 318-13

Link: http://fuse-ai.de/en/home/

 

Ph.D. Students (m/f) in the field of computational biophysics/molecular physiology

The Leibniz Institute for Molecular Pharmacology (FMP) is a research institute of the Forschungsverbund Berlin e.V. (FVB). The FVB represents eight institutes of natural sciences, life sciences and environmental sciences in Berlin with joint funding by the federal and state governments. The institutes are members of the Leibniz Association. FMP pursues a broad scientific scope with the sections Molecular Physiology, Structural Biology and Chemical Biology. It is located on the research campus Berlin-Buch.

The research groups of Dr. Andrew Plested and Dr. Han Sun invite applications for two positions for Ph.D. Students (m/f) in the field of computational biophysics/molecular physiology with part-time employment (65%). The period of employment is initially two years. The position will be available from April 2017.

Job Description:

We are two young and interdisciplinary research teams. Dr. Plested’s lab is focused on studying ion channel receptors by using a variety of different biophysical methods. Dr. Sun’s lab is interested in understanding protein dynamics and their relationship to protein function by employing computational simulations. The objective of our joint research project is to identify molecular mechanisms of ion permeation and activation in AMPA receptors, which are relevant for the integrity and flexibility of fast synaptic transmission in the brain. This project is part of the Deutsche Forschungsgemeinschaft (DFG, German Research Council) Research Group 2518. The students will have opportunities to study a variety of different biophysical techniques and work with leading scientists in the field.

Requirements:

The candidates should have a good master/diploma degree in Biophysics, Chemistry, Bioinformatics, Biochemistry or a related field and ideally have a basic knowledge in computational simulations. Experiences in coding and raw data analysis are preferred. A strong interest in interdisciplinary projects and cooperation with scientists from different backgrounds is required.

Further Information:

For more information about the position please contact Dr. Andrew Plested; Email: Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!; Web: http://www.leibnizfmp.de/research/molecular-physiology-and-cell-biology/research-groups/plested

Dr. Han Sun; Email: Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!; Web: http://www.leibnizfmp.de/research/structuralbiology/researchgroups/han-sun  

Salary will be paid according to TVöD regulations in accordance to the applicant's qualifications and experience. FMP hires on the basis of merit and is committed to employment equity. At equal aptitude, women and handicapped individuals will be given priority. Please apply by sending a letter of motivation, your CV and contact details of at least 2 referees to Mrs. M. Spors (Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!).

 

 

PhD position in computational virology

Project description

Herpesviruses are prevalent pathogens in humans and responsible for diseases ranging from relatively harmless cold sores to cancer. They utilize a broad range of mechanisms to modulate their host cells and evade the immune system. To study these mechanisms in an unbiased and system-wide manner, we utilize a systems biology approach to measure various parameters on molecular level in a quantitative manner.

For many techniques such as RNA-seq or quantitative tandem mass spectrometry, computational analysis tools are widely established. However, novel computational and statistical approaches are required for variations or modifications of such experiments and integrative analyses.

We focus on two herpesviruses with distinct modes of host interaction, herpes simplex virus 1 (HSV-1) and murine cytomegalovirus (MCMV). For both viruses, several big data sets (4sU-seq, Ribo-seq, MS/MS, ATAC-seq, PAR-CLIP, ChIP-seq, mNET-seq, …) are either already available or will be obtained in collaboration with Prof. Lars Dölken (Institute for Virology and Immunobiology, University of Würzburg).

The goals of this research project are (i) to develop new computational and statistical methods for the raw data analysis of high-throughput experiments, (ii) to implement software pipelines for the application of these and other established methods to the herpesvirus data, (iii) to characterize and compare the mechanisms of herpesvirus-host interaction and (iv) to develop and apply tools for the integrative analysis of many high-throughput experiments and publicly available data.

Applicants

Ideal candidates have a strong background in programming, statistics and bioinformatics. Applicants should hold a master’s degree in bioinformatics, computer science, statistics, biology or related fields.

How to apply

The application should comprise a letter of motivation to pursue a PhD, CV including certificates and contact details of 2-3 references. Please send the application via email to Prof. Florian Erhard, Institute for Virology and Immunobiology, University Würzburg.

PostDoc in Bioinformatics/Biostatistics [Göttingen]

The Department of Medical Statistics is offering a position for a PostDoc in Bioinformatics/Biostatistics with focus on data management, integration and analysis
(initially for two years, with possibility of extension, fulltime position | salary according to TV-L)

The University Medical Center Göttingen is a tertiary care center and offers great development potential. Its 7000 employees work in over 60 departments and facilities to provide top-quality patient care, excellent research and modern teaching. Göttingen, “City of Science”, lies near the center of Germany and its University is embedded in the city’s attractive network of scientific research facilities. Within the Center of Statistics, Informatics and Epidemiology several institutes are working together in the research and application of statistical and informatics methodology to analyze and interpret biomedical data.

Job Description:

The position primarily involves the management and integration of complex biomedical data for research purposes within various projects and consortia. This will include the setup and maintenance of knowledge and data management servers (e.g. openBIS, Wikis, tranSmart) as well as the implementation of ETL data pipelines. Further tasks will include statistical analyses and the integration of high-troughput data and clinical records as well as external data sources.

Requirements:

An appropriate university degree in computer science or bioinformatics Experience in Unix server administration Knowledge in data management
Ideally, experience with openBIS and in setting up Wiki-systems as exchange and communication platforms
Experience with a general-purpose programming and scripting language (such asR, Python, Shell, Java, optional C/C++/C#)
Ideally, experience with data workflow systems (e.g. KNIME) and knowledge in statistical analyses of biomedical data

Please send your application until 09/01/2017 to

Universitätsmedizin Göttingen
Prof. Dr. Tim Beißbarth
Department of Medical Statistics
37099 Göttingen
Tel.: 0551/39-4990
Fax: 0551/39-4995
E-Mail: Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!

Contact person:
Ms Dorit Meyer (secretariat)


Women are especially encouraged to apply. Applicants with disabilities and equal qualifications will be given preferential treatment. Please send your application only via e-mail as a PDFfile.

Links: http://www.ams.med.uni-goettingen.de/stellen-de.shtml

Master’s Thesis: A human genome-wide CRISPR/Cas9 target database

The Gene Editing Group led by Manuel Kaulich is located at the Institute of Biochemistry 2 of the Goethe-University Frankfurt. We work on the cutting edge of gene editing technologies and employ a variety of  CRISPR/Cas9-associated applications to efficiently perturbate genes in mammalian cells. To intensify our efforts, we seek an ambitious Master’s student in informatics/bioinformatics. We plan to implement a public database that integrates the currently available knowledge on CRISPR/Cas9 target sites in the human genome. The first step will be to evaluate the applicability of available database models, e.g., relational vs. big data systems. Once a suitable model is found, the implementation of the database and the integration of data are the next steps. Depending on the progress of the work the optional last step will be the implementation user-friendly web-based graphical interface. The applicant will join a highly motivated team and benefit from our interdisciplinary environment. Additionally, the successful candidate will have the opportunity to present his/her results in peer-reviewed publications.

Applications including a cover letter, a short CV, and the names and contact details should be adressed as a single PDF file directly to Dr. Manuel Kaulich: kaulich(at)em.uni-frankfurt.de

Links:

https://www.jobvector.de/jobs-stellenangebote/biologie-life-sciences/datenbanken-datenverarbeitung/masters-thesis-a-human-genome-wide-crispr-cas9-target-database-82198.html

https://www.biochem2.com/index.php/19-ibcii/geg/104-frontpage-geg

Postdoc in der Genominformatik gesucht

Für die Technische Fakultät, Arbeitsgruppe Genominformatik, suchen wir zum 01. Januar 2017 in Vollzeit eine/n Wissenschaftliche Mitarbeiterin/ Wissenschaftlichen Mitarbeiter (E 13 TV-L) (befristet)

Ihre Aufgaben:

Die Arbeitsgruppe Genominformatik entwickelt und untersucht effiziente Algorithmen mit Anwendungen in Bioinformatik und Genomforschung. Aktuelle Arbeitsbereiche sind die Analyse von Hochdurchsatzsequenzierdaten und die komparative Genomik.
* Forschungstätigkeiten im Bereich der komparativen Genomik, insbesondere Weiterentwicklung und Durchführung des existierenden Forschungsprogramms für die genfamilienfreie Analyse im Hinblick auf die Detektion und Organisation von syntenischen Bereichen in mehreren großen eukaryotischen Genomen. (75 %)
* Mitarbeit im Rahmen der Lehre und Betreuung von Bachelor- und Masterstudenten (25 %)

Ihr Profil:

Das erwarten wir:
* abgeschlossenes wissenschaftliches Hochschulstudium der Informatik, Bioinformatik oder einer angrenzenden Disziplin
* Promotion in Bioinformatik oder einer verwandten Fachrichtung
Das wünschen wir uns:
* Publikationstätigkeit und Auslandserfahrung
* Erfahrungen bei der Entwicklung von mathematischen Modellen und Algorithmen zur komparativen Genomik, insbesondere zum genfamilienfreien Genomvergleich, zu genomischen Distanz- und Ähnlichkeitsmaßen und zur Detektion syntenischer Bereiche
* Erfahrung bei der Betreuung von studentischen Projekt- oder Abschlussarbeiten

Unser Angebot:

Die Vergütung erfolgt nach der Entgeltgruppe 13 für den öffentlichen Dienst der Länder (TV-L). Die Stelle ist gem. § 2 Abs. 1 Satz 2 WissZeit VG für die Dauer von drei Jahren befristet (entsprechend den Vorgaben des WissZeitVG und des Vertrages über gute Beschäftigungsbedingungen kann sich im Einzelfall eine abweichende Vertragslaufzeit ergeben). Die Beschäftigung ist der wissenschaftlichen Qualifizierung förderlich. Auf Wunsch ist grundsätzlich auch eine Stellenbesetzung in Teilzeit möglich, soweit nicht im Einzelfall zwingende dienstliche Gründe entgegenstehen.

Die Universität Bielefeld legt Wert auf die Entwicklung ihrer Mitarbeiterinnen und Mitarbeiter. Sie bietet attraktive interne und externe Fortbildungen und Weiterbildungsmaßnahmen. Zudem können Sie eine Vielzahl von Gesundheits-, Beratungs- und Präventionsangeboten nutzen. Die Vereinbarkeit von Beruf und Familie hat einen hohen Stellenwert.

Interessiert? Wir freuen uns über Ihre Bewerbung per Post oder E-Mail in einem einzigen pdf-Dokument an Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein! bis zum 02. Dezember 2016. Bitte geben Sie in jedem Fall die Kennziffer: wiss16011 an. Bitte verzichten Sie auf Bewerbungsmappen und reichen Sie ausschließlich Fotokopien ein, da die Bewerbungsunterlagen nach Abschluss des Auswahlverfahrens vernichtet werden. Weitere Informationen zur Universität Bielefeld finden Sie auf unsere Homepage unter www.uni-bielefeld.de

Bewerbungsanschrift: Universität Bielefeld, Technische Fakultät, Prof. Dr. Jens Stoye, Postfach 10 01 31, 33501 Bielefeld

Ansprechpartner: Prof. Dr. Jens Stoye, 0521 106-3852, Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!

Die Universität Bielefeld ist für ihre Erfolge in der Gleichstellung mehrfach ausgezeichnet und als familiengerechte Hochschule zertifiziert. Sie freut sich über Bewerbungen von Frauen. Dies gilt in besonderem Maße im wissenschaftlichen Bereich sowie in Technik, IT und Handwerk. Bewerbungen geeigneter schwerbehinderter und ihnen gleichgestellten behinderten Menschen sind ausdrücklich erwünscht.

Links:
https://gi.cebitec.uni-bielefeld.de
http://www.uni-bielefeld.de/Universitaet/Aktuelles/Stellenausschreibungen/Anzeigen/Wiss/wiss16011.pdf

 

Postdoctoral Fellows in Bioinformatics (ref. PD/16/07)

IRB Barcelona is a world-class research centre devoted to understanding fundamental questions about human health and disease. It was founded in October 2005 by the Government of Catalonia (Generalitat de Catalunya) and the University of Barcelona (UB), and is located at the Barcelona Science Park (Parc Científic de Barcelona).
The Institute’s missions include conducting multidisciplinary research of excellence at the unique interface between biology, chemistry and medicine, providing high-level training in the biomedical sciences to staff, students and visitors, driving innovation through active technology transfer to the benefit of society, and actively participating in an open dialogue with the public through a series of engagement and education activities.

IRB Barcelona seeks

We are seeking two postdoctoral fellows to conduct bioinformatics research on complex human pathologies, including Alzheimer´s disease, in the frame of the ERC funded project SysPharmAD. The main objective of the project is the identification of novel biomarkers in complex pathologies that correlate with clinical outcomes, to monitor the onset and progression of the pathology from very early stages, and to discover combinations of drug targets and chemical compounds able to modify the biology of the disease. For more information about the group, please visit http://sbnb.irbbarcelona.org

Duties

- Analyses and integration of RNA-seq and proteomics data collected from patients and animal models.
- Design and implementation of a systems pharmacology strategy, based on concerted multi-target perturbations, able to monitor and modify the biology of the disease.

EXPERIENCE, KNOWLEDGE, SKILLS & SELECTION CRITERIA

- Education:
  o PhD degree or equivalent in statistics, bioinformatics or computational biology
- Experience:
  o Experience in the analyses of RNA-seq and/or proteomics data
  o Experience in computational network/systems biology modelling will be an asset
  o Remarkable publications record, according to career stage
- Skills:
  o Excellent programming/scripting skills
  o Positive organizational, problem solving and communication skills
  o Fluent spoken and written English

IRB BARCELONA endorses the Requirements and Principles of the European Charter for Researchers,
the Code of Conduct for the Recruitment of Researchers and Open, Transparent, Merit-based
recruitment promoted by the European Commission and follows Equal Opportunities policies.

On 9th December, 2014, IRB Barcelona was awarded the "HR Excellence in Research" logo. This
recognition reflects the commitment of the Institute to continuously improving its human resources
policies in line with the Charter & Code. The Institute works to ensure fair and transparent recruitment
and appraisal procedures.