EARLY-STAGE RESEARCHER WITH A STRONG BACKGROUND IN MATHEMATICS/PHYSICS NEW!!

The Statistical Inference and Biological Modeling lab @IIGM, headed by Andrea Pagnani, is seeking a highly motivated early-stage researcher with a strong background in mathematics/physics. The Italian Institute for Genomic Medicine (IIGM, www.iigm.it), is located at the FPO IRCCS Candiolo Cancer Institute, (Turin), Italy (www.research.fpoircc.it). The main goal of IIGM is to foster and develop excellence in translational medicine, immunology, genomic research, and education, with a strong focus on cancer. The institute provides high-level scientific education and access to state-of-the-art research facilities.

The core activity of the Statistical Inference and Computational Biology unit is the development of statistical mechanics-inspired computational techniques for the analysis of experimental datasets and in particular for inference problems in complex biological systems.

Research

We encourage applications from talented scientists, who are interested in gaining experience in a growing multidisciplinary and dynamic research environment that integrates expertise in hard sciences such as Physics and Mathematics, and computational biology in the context of large-scale inference from biological sequence data.

Position

The candidate will learn how to combine a variety of advanced statistical methods and tools specifically tailored to the problem of analyzing large datasets of multiple sequence alignment data of coding sequences with the final goal to produce a statistical model of the underlying data set with generative characteristics.

Qualifications and Requirements

• Ph.D. degree in Mathematics, Physics, or related fields;

• Strong programming skills (Python, Julia, C, C++);

• Experience in multivariate statistics and inference;

• Good communication skills and self-motivation;

• Fluent in spoken and written English

Application

To apply for this position please submit:

1. A cover letter (in English) describing research experiences, interests, motivation,

2. An updated Curriculum Vitae.

Other information

Offered contract: 6 months fellowship.

Offered positions: no. 01 - available immediately, the call will remain open until the position is filled

Please send your application,recommendation letter (if available) and curriculum vitae to:
Prof. A Pagnani, email: andrea.pagnani@iigm.it

BIOINFORMATICS TECHNICIAN NEW!!
The Italian Institute for Genomic Medicine (IIGM) is looking for a highly motivated Bioinformatics technician in the Genomic Unit to support data analysis of genomic, epigenetic, and transcriptomic research projects. The unit will also be involved in the analysis of data generated by external collaborators and publicly available data when required. The Unit will benefit from a cutting-edge High-Performance Computing and Data Storage infrastructure, and from close interaction with an expert community of bioinformaticians.
Role
The post will be responsible for developing and maintaining state-of-the-art
bioinformatics workflows for omics data. A key mission will be to ensure the delivery of
computational analyses for large-scale national and international projects. He/She will also be expected to contribute to the development of new methods and the rapid
standardization/implementation of new computational approaches for emerging
technologies. Reproducibility and robustness of bioinformatics analyses, using standardised and modular workflows, will be at the core of this role. The post will also maintain and develop internal relational databases of data generated by the Unit.

Key Tasks and Responsibilities
The Bioinformatics Technician in Genomic Unit will:
• Operate and maintain the bioinformatics analysis infrastructure;
• Implement and run reproducible and robust computational genomics workflows and
pipelines;
• Implement and run workflows to ensure quality control and visualization tools for fast
data assessment;
• Integrate computational genomics workflows with sample tracking infrastructure;
• Contribute to collection and evaluation and quality control of genomic datasets;
• Contribute to, and implement strategies for publicly sharing of genomics data and
project results generated at IIGM;
• Work closely with biologists of the Unit to organize samples' metadata and process
newly generated data
• Constantly optimise computational workflows and maximise cost-effectiveness;
• Closely follow technological developments that could benefit the Genomic Unit.

Requirements:
• Master's degree in a relevant subject (e.g., physics, computational biology, computer
science, bioinformatics, bioengineering or in a related field of the life sciences). Ph.D.is a significant plus.
• Knowledge of programming languages as R, bash, python
• Prior experience in working with NGS, particularly in single-cell and long-read
sequencing is a significant plus.
• Experience in standardised and modular bioinformatics workflows.
• Fluency in English.
• Proven communication and problem-solving skills.
• Ability to present the results in written/oral form.
• Strong interpersonal skills and ability to work in a team.
• Ability to build trust through operating with transparency and creating an open and
positive environment.
IIGM is a private research institute located within the FPO Candiolo Cancer Research center.
The institutional goal is to foster and develop excellence in human genomic research and
education, with special reference to genomic variability in multifactorial diseases, as cancer.
The institute provides high-level scientific education and access to state-of-the-art research facilities (e.g. Illumina, Oxford Nanopore sequencers).
Application
To apply for this position please submit a cover letter in English, describing research experience and motivation, CV in English, and contact information of 2/3 references to: matteo.cereda@iigm.it
The position is available immediately. Salary based on experience.
Bioinformatician in pediatric sarcomas NEW!!
The Italian Institute for Genomic Medicine (IIGM) is looking for a highly motivated and creative Bioinformatician to study the genomic and transcriptomic landscape of pediatric sarcomas under the supervision of Prof Matteo Cereda. The position is in the context of a national Italian multicenter project (SAR_GEN-ITA, ClinicalTrials.gov id:NCT04621201, PI: Prof Franca Fagioli - University of Turin, Regina Margherita Children's Hospital) within the network of the "Associazione Italiana Ematologia Oncologia Pediatrica" (AIEOP).

Research
The main objective of SAR_GEN-ITA is identify the molecular underpinnings
driving sarcoma onset in young patients. To achieve this goal, our research program will
combine genomic and transcriptomic sequencing approaches at bulk, single-cell, and longread levels. Patients will be tracked from the point of diagnosis throughout their treatment with data including longitudinal and multi-tumour site sequencing. The research will include (1) applying bioinformatics approaches to define the clonal evolution of pediatric sarcomas; (2) identifying molecular markers for use in clinical laboratories, especially in light of RNAbased therapeutics; and (3) developing a system for linking clinical information, treatment history, cancer genomes and histopathological records of well-characterised tumours.

Role
The post holder will be responsible for the analysis and integration of multi-omic nextgeneration sequencing of hundreds of pediatric sarcomas. He/she will contribute to the development of algorithms to decipher clonal evolution, intra-sample heterogeneity, driver alterations of these tumours. He/She will design of strategies to identify biomarkers of cancer progression/therapy response. He/she will be responsible for linking genomic data with clinical and treatment information of the patients. A key mission will be to ensure the delivery of computational analyses to identify actionable targets generated by alternative splicing defeats. To achieve these goals, the candidate will also be expected to contribute to the development of new algorithms and bioinformatics approaches. Robustness and reproducibility of bioinformatics analyses will be at the core of this role.

Requirements
• Master's degree in a relevant subject (e.g., physics, computational biology, computer
science, bioinformatics, bioengineering or in a related field of the life sciences). Ph.D. is a significant plus.
• Knowledge of programming languages as R, bash, python
• Prior experience in working with NGS, particularly in single-cell and long-read
sequencing is a significant plus.
• Experience in standardised and modular bioinformatics workflows.
• Ability to present the results in oral presentations at meetings and in publications in top ranked journals relevant to the field.
• Ability to report research progress on a regular basis
• Fluency in English.
• Proven communication and problem-solving skills.
• Strong interpersonal skills demonstrated by the ability to gain the assistance and
cooperation of others in a team endeavour.
• Ability to build trust through operating with transparency and creating an open and
positive environment.
• Commitment to oncological research

IIGM is a private research institute located within the FPO Candiolo Cancer Research center.
The institutional goal is to foster and develop excellence in human genomic research and
education, with special reference to genomic variability in multifactorial diseases, as cancer.
The institute provides high-level scientific education and access to state-of-the-art research facilities (e.g. Illumina, Oxford Nanopore sequencers). Further information on the CGB laboratory are available at: http://www.ceredalab.com/

References
Del Giudice M. et al., Cell Reports (2022); Lauria A., Peirone S., Del Giudice M. et al., Nucleic Acid Research (2020); Cereda M., Gambardella G., Benedetti L., et al., Nature Communication (2016).
Application
To apply for this position please submit a cover letter in English, describing research experience and motivation, CV in English, and contact information of 2/3 references to: matteo.cereda@iigm.it
The position is available immediately.