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Stellenangebote

(Bio-)Informatikerin / (Bio-)Informatiker [Ruhr-Universität Bochum]

Die Medizinische Bioinformatik am Medizinischen Proteom-Center sucht zum nächstmöglichen Zeitpunkt:

eine (Bio‑)Informatikerin / einen (Bio‑)Informatiker für die Anpassung / Weiterentwicklung wissenschaftlicher Auswerte-Software für cloud computing.

Die Medizinische Bioinformatik realisiert unter anderem das BMBF-drittmittelgeförderte Service-Center „Bioinformatik der Proteomik – BioInfra.Prot“ des Deutschen Netzwerks für Bioinformatik Infrastruktur (www.denbi.de) und ist beteiligt am Europäischen Proteinforschungskonsortium PURE (http://www.pure.rub.de/) sowie an einem DGUV-geförderten Projekt zur Verifizierung von neuen molekularen Markern für die Frühdiagnose asbestassoziierter Lungentumoren.

Anforderungsprofil:
Sie haben Kenntnisse und / oder Erfahrungen in den folgenden Bereichen der Informatik / Bioinformatik:
•Administration von Linux-Betriebssystemen, Linux Skript-Programmierung
•OpenStack
•Verteiltes Rechnen und Virtualisierung
•Bioinformatik-Algorithmen / Auswerte-Software für Hochdurchsatz- / Omics-Daten

Tätigkeiten:
•Anpassen / Weiterentwickeln von wissenschaftlicher Auswerte-Software aus dem Bereich ‚Bioinformatik der Proteomik‘ für die Benutzung in cloud-Infrastrukturen (z. B. de.NBI-cloud)
•Unterstützung bei der Etablierung der wissenschaftlichen cloud-Infrastruktur (z. B. Anmelde- und Authentifizierungs-Service, Ressourcenverteilung / governance)
•Technische Unterstützung von Wissenschaftlern bei der Anwendung von Auswerte-Software in der cloud

Art der Beschäftigung: Teilzeit
Vergütung: 50% TV-L E13
Zeitraum der Beschäftigung: 15. Mai 2017 – 28. Februar 2018 (Verlängerung des Drittmittelprojekts nach Zwischenevaluierung bis Februar 2020 möglich)

Bewerbungsfristende: Freitag, 31. März 2017 - 23:59

weitere Informationen und Kontakt: https://www.stellenwerk-bochum.de/jobboerse/wissenschaftl-mitarbeiterin-bio-informatikerin-bio-informatiker-bo-2017-02-17-104803

Bioinformatics student project [Schulte lab, Charité, Berlin]

The Schulte lab at the Charité Virchow campus in Berlin is looking for a dedicated bioinformatics student to join us in spring/summer 2017 for the research project

Identifying circRNAs in Neuroblastoma

Scientific background
Circular RNAs (circRNAs) have been found to make up a relevant proportion of spliced transcripts from coding and non-coding genes [1], yet the function of the vast majority of circRNAs is still unclear.Neuroblastoma is the most common extra-cranial solid tumour in childhood. As neuroblastoma is marked by extremely few coding mutations, other defects in the regulatory program of cell proliferation and differentiation can be suspected, potentially involving epigenetics and non-coding RNAs.

Schulte lab
In the Schulte lab at Charité, we use genomics and wet-lab experiments to gain new insights into neuroblastoma. The group consists of physicians, molecular biologists and bioinformaticians working together towards an increased understanding of tumour development.

Project description
The student will develop algorithms for identifying circRNAs from RNA-Seq data and contribute to computational tools for functional annotation of circRNAs. The student will be based at the Charité Virchow campus as part of the interdisciplinary project team and mainly supervised by Dr. Joern Toedling. The project lends itself to becoming a master’s or diploma thesis, in which case it will be reviewed by Professor Schulte (Charité) and a second reviewer from the student’s home university, to be suggested by the student. In case the methods developed by the master student or any of her/his findings are going to be used in a publication, the student will be credited with a co-authorship on that publication. The project is a collaboration between our group at the Charité and Professor Rajewsky (MDC Berlin).

Requirements
A strong interest in non-coding RNAs and some knowledge of next-generation sequencing data processing are required. The student should arrange for staying at least 3 to 6 months full-time in our lab in Berlin.

How to apply?
Please send applications, as well as informal requests, to Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein!.

References
[1]Szabo L, Salzmann J. Detecting circular RNAs: bioinformatic and experimental challenges. Nature Reviews Genetics, November 2016.
[2]Schulte lab: https://paedonko.charite.de/en/research/schulte_lab

 

Postdoc- oder Doktorandenstelle in der Genominformatik an der Universität Duisburg-Essen, Universitätsklinikum Essen (E13, 3 Jahre)

Am Lehrstuhl für Genominformatik des Instituts für Humangenetik ist ab 01.05.2017 die Stelle einer/eines wissenschaftlichen Mitarbeiterin / Mitarbeiters (Entgeltgruppe 13 TV-L, befristet) in Vollzeit zu besetzen. Die Eingruppierung richtet sich nach den persönlichen und tarifrechtlichen Voraussetzungen. Die Beschäftigung ist zunächst befristet vorgesehen. Aufgrund des Wissenschaftszeitvertragsgesetzes bzw. des Teilzeit- und Befristungsgesetzes wird die Vertragsdauer abhängig von den persönlichen Voraussetzungen festgelegt. Es besteht Gelegenheit zur persönlichen Weiterqualifikation z.B. zu einer Promotion, Habilitation oder im Bereich der Forschung zu Algorithmen
für die bioinformatische Datenanalyse auf DNA-Sequenzdaten.

Ihre Aufgaben:
- Forschung zu probabilistischen Algorithmen für die Analyse sehr grosser DNA-Datenmengen
- Auswertung von multi-omics Daten (insbes. Transkriptom-, Exom- und Methylomdaten)
- Wissenschaftliches Publizieren

Ihr Profil:
- Sehr guter Hochschulabschluss (Diplom oder Master) oder Dr. rer. nat. in Bioinformatik oder (theoretischer) Informatik
- Sehr gute Programmierkenntnisse in Python, belegbar durch abgeschlossene Projekte
- Erfahrungen mit dem Python Scientific Stack (z.B. numpy, scipy) oder in C sind hilfreich.
- Sicheres Arbeiten mit der Linux Shell (bash)
- Gute Englisch-Kenntnisse in Bezug auf wissenschaftliche Vorträge und Texte

Die Mitarbeit bei Nebentätigkeit richtet sich nach der Hochschulnebentätigkeitsverordnung des Landes Nordrhein-Westfalen.
Schwerbehinderte Bewerberinnen / Bewerber und Gleichgestellte i.S. des § 2 Abs. 3 SGB IX werden bei gleicher Eignung bevorzugt berücksichtigt.
Die Universität Duisburg-Essen strebt eine Erhöhung des Anteils von Frauen beim wissenschaftlichen Personal an. Bewerbungen von Frauen sind ausdrücklich erwünscht. Frauen werden bei gleicher Eignung, Befähigung und fachlicher Leistung bevorzugt berücksichtigt, sofern nicht in der Person des Mitbewerbers liegende Gründe überwiegen. Die ausgeschriebene Stelle ist grundsätzlich auch für Teilzeitbeschäftigte geeignet.

Bitte senden Sie Ihre aussagekräftigen Bewerbungsunterlagen unter Hinweis auf die Ausschreibungsnummer 387 innerhalb von 2 Wochen nach Erscheinen dieser Anzeige per E-mail an Diese E-Mail-Adresse ist vor Spambots geschützt! Zur Anzeige muss JavaScript eingeschaltet sein! (auch bei Rückfragen).

Links: http://genomeinformatics.uni-due.de

Postdoctoral position - Bioinformatics for Next Generation Sequence Analysis [Braunschweig]

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.


Links:

https://www.helmholtz-hzi.de/de/forschung/forschungsschwerpunkte/bakterielle_und_virale_krankheitserreger/bioinformatik_fuer_infektionsforschung/unsere_forschung/

 

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.

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!).

 

 

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