Hopital Saint Louis
1 Avenue Claude Vellefaux
Job description summary
The research group of Pr. Vassili Soumelis (Inserm U976, Paris, France) is seeking 4 degree-qualified computational scientists. The 4 bioinformaticians will be dedicated to System Immunology studies apply to human diseases in the frame of fundamental and translationnal research projects. These include two ambitious european projects : 1) the ImmuAID H2020 European Project on multi-omics based classification of autoinflammatory diseases, 2) the ImmuCAN IMI project (Innovative Medicines Initiative) involving academia/industry partnerships to unraveled the immune micro-environment in haman cancer.
Projects will be developped under the supervision of Pr. Vassili Soumelis. The aim of the team is to improve the understanding of complex inflammatory and immune reactions, as well as basic mechanisms of signal integration and cell behavior.
His research group is integrated in the newly created INSERM Unit U976 HIPI: “Human Immunology, Physiopathology and Immunotherapy” at the St Louis Research Institute in the world-renowned Hôpital Saint Louis (Paris, France) in a both cultural and scientific rich environment. Hôpital Saint Louis is located in the heart of Paris, in the very lively and dynamic neighbourhood of Republique and canal Saint Martin. Hôpital Saint Louis hosted Pr Jean Dausset, a pioneer in Hematology and Immunology who received the Nobel prize in Medicine in 1980 for the discovery and characterisation of the genes making the major histocompatibility complex. The research campus is part of the Université Paris Diderot (Paris-Sorbonne-Cité) and hosts the headquarters of the European School of Haematology. The Immunology Unit includes 10 independent reasearch teams in the fields of basic and applied immunology, working in a collaborative and international environment.
The team offers the opportunity to expand and develop your career in an exciting professional environment promoted by an open culture and a spirit of community. The site has active seminar program and hosts regular training sessions in molecular and cellular biology. An active association for graduate and post-graduate students ‘Adelih’ is based on the research campus.
The 4 open positions are in line with recent developments at the interface between Immunology, Bioinformatics and Systems Biology (Cappuccio et al. Nat Comm 2015; Michea et al, Nat Imm 2018).
The projects aim at studying molecular regulation and related functions of immune cells in pathological context such as cancer, allergy and rare inflammatory diseases. To address these challenging questions, we are seeking 4 candidates for the 4 following projects:
1- Multivariate modelling of immune cell communication: Integrative biology and mathematical modeling of human T helper cell differentiation, systems level combinatorial analysis of signal integration.
2- Single cell RNAseq Project: Dissection of immune cell diversity and function in the context of cancer and infectious diseases from exploiting fresh human ex vivo samples in multidisciplinary context.
3- Multi-omic data integration in human disease (ImmuAID, and ImmuCAN): Integration and analysis by computational approaches of multi-omics data such as bulk and single cell RNAseq transcriptomic data, secretome/proteome, and WES coming from cells/tissues obtained from human samples to classify rare inflammatory diseases.
4- Theoretical disease modelling: multiscale mathematical modelling of auto-inflammatory diseases exploiting original disease knowledge maps: project will be performed in collaboration with medical doctors.
• Development of high-quality tools for data analysis, quality control and automatic processing
• Research and development of novel algorithms and techniques for data analysis and visualization
• Pathway analysis: functional high-throughput data analysis and computational approaches
• Integrate methodological and biomedical aspects to address challenging questions
• Working with researchers and medical doctors in interdisciplinary project teams to explain the results of your analysis
• Presenting your results and reporting
• Master or PhD in bioinformatics, mathematics, computer science, or related field
• Expertise in data science, machine-learning, computational life science, computer science, computational biology, applied mathematics or statistics
• Demonstrated strong programming skills in at least one programming language, e.g. Matlab or R
Desirable Knowledge, skills and abilities:
• Some knowledge in immunology is not mandatory but would be appreciated
• Knowledge in approaches for high-throughput data analysis, statistical modeling, and classification
• Knowledge of databases (i.e. pathway databases) and experience with high-performance computing environments
• Scientific rigor and excellent analytical and synthetic capabilities.
• Dynamic personality with passion for innovation and problem-solving
• Excellent interpersonal and communication skills and the initiative to actively communicate with data producers and data users in an interdisciplinary environment
• Ability to work independently and well-organized in a fast-paced work environment
• Good proficiency in English
The 4 positions will be funded for 24 months with possibility for extension.
Precise salary will depend on past experience of the candidate.