Research Bioinformatician

HT - Human Technopole

Research Bioinformatician

HT - Human Technopole

Milan, Italy

Job description

APPLICATION CLOSING DATE: October 27th 2021

Computational sciences applied to biology and medicine are at the very core of the mission of HT. The Centre for Computational Biology has the goal of developing new mathematical and computational approaches for the analysis and interpretation of medical and biological data. Computational biology at HT is not just about developing new methods for data analysis, but more importantly, also about asking fundamental questions about biology and human health that can be addressed only using computational approaches, from mathematical modelling of dynamical systems to machine learning and Artificial Intelligence.

The Human Technopole is seeking a Research Bioinformatician to work on multi-omic data analysis, including single cell genomics, as part of the Omics Data Analysis and Integration Unit of the Centre for Computational Biology.

This newly created unit will support the data analysis efforts of the research groups in the Centre for Computational Biology. The unit will work with research teams in a collaborative fashion, performing bioinformatics analysis of a variety of data types, ranging from genomic and transcriptomic data, to epigenetics, single-cell profiling and proteomics. The team will rely on data generated by the ‘Data Generation and Experimental Validation’ unit within the Centre, in conjunction with the Genomics Core Facility of HT. The unit will also be involved in the analysis of data generated by external collaborators and publicly available data when required.

The successful candidate will focus, depending on their expertise, on the analysis of one or more of the following data from human samples and model systems:

  • Whole-genome, whole-exome and targeted sequencing;
  • Methylation from arrays and bisulfite sequencing;
  • Single-cell RNA-seq, ATAC-seq and CNV profiling;
  • Single-cell methylation;
  • Integrative analysis of multiple data types.

The successful candidate will have expertise and a strong track record on the analysis of two or more of the data types highlighted above. Importantly, they will have the responsibility of setting up and maintaining reproducible and standardised pipeline for the analysis of the data. Solid programming skills in R and Python, appropriate statistical/mathematical background, familiarity with pipeline development, experimental data quality control, container systems, HPC and Linux systems are also required. The successful candidate will report to the Omics Data Analysis and Integration Unit manager and to the Head of the Centre for Computational Biology.

International candidates, women and members of ethnic minorities are particularly encouraged to apply.

Key tasks and responsibilities:

As Research Bioinformatician in the Omics Data Analysis and Integration Unit of the Centre for Computational Biology the candidate will be responsible for:

  • Maintaining the bioinformatics analysis infrastructure to process the data they are assigned to;
  • Performing state-of-the-art QC and analysis, and communicating their results effectively to others;
  • Using and maintaining reproducible pipelines based on Nextflow and Docker systems;
  • Analysing data from patient samples and model systems and providing results and QC to the relevant researchers in the Centre;
  • Accessing and analysing public datasets that may be relevant to the Centre’s activities;
  • Aiding data sharing and reproducibility of bioinformatics analyses;
  • Ensuring the pipelines and analyses are world-class;
  • Interacting effectively with the other members within the unit with different computational expertise;
  • Working with the Genomics Core Facility and the Data Generation and Experimental Validation unit for data processing;
  • Working closely with the Image Analysis Facility to integrate ‘omics data with imaging if required;
  • Implementing new pipelines for novel technologies in collaboration with other members of the unit and other groups;
  • Closely following technological developments that could benefit the Centre;
  • Participating actively in the overall development of HT core facilities.

Job requirements

  • A bachelor degree in a relevant subject, e.g. computational biology, computer science, physics or a related field of science;
  • +3 years of hands-on experience in bioinformatics applied to next-generation sequencing data, and ideally in two or more of the data types listed above;
  • Documented experience with setting up bioinformatics pipelines and robust standard operating procedures for quality assurance;
  • Experience in the analysis of human samples;
  • Excellent computational skills, outstanding programming abilities and trouble-shooting;
  • Experience with container systems and NextFlow/SnakeMake pipelines is highly advantageous;
  • HPC and Unix systems savvy;
  • Ability to interact effectively with other teams and work synergistically to drive projects forward;
  • Highly organised and meticulous style of working, and problem-solving skills;
  • Fluency in English - HT is an international research institute.

HT offers a highly collaborative, international culture to foster top quality, interdisciplinary research by promoting a vibrant environment consisting of independent research groups with access to outstanding graduate students, postdoctoral fellows and core facilities.

HT is an inclusive employer that fosters diversity and engages systematically to ensure that equal employment opportunities are provided without regard to age, race, creed, religion, sex, disability, medical condition, sexual orientation, gender identity or expression, national or ethnic origin or any other legally recognized status entitled to protection under applicable laws. HT offers attractive conditions and benefits appropriate to a leading, internationally competitive, research organisation that promotes a collegial and open atmosphere.

The Human Technopole Foundation is based in Milan.

Application Instructions

Please apply by sending:

  1. a CV;
  2. a motivation letter in English;
  3. names and contacts of 2 referees.

For any inquiry about the call, please feel free to contact Prof Andrea Sottoriva at andrea@humantechnopole1.recruitee.com (this email address should not be used to send applications).

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