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Postdoctoral Research Associate [Department of Veterinary Sciences, LMU Munich]

The population genomics group at the Department of Veterinary Sciences, LMU Munich, is seeking a Postdoctoral Research Associate at the earliest possible date. The full-time position is limited to 2 years with a possible extension. Payment is according to salary group E13 TV-L. The research focus of the Population Genomics Group is on functional and neutral genetic diversity in livestock populations as the basis for sustainable development in animal breeding. Our functional genomic analyses include the detection of causal mutations behind precisely defined mono- or polygenic phenotypes with regard to production quality and animal welfare as well as domestication research and analyses of genetic diversity in modern and historical samples. Moreover, recently this also implies de novo assembly and functional genomics of non-model organisms.

 

Tasks:


• assistance in current research projects of the working group

• conception and direction of own projects in the research field of the working group including the acquisition

of funding

• assistance in grant writing

• co-supervision of PhD students

• participation in teaching, especially by offering electives from the own area of expertise

 

Requirements:


• a PhD in bioinformatics or a different field (veterinary medicine, animal breeding, wildlife biology or similar)

with strong bioinformatic focus, preferably in the field of animal genetics or population genomics

• experience with software for NGS data analysis, good ability to independently conduct (population) genomic

and bioinformatic/statistical data analyses

• experience with programming and/or scripting languages like R, Python, Java, etc.

• experience with bioinformatic tools used for de novo sequencing and annotation of the mammalian genome

is an advantage but not a prerequisite.

• experience with Bayesian statistics (e.g. ABCtoolbox and/or BEAST) is an advantage but not a prerequisite

• practical experience in molecular genetics lab work is an advantage but not a prerequisite

• experience in publishing in international journals

• fluent language skills in English

 

 

Your workplace is located in the south-west of Munich and easy to reach by public transportation. We offer an interesting and responsible job with good opportunities for further education and personal development. The university is an equal opportunity employer. Handicapped applicants will be given preference in the case of approximately equal qualifications. The  University of Munich is interested in increasing the number of female faculty members and encourages women to apply. Please send your completed application as a single PDF (CV, motivation statement and research experience, record of study, certificates) until end of April 2020 to:

PD Dr. habil. Ivica Medugorac
AG Populationsgenomik
Veterinärwissenschaftliches Department
LMU München
Lena-Christ-Straße 48,
82152 Martinsried/Planegg
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For further information about the position, please contact Dr. Medugorac via e-mail or phone (+49 89 2180 3310).
 

 

 

Postdoc in Computational Biology [HZI Braunschweig]

The Department of Computational Biology for Infection Research at the HZI, led by Prof Dr Alice C. McHardy, is looking for excellent postdocs in computational biology and encourages unsolicited applications.

The goal of our projects is the development of algorithms and computer-aided methods for personalized infection medicine, particularly clinical metaomics, vaccine and drug design, as well as development of core technologies for meta- and other omics analyses. The methods that we develop make use of concepts from machine learning, phylogenetics and population genetics. The lab co-organizes the Critical Assessment of Metagenome Interpretation challenge, hosts the bioinformatics unit of the German Center for Infection Research (https://www.dzif.de), and is well connected to local, national and international partners from medicine, biology and computer science. Notably, the lab is part of the Cluster of Excellence RESIST funded by Deutsche Forschungsgemeinschaft (DFG), carrying out research on infections in order to specifically help people, for whom disease-causing viruses and bacteria are particularly dangerous. The lab’s projects offer plenty of opportunity for an excellent bioinformatics postdoc to shine.

The lab is part of the Helmholtz Center for Infection Research, the Braunschweig Integrated Center for System Biology (BRICS) and Technical University of Braunschweig, Germany. The Helmholtz society is the largest research organization in Germany and ranked 7th among the research institutions in the world. Braunschweig is a centrally located city in Germany, with many scientific institutions, recreational areas, comparably modest costs of living and about 250.000 residents.

Requirements: The candidate should have a PhD degree in bioinformatics, machine learning, biomathematics, computer science, statistics or similar and a competitive publication record. A commitment to reproducible research, the ability to work in a highly interdisciplinary research field and very good programming skills are obligatory. Prior experience in meta’omics, infection research, statistical learning or with the analysis of NGS data sets is advantageous, but not required.

What we offer: In our lab, you will work with an international and highly motivated team. You will have the opportunity to attend and present your work on international scientific conferences. Furthermore, the position offers remuneration and social benefits according to TvöD.

How to apply: Please send your electronic application materials including a letter of motivation, curriculum vitae, copies of your most important publications and addresses of two or three referees referring to code PD/2020 to:

Helmholtz Centre for Infection Research, Dept. of Human Resources
Inhoffenstraße 7, 38124 Braunschweig

or by E-Mail to:

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Links:

Department of Computational Biology for Infection Research: https://www.helmholtz-hzi.de/en/nc/research/research-topics/bacterial-and-viral-pathogens/computational-biology-of-infection-research/team/#anchorsection

 

 

Helmholtz Center for Infection Research: http://www.helmholtz-hzi.de/

German Center for Infection Research: https://www.dzif.de/de

Scientist Bioinformatics (f/m/d)

Immatics is a clinical-stage biopharmaceutical company active in the discovery and development of T-cell redirecting immunotherapies for the treatment of cancer. The Company’s transformative product candidates are Adoptive Cell Therapies and Bispecific TCR molecules. These products are directed against tumor targets that have been identified and validated by Immatics’ proprietary and world-leading XPRESIDENT® technology. Together with Immatics’ powerful TCR discovery technology XCEPTOR®, these two platforms allow a full range of cancer therapies to be developed. Immatics’ pipeline includes T-cell therapy programs based on the proprietary ACTolog®, ACTengine® and ACTallo® approaches, and several proprietary bispecific TCR (TCER®) and antibody molecules. Operating from Tuebingen, Munich and Houston, the Company has recognized that novel, better and safer targets are the key to developing future cancer immunotherapies, and it is Immatics’ mission to deliver the power of T cells to cancer patients. For more detailed information, visit www.immatics.com.   

 

 

We are currently seeking full/ part-time a

 

Scientist Bioinformatics (f/m/d)

 

to support our R&D team to develop innovative immunotherapeutic products for cancer therapy. You will work in Tuebingen in an interdisciplinary environment with colleagues from research and clinical departments.

 

We offer a wide range of responsibilities in the field of NGS-based bioinformatics. Your main responsibilities will include:

  • RNA-seq pipeline development for Immatics’ target discovery platform XPRESIDENT® to improve identification of novel immunotherapeutic HLA Peptides (Fritsche et al. 2018, Proteomics)
  • Inspection and interpretation of NGS data for precision medicine as well as target validation, i.e. elucidation of mechanisms underlying tumor biology (Hilf et al. 2018, Nature)
  • Development of proteogenomics analyses combining NGS (RNA/ Exome sequencing) and mass spectrometry (Zhang et al. 2018, Nat. Commun.)

 

 

Your profile

You hold a master’s degree or PhD in bioinformatics and are proficient in at least one of the following programming languages: Python, Perl, Java, Bash. You are experienced in data analysis, pipeline development and integration of high dimensional omics data. You have knowledge of working in a Linux environment and are familiar with basic biological concepts and bioinformatics tools. Experience with NGS data (RNA or DNA sequencing) is preferred.

 

We expect a high degree of independent working, analytical reasoning and that you take careful processing and documenting of your results for granted. You embrace rapidly changing requirements with an open mind and show a high degree of flexibility in an environment which is marked by a constant striving for excellence. Your motivation is driven by your passion for innovation and science. You approach tasks in a structured, reliable and foresighted manner, combined with an elevated level of individual responsibility, enthusiasm and strong social skills.

 

What we offer

We are a committed and inspired team and cherish the collegial, highly motivated and family-friendly atmosphere within Immatics. Our culture allows for a high level of originality, independent thinking and initiative. We believe in supporting our employees’ professional and social skills: We enable them to join conferences and trainings as well as to enjoy our Immatics benefits.

 

If you’re interested in working for Immatics, please apply online.

Postdoc Position - Computational Biology

We are seeking an innovative and enthusiastic bioinformatician to work with a team of researchers headed by Doctor Ulf Schmitz, in the areas of transcriptomics, RNA biology and cancer. Building on the recent discoveries we are currently investigating the roles of alternative splicing and microRNA-mediated gene regulation in diverse human and mouse cells and tissues. We are also expanding our study to define the interplay between aberrant epigenetic modifications that contribute to splicing abnormalities relevant to cancers. We are committed to support and mentor young investigators to become group leaders in the future.
 
Your main role will be to conduct bioinformatics analyses in collaboration with a team of wet lab researchers for a fixed term, while participating in the activities of Centenary.
 
We are looking for exceptional candidates with:
•        A recent PhD (preferably within the last 1-2 years) or about to be awarded a PhD in the relevant areas of computational biology/ bioinformatics, however more experience investigators will also be considered;
•        Extensive experience in NGS data analysis, pipeline development and algorithm implementation/development;
•        Solid research experience, including first author publications in top journals;
•        Ability to write/contribute to journal articles, grants and keep meticulous notes;
•        Strong interpersonal, written and oral communication skills with an ability to liaise with a diverse range of people
•        A strong team focus; and
•        A demonstrated commitment to Occupational Health and Safety.
 
Desirable:
•        A strong background in statistics and/or application of statistics for data analysis;
•        Familiar with blood cell development and related malignancies, or breast cancers;
•        Experience with systems biology and/or systems medicine workflows
•        A demonstrated ability to supervise junior staff and students.
 
To apply for the role: please email your application to This email address is being protected from spambots. You need JavaScript enabled to view it.
 
Applications must include:
•        A cover letter addressing the essential skills,
•        A detailed curriculum vitae (CV) including academic transcript, and
•        The full contact details of at least three recent professional referees.
 
Applications close: 28 February 2020
 
Centenary Institute of Cancer Medicine And Cell Biology is a centre of excellence in medical research affiliated with the Royal Prince Alfred Hospital and the University of Sydney located at Camperdown.
 
For more information about Centenary please visit our website www.centenary.org.au
The Centenary Institute supports Equal Employment Opportunity. We value diversity and encourage applications from women, Aboriginal and Torres Strait Islanders, people with disability, LGBTIQ individuals and applicants of diverse cultures and ages.    

Links: https://www.seek.com.au/job/40901531?_ga=2.109677312.446191821.1580699994-502531155.1574214385&_gac=1.216190242.1580354302.EAIaIQobChMI--_jw66q5wIVFIWPCh1IAA06EAAYASAAEgLiz_D_BwE

Wissenschaftlicher Mitarbeiter (w/m/d) Bioinformatik

Zur Verstärkung unseres Teams suchen wir zum nächstmöglichen Zeitpunkt einen Wissenschaftlichen Mitarbeiter (w/m/d) Bioinformatik:

Ihre Aufgaben

In dieser Position verantworten Sie die Entwicklung bioinformatischer Prozesse zur Analyse von NGS-Daten für den Nachweis von Fremdviren in Proben aus verschiedenen Prozessstufen. Zu Ihren Hauptaufgaben zählen u.a.:

·         Administration der Linux-basierten Hard- und Software für die Bioinformatik und wissenschaftlichen Software

·         Programmierung bioinformatischer Workflows

·         Design und Entwicklung neuer Algorithmen und Erweiterung bestehender zur taxonomischen Klassifizierung von Viren und anderen Organismen

·         Entwicklung wissenschaftlicher Software zur Unterstützung der Arbeitsgruppen innerhalb des Bereichs Analytical Development

·         Entwicklung von innovativen Konzepten und Technologien

·         Koordination und Kontrolle von Aufgaben im Rahmen von Kunden-Projekten und Kooperationen einschließlich direktem Kundenkontakt

·          

Ihr Profil 

Sie verfügen über ein erfolgreich abgeschlossenes Studium (Diplom, Master; FH) mit Schwerpunkt Bioinformatik oder Biologie sowie Berufserfahrung im relevanten Bereich. Zudem besitzen Sie sehr gute Kenntnisse in LINUX, Programmiersprache (z.B. Python, R), breites Methodenspektrum mit Schwerpunkt NGS sowie Datenbanken. Darüber hinaus können Sie mindestens drei Jahre Berufserfahrung in Methodenentwicklung und im Umgang mit internationalen Kunden auf dem Gebiet NGS vorweisen. Die englische Sprache beherrschen Sie verhandlungssicher. Zu Ihren Stärken zählt eine verantwortungsbewusste, zuverlässige und strukturierte Arbeitsweise sowie ein gutes Organisationsvermögen. Wenn Team- und Kooperationsfähigkeit Ihrem Profil entsprechen, freuen wir uns auf Ihre Bewerbung. (Gern auch via Email an This email address is being protected from spambots. You need JavaScript enabled to view it. )

Links: https://karriere.idt-biologika.com/stellenangebote/stellenanzeige/?stelle=2435845#s:Bioinform;page:1

 

Postdoctoral Fellow - Bioinformatician with experience in biological data analysis

The research group of Wolfgang Huber (www.huber.embl.de) at EMBL works on biological data science and mathematical / computational method development. The interdisciplinary and international team uses statistical data analysis and modelling to discover and understand biological principles and biomedical applications and has strong collaborations with researchers in basic biology and cancer research.

About the project SMART-CARE

The SMART-CARE consortium is a collaboration between EMBL, the German Cancer Research Centre, the University Hospital Heidelberg, Heidelberg University and Mannheim University of Applied Sciences, that aims to develop new systems medicine approaches to battle cancer recurrence, using the integration of proteome and metabolome mass spectrometry approaches with other ‘omics and clinical data. The consortium brings together clinical, mass spectrometry and computational expertise. 

Cancer recurrence is the main determinant of cancer related death and therefore a  major global health problem. The surge of genomic technologies in clinical practice has brought great benefit in disease stratification, however genomic information alone is often insufficient to accurately predict or identify the dynamic process of disease progression. Systematic analyses of proteins and metabolites using mass spectrometry in combination with statistical data analysis and mathematical modelling promise a new generation of biomarkers that could be used to tailor personalized cancer therapy. There is a need to develop and establish powerful and standardizable pipelines for proteome and metabolome analysis in the clinical setting. The aim of the SMART-CARE project is to firmly establish mass spectrometry-based systems medicine technologies and data analysis methods and apply these to predict cancer recurrence across paradigmatic tumor entities and thus improve patient stratification.

Your role

You will be part of the Huber group at EMBL’s Heidelberg site, participate in the SMART-CARE project and shape your own research profile by pursuing research in method development and collaborative analysis of novel datasets. Your activities will comprise the following: 

·       Advanced statistical inference and biological model building: Compare the information content of the different data types, in terms of their ability to map patient and disease heterogeneity, and predict tumor recurrence and treatment response. Use and adapt methods for data integration developed within the group, e.g. the Multi Omics Factor Analysis (MOFA) or further develop state of the art methods from statistical learning.

·       Data-type specific “preprocessing” and feature engineering.

·       Automated data quality assessment / control (QA/QC) and  visualization.

·       Publish computational methods and biological discoveries in scientific articles, and publish scientific software as, e.g., R/Bioconductor packages.

You have

A PhD or equivalent qualification in a quantitative science (mathematics, statistics, physics, computer science, computational biology). We are looking for a range of talents, which should include some of the following: solid training in mathematical statistics, understanding of high-dimensional statistics, machine learning and Bayesian approaches; experience in biological data science and data-driven discovery; scientific programming, and good software engineering skills. Applications from “newcomers” into biology are welcome.

You might also have

You are excited by making or contributing to biological discoveries, you are interested in interdisciplinary science, enjoy collaborative work and like to communicate concepts and results to other scientists in different fields of research. You are interested in understanding and comparing methods in computational biology and in pushing them forward with your own ideas.

 

 

Genomic Data Analysis - Bioinformatician

Location:

Heidelberg, Germany

Staff Category:

Staff Member

Contract Duration:

3 years

Grading:

7

Closing Date:

29 February 2020

Reference Number:

HD01688

EMBL is seeking an expert in Computational Biology to join the Korbel research group in the Genome Biology Unit. The position holder will actively participate in the design, development, and implementation of interoperable workflows and pipelines to enable the analysis of data from the latest genomics sequencing platforms. The post holder will analyse large numbers of clinically relevant human genomes and single cell sequencing data using cloud technologies and high-performance compute clusters.  

Your role

·         Develop new computational workflows and analytical methods for human genome data analysis

·         Design, develop and implement cloud-based workflows for single-cell sequencing protocols such as Strand-Seq and 10X Genomics

·         Integrate tools in pipelines and workflows and optimize their interoperability, efficiency, usability and portability

·         Provide support for cutting-edge research projects of the Korbel group by helping and advising researchers with their experimental design, data analysis and interpretation of results

·         Collaborate and interact with other scientists at EMBL and partner networks (Elixir, de.NBI) in an international, interdisciplinary, and highly collaborative work environment

You have

·         A PhD or equivalent qualification in a quantitative science (Computational Biology, Bioinformatics, Physics, Mathematics or Computer Science) with solid experience in handling large-scale genomics data

·         Strong interest in computational biology and genomics data analysis

·         Programming skills in a scripting language, R and a high-level programming language

·         An interest in cutting-edge molecular biology and its data-generating technologies

·         A basic understanding of molecular genetics and cancer research

·         Strong communication skills as well as the ability to interact with other scientists and to work in an international and interdisciplinary team

You might also have

·         Prior expertise in the application of cloud computing in genomics

·         Practical knowledge in sequencing data analysis, statistics or machine learning

·         Experience in analysing single cell omics/genomics data sets

·         Experience as a software developer or package maintainer for genomics data analysis

·         Knowledge of scientific authoring frameworks, web service development or data management technologies

Why join us

EMBL is an inclusive, equal opportunity employer offering attractive conditions and benefits appropriate to an international research organisation with a very collegial and family friendly working environment. The remuneration package comprises a competitive salary, a comprehensive pension scheme, medical, educational and other social benefits, and the availability of an excellent child care facility on campus. You will be involved in cutting-edge projects and activities and will collaborate with experts from the scientific community and have the possibility to acquire new state-of-the-art skills.  

What else you need to know

The Korbel group at the European Molecular Biology Laboratory (EMBL) combines experimental and computational approaches – including single-cell sequencing technology, genome sequencing, big data analytics, and machine learning – to unravel determinants and consequences of germline and somatic genetic variation. Our group is using bulk as well as single cell-based omics approaches for investigating mechanisms behind complex phenotypes in humans, ranging from common diseases including cancer to ageing. An over-arching theme centers on the formation and selection of germline and somatic genetic variation in health and disease states, in particular genomic structural variation (SV).  

 

PhD position in times series analysis at University of Greifswald

We are looking for a strong candidate to pursue a PhD in time series analysis at the University of Greifswald in the group of Prof. Dr. Joscha Diehl. The project involves joint collaboration with the group of Prof. Dr. Kurusch Ebrahimi-Fard (NTNU, Norway) as well as with researchers from the Greifswald Medical School. The position is for 3 years and involves 2 hours of teaching per week during the semester (SWS).

 Necessary are

- a Master's degree in mathematics, statistics, physics or computer science

- enthusiasm to work with real-life data

- interest in time series analysis from a theoretical perspective

- fluency in the English language

Beneficial are

- programming experience (python, R, ..)

- knowledge of algebra (commutative, noncommutative, representation theory, ..)

- knowledge of statistics

Application deadline: February 28th, 2020.

For the complete announcement, please visit https://diehlj.github.io

For any questions, please contact This email address is being protected from spambots. You need JavaScript enabled to view it..

 

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