PhD opportunity in Computational Biology

PhD opportunity in Computational Biology

Published Deadline Location
4 Mar 3 May Berlin
Are you fascinated by biology and bioinformatics in a dynamic company setting? At LifeGlimmer a PhD position is available on the project TranSYS - Translational SYStemics: Personalised Medicine at the Interface of Translational Research and Systems Medicine and we are looking for a 'Computational Biologist'

Job description

You will become part of the TranSYS multi-partner European Training Network (ETN) under the European Union programme Horizon 2020. The TranSYS project aims at exploiting large and complex datasets to advance Precision (Personalised) Medicine in several disease areas. The project will expand the state of the art on biomarker discovery, improve understanding of disease-specific molecular mechanisms and target identification for optimal diagnostics, disease risk and treatment management, refine data generation and management, thereby leading to improved clinical study design, clinical sampling and more targeted therapeutics. TranSYS brings together international leaders in Preclinical Science & Molecular Medicine, Systems Analytics, and Targeted Therapeutics, from academia and industry. TranSYS will internationalise the participating Early Stage Researchers, and advance emerging research areas, combining wet lab, clinical and Big Data resources with computational and modelling knowhow.

Your responsibilities

  • Developing and demonstrating data mining and A.I. tools to better understand patient heterogeneity and assist patient stratification;
  • Collecting links to online data repositories that offer access-free health-related data;
  • Designing databases for biological data;
  • Design and implementation of a data mining tool to access, collect and harmonise data via APIs (Application Programming Interfaces), to enable the data to be more easily used for further downstream interpretation/analysis;
  • Implementation of an AI algorithm that classifies automatically a specific sample and/or detects a potential misclassification;
  • Undertaking proof of concept case studies comparing DECIPHER CNV data of patients suffering from developmental neurological malformations with ENCODE data, using metabolic liver pathologies;
  • To disseminate your results using the TranSYS network’s information channels.

Specifications

LifeGlimmer

Requirements

  • Master degree or equivalent in Computational Biology, Bioinformatics, Systems Biology, Bio(techno)logy or related field;
  • Solid knowledge of bioinformatics;
  • Basic knowledge of statistics;
  • Experience in discussing results of computational analyses in collaboration with wet-lab scientists;
  • Good programming skills in R or Python and preferably experience in at least one other programming language (Perl, Java, C++);
  • Knowledge of semantic web technologies (XML, RDF, SPARQL) would be an asset;
  • Basic knowledge of AI/Machine Learning algorithms;
  • Database knowledge (SQL, RDF);
  • Familiarity with publicly available biological data resources and exploiting them (by using APIs)
  • Interest in blockchain technology;
  • A pragmatic and solution oriented working style;
  • Enthusiasm for communicating with a multi-disciplinary team of project partners;
  • Solid written and oral communication skills in English. 

Conditions of employment

Fixed-term contract: 3 years.

  • Attractive three years full time PhD position starting latest September 1st, 2020;
  • Participation in an international innovative training network;
  • Flexible working hours;
  • An excellent working atmosphere in a dynamic and multicultural team with flat hierarchies.

Your supervisor would be Prof. Dr. V. Martins dos Santos, Wageningen University/CEO LifeGlimmer and the co-supervisors: Prof. Dr. D. Rozman, University of Ljubljana & Prof. Dr. P. van der Spek, Erasmus University Medical Center Rotterdam.

Employer

LifeGlimmer GmbH – translating science to the public. We are a dynamic SME based in Berlin. We analyse, visualise and model data, focusing on the life sciences and systems biology. We contribute to understand disease and optimise treatments. Our business activities comprise contract research, consulting and training. 

Department

The TranSys project is part of the EU Marie Skłodowska-Curie Innovative Training Network (ITN), which drives scientific excellence and innovation. ITNs bring together universities, research institutes, industry and clinical partners from across the world to train researchers to doctorate level.

Additional information

In case of any question please do not hesitate to contact us: LifeGlimmer GmbH, Markelstr. 38, 12163 Berlin, Phone: +49 30 2062 2038, Email: info@lifeglimmer.com

For your application it is a prerequisite that you must not have resided, worked or studied in Germany for more than 12 months in the 3 years immediately prior to recruitment, not yet have been awarded a doctorate degree, and are within the first 4 years (fulltime equivalent) of your research career.

Interested in applying? Please click the 'apply now' button which will offer an application form. Please fill out according to the prerequisites to apply for this PhD at LifeGlimmer GmbH. 

Specifications

  • PhD; Research, development, innovation
  • Natural sciences; Engineering; Health
  • University graduate
  • T Biologist

Employer

Location

Markelstraße 38, 12163, Berlin

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Application procedure

Furthermore you should bring the willingness to spend parts of your training at other institutions in the TranSYS consortium on secondments. Please send your application including cover letter, CV and any supporting documents directly through the 'Apply' button. Application deadline is March 16th, 2020.

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Application procedure

Application procedure

Furthermore you should bring the willingness to spend parts of your training at other institutions in the TranSYS consortium on secondments. Please send your application including cover letter, CV and any supporting documents directly through the 'Apply' button. Application deadline is March 16th, 2020.

Make sure to apply no later than 3 May 2020 23:58 (Europe/Amsterdam).