METABO-OPEN 2 in 2022


15 - 17 June 2022

Statistics & Testimonials

DATE: June 15th – 17th, 2022

Venue: Online!

Host: Fondazione Edmuch Mach, San Michele all’Adige, Italy 


After the success of the first METABO-OPEN Training School, which was followed by more than 100 people with 30 trainees for the hands-on sessions, we now propose a revised second edition of the school, full of new content, in order to implement best practices in managing data and metadata in metabolomics.

On Day 1 there will be plenary lectures concerning tools for data phenotyping and experimental design, workflow for untargeted metabolomics including preprocessing and quality assessment, spectral libraries, metabolite annotation, and identification; lectures on the role and the use of MetaboLights in hosting metabolomics studies, and applied examples of metabolomic studies in grapevine.
During the hand-on Days 2 and 3, reserved for a maximum of 30 trainees, there will be special classes on R and XCMS, MS-Dial, Metabo Analyst, MetaboLights, and metabolite annotations.

The work will be disseminated through the website (, social media (Facebook, Twitter), as well as through webinars.


DAY 1: 15 June 2022

Introductory part I. This part is open to a wider public.

Morning session 9:00 to 12:00 (Central European Time)

Fulvio Mattivi [9.00 – 9.30] Introduction to FAIR data management in metabolomics and actual viticulture and wine science situations. PDF
Éric Duchêne [9.30 – 10.10] How to describe a grapevine experiment and sample metadata. PDF

BREAK 30 min

Pietro Franceschi [10.40 -11.10] Experimental Design.
Marynka Ulaszewska [11.10 -11.50] Untargeted Metabolomic Workflow: from sample preparation to mass spectrometry analysis. PDF

Afternoon session 14:30-16:30 (Central European Time)

Mar Garcia-Aloy [14.30 -15.00] Preprocessing and quality assessment of untargeted metabolomics data. PDF
Marynka Ulaszewska [15.00 -15.30] Spectral Libraries, metabolite annotation and identification. PDF
BREAK 20 min
Pietro Franceschi [15:50 – 16:10] Introduction to Data Fusion.  

Thomas Payne [16.10 -16.30] MetaboLights: the home for metabolomics experiments and derived information. PDF


DAY2: 16 June 2022

Morning session 9:00 to 12:00(Central European Time)

Hands-on activity: A guided walkthrough: a real data analysis task
● Group 1: R and XCMS (Pietro Franceschi, Mar Garcia-Aloy)
● Group 2: GUI/web-based analysis (Panagiotis Arapitsas, Marynka Ulaszewska, Christina Virgiliou)

Afternoon session 15:00-17.00 (Central European Time)

● continuous from the morning session

DAY 3: 17 June 2022

Morning session 9:00 to 12:00 (Central European Time)

Hands-on activity: A guided walkthrough: a real data analysis task
Group 1: Day-life lab activities coaching (Panagiotis Arapitsas) PDF
●Group 2: Annotation and structure elucidation coaching (Marynka Ulaszewska) PDF

Afternoon session 14:30-17.00 (Central European Time)

●Group all: Metabolights uploading (Thomas Payne, Felix Amaladoss, Stefania Savoi)
●Final remarks


Felix Amaladoss | | Software Developer – Metabolights – O’Donovan team: Metabolomics, UK

Panagiotis Arapitsas  | | Fondazione Edmund Mach, San Michele All’Adige, ITALY; University of West Attica, GREECE

Éric Duchêne  | | Food and Environment, INRAE Colmar, FRANCE

Pietro Franceschi | Fondazione Edmund Mach, San Michele All’Adige, ITALY

Mar Garcia-Aloy  | | Fondazione Edmund Mach, San Michele All’Adige, ITALY

Fulvio Mattivi  | | University of Trento, ITALY

Thomas Payne  | | Scientific Database Curator Metabolights – O’Donovan team: Metabolomics, UK

Stefania Savoi  | | University of Turin, ITALY

Marynka Ulaszewska  | | Thermo Fisher Scientific, Milan, ITALY

Christina Virgiliou | | Aristotle University of Thessaloniki, Biomic AUTh, Center for Interdisciplinary Research and Innovation, GREECE


Evaluation of applications will be based on the following criteria:

Postdocs, Ph.D. students, PIs, and bioinformaticians working in metabolomics related to grapevine with a high motivation to spread these good practices learned during the training school.

A maximum of 30 trainees will be selected for the practical parts (day 2 and 3) based on a motivation letter or reason to participate 

The training school is free to attend, but travel expenses will not be reimbursed as the training school will be online.


Pietro Franceschi  |

Stefania Savoi  |