PostDoc in Bioinformatics – Epigenomic of Food Allergy Risk (m/f/d)

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Einleitung

 
The mission of the Berlin Institute of Health (BIH) is medical translation: transferring biomedical research findings into novel approaches to personalized prediction, prevention, diagnostics and therapy and, conversely, using clinical observations to develop new research ideas. The aim is to deliver relevant medical benefits to patients and the population at large. The BIH is also committed to establishing a comprehensive translational ecosystem as translational research area at Charité – one that places emphasis on a system-wide understanding of health and disease and that promotes change in the biomedical research culture. The BIH is funded 90 percent by the Federal Ministry of Education and Research (BMBF) and 10 percent by the State of Berlin. The two founding institutions, Charité – Universitätsmedizin Berlin and Max Delbrück Center for Molec-ular Medicine in the Helmholtz Association (MDC), were independent member entities within the BIH until 2020. As of 2021, the BIH has been integrated into Charité as the so-called third pillar; the MDC is privileged partner of the BIH.

The BIH Center for Digital Health is immediately looking for a

PostDoc in Bioinformatics – Epigenomic of Food Allergy Risk (m/f/d)
(fulltime)


We are looking to hire a bioinformatics postdoc to join our interdisciplinary and highly collaborative team. This project will investigate the epigenomic basis of food allergy risk in children from whole genome methylation sequencing data, with the ultimate aim of identifying biomarkers using machine learning.

Most food allergies start in early childhood and lay the tracks towards an allergy career throughout life. We have established the BMBF-funded NAMIBIO project to investigate the early causes and natural history of food allergy enabling us to put forward a meaningful prediction model of food allergy. We will profile samples and validated results in the largest and best-characterized German birth cohort studies providing comprehensive longitudinal, multi-modal datasets including clinical data, demographics, lifestyle, and psychosocial factors.

The position will be in the group of Dr Naveed Ishaque at the Centre for Digital Health at the BIH, where we provide a dynamic, challenging, and rewarding research environment. There will be close collaboration with PIs of the consortium, Prof Irina Lehmann and Prof Roland Eils.

Ihr Aufgabengebiet:

You will be expected to employ appropriate computation approaches to:
  • Process and evaluate the quality of whole genomeDNA methylation sequencing data of cord bloodsamples (e.g. conversion rates)
  • Analyze DNA methylation sequencing data, including supervised differential methylation calling andunsupervised methods (e.g. NMF)
  • Implement machine learning models to identify food allergy related DNA methylation signatures
  • Investigate the role of epigenetic mechanisms in food allergy development with the goal of defining epigenetic biomarkers

Ihr Profil:

  • A PhD in bioinformatics, computer science, physics,biotechnology, immunology or similar is required
  • Experience with whole genome DNA methylationsequencing data (e.g. using tools such as bismark,dss, bissnp, rnbeads) is required
  • Excellent programming proficiency especially in Python, R, Julia, bash or similar is required
  • Good track record of publishing peer-reviewed articles is required
  • Experience with Linux based HPC environments is required
  • Fluent in English (written and spoken) is required
  • Ambitious, self-driven, a thirst for answering scientific questions and aim to build a scientific career inbiomedical data science research
  • Experience working with of omics modalities and epigenome databases/consortia (e.g. ENCODE, ROADMAP, Blueprint, 4DN, genehancer) is desirable
  • Experience with genome-epigenome interactionssuch as DNA methylation QTLs (e.g. GWAS/EWAS, mediation analysis) is desirable
  • Prior research experience in epigenomics of allergyor immunology is desirable
  • Experience with machine learning methods (e.g. over fitting, dimensionality reduction, XAI) is desirable

Wir bieten:

  • A collaborative research environment that en-courages and supports scientific curiosity, innovation, and development of its team members
  • Remuneration according to E13 TVöD VKA-K. Thegrouping takes into consideration the qualifications and the personal circumstances of the candidate
  • Appointment duration until 31.05.2024
  • Family- friendly, flexible working hoursWe

Wir leben Vielfalt:

BIH strongly encourages qualified women to apply. Severely disabled applicants and those with equal status will be given preferential consideration in cases of equal suitability.

Please submit your detailed application, including the job reference number BIH.DM-09.21 as one PDF document until the 12.12.2021 to: recruiting.digitalhealth@charite.de

f you have any questions, do not hesitate to contact Dr. Naveed Ishaque (naveed.ishaque@bih-charite.de)

You can find more information about us and BIH at www.bihealth.org