E-MUSE
Complex microbial Ecosystems MUltiScale modElling:
mechanistic and data driven approaches integration
Closed for Applications
JOB DESCRIPTION
Title
Early Stage Researcher (ESR7)
PhD fellowship in network-based approaches for multi-omics data analysis
Project Title
“E-MUSE Complex microbial ecosystems multiscale modelling: mechanistic and data driven approaches integration” MSCA-ITN-2020 European Training Network
Hosting Organization
Alma Mater Studorium – Universita di Bologna (UNIBO),
Via Zamboni 33, Bologna 40126, Italy
Researcher Profiles
ESRs
Research Field
Applied physics, systems biology, network theory, data analysis
Application Deadline
30th June 2021 23:59 - Europe/Brussels
Envisaged Job Starting Date
01.11.2021
Duration
3 years
Contract Type
full-time employment (based on COVID-19 evolution and restrictions, possibility to start remotely, once situation allows the presence is required)
Remuneration
€3 413.88 gross salary/month
+ €600 gross mobility allowance/month and €500 gross family allowance/month (if applicable)
Taxation and Social (including Pension) Contribution deductions based on National and company regulations will apply.
Objectives
The objective of the research project is the integration and embedding of multi-omics data into a Systems network framework, and to develop new advanced statistical and mathematical methods (based on Machine Learning and Network Theory) for integrated analysis of multiple omics datasets to characterize complex microbial ecosystems. The ESR will deal with omics experimental data and combine them with relevant information about bacterial and metagenomics networks (e.g. protein interaction, biochemical pathways, metabolic networks). Starting from these reconstructed networks, several methods will be applied to identify key players (nodes, pathways, communities) related to the experimental conditions studied.
Expected Results
It is expected to clarify the relationships between different omics measurements, and to identify the key players with a relevant role in the studied processes (i.e. a signature or a subnetwork community), or to rank the different network elements based on their structural and functional role (prioritization). These network-based techniques will be combined with the basics of Machine Learning for the pursued research aims: multivariate linear and nonlinear regression, feature extraction, clustering and classification.
Planned Secondments
In total, 2 months will be spent at Vrije Universiteit Amsterdam in Netherlands (systems modelling), 2 months at Agencia Estatal Consejo Superior Deinvestigaciones Cientificas in Spain (systems modelling) and 2 months at the Szegedi Tudomanyegyetemusz in Hungary (data analysis through artificial intelligence models).
Enrolment in Doctoral degree
Alma Mater Studorium – Universita di Bologna (UNIBO) (https://www.unibo.it/en)
Requirements
Required Education Level
The candidate is required to have a master degree in Physics, Computer science, Mathematics, Statistics or related fields giving access to PhD school and NOT to have any kind of PhD degree. Previous research experience (which must be no longer than 4 years) although appreciated, is not mandatory.
Skills / Qualifications
• networking and good communications skills (writing and presentation skills)
• willingness to travel abroad for the purpose of research, training and dissemination
• good skills in programming of high-level languages like Python, R, Matlab (not mandatory but highly recommended)
Specific Requirements
For the eligibility please check: Eligibility Criteria
Required Languages
English: B2, good oral and written communication skills in English are compulsory
Supervisors Team
Host Institution Description
The Alma Mater Studiorum, (https://www.unibo.it/it) the oldest university in the Western world, paves the way for innovation through an increasingly rich programme catalogue, cutting-edge research and a constant and increasingly broad international perspective.
Since its origins in 1088, Alma Mater has been student-centred hosting prominent figures from science and the arts. Based in five campuses (Bologna, Cesena, Forlì, Ravenna, Rimini), with a branch in Buenos Aires, it offers a teaching catalogue diversified and tailored to the needs of present-day society: over 200 degree programmes among its 32 Departments and 11 Schools are offered to over 81,000 students. 5,000 graduates are enrolled in PhDs and 3rd cycle programmes.