BrainOmics 2.0

Computational approaches to single-cell multi-omics in neuroscience

Categoria: Corso / Workshop

Luogo: Human Technopole, Milan - In presenza

Iscrizioni entro: 30/08/2024

Data: 18/11/2024 - 22/11/2024

Costo: 700 € (Academic), 1500 € (Industry)

Target: The course is open to up to 20 scientists. Participants are expected to be mostly bioinformaticians and computational biologists with expertise or interest in neurobiology and (at least) a basic knowledge of omics techniques. The fee includes all costs related to the on-site activities (including a workstation for each participant), and meals.

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BrainOmics 2.0 represents a unique interdisciplinary hands-on course on single-cell multi-omics computational analysis with a focus on the brain and its disorders and builds on the experience of the 2022 edition, with the addition of integrative sessions on functional genomics.  

Single-cell omics technologies are breaking new ground in neurobiology by substantially increasing the precision and resolution with which the complex cell populations of the nervous system can be characterised. Approaches that profile several layers of information (genome, epigenome, transcriptome, proteome, spatial location) allow to generate data of unprecedented depth on the molecular state of the diversity of cells composing the nervous system.

This increase in data volume and complexity generates as many opportunities as new analytical challenges.

This compact course aims at empowering participants in mastering key computational tools for the analysis of single-cell omics datasets, starting from individual molecular layers to then tackle their integration, alongside providing a theoretical overview of the impact of these technologies at the leading edge of neurobiology.

Target audience

This course is aimed at bioinformaticians and computational biologists with expertise or interest in neurobiology and (at least) a basic knowledge of omics techniques.

The core of the course will be centred around hands-on data analysis sessions. A basic understanding of Unix command line, Python and/or R is required. Previous experience with single-cell analytical workflows will be considered as an added value to harness the most from the course training sessions.

HT Scientific Organisers

Speakers & Instructors

  • Nicolò Caporale
    Postdoctoral Associate, Neurogenomics, HT - Instructor
  • Davide Castaldi
    Postdoc, Neurogenomics, HT - Instructor
  • Cristina Cheroni
    Senior Manager - Cell Reference Brain Atlas Scientific Service Unit, Neurogenomics, HT - Organiser & Instructor
  • Rebecca Hodge
    Assistant Investigator, Allen Institute for Brain Science (US) - Speaker
  • Chung Chau Hon
    Group Leader, RIKEN Centre for Integrative Medical Sciences (JP) – Speaker + Instructor
  • Joshua Levin
    Group Leader, Broad Institute of MIT & Harvard (US) - Speaker
  • Chong Li
    Postdoc, Institute of Molecular Biotechnology (AT) – Speaker & Instructor
  • Sten Linnarsson
    Professor, Karolinska Institutes (SE) - Speaker
  • Joakim Lundberg
    Professor, SciLifeLab (SE) – Speaker
  • Ahmed Mahfouz
    Assistant Professor, Leiden University Medical Center (NL) – Speaker & Instructor
  • Valeriya Malysheva
    Group Leader, VIB-UAntwerp Center for Molecular Neurology (BE) - Speaker
  • Benedetta Manzato
    PhD Student, Leiden University Medical Center (NL) - Instructor
  • Gaja Matassa
    Affiliate PhD Student, HT - Instructor
  • Nikolaus Rajewsky
    Scientific Director, Berlin Institute for Medical Systems Biology, and Group Leader, Max Delbrück Center for Molecular Medicine (DE) – Speaker
  • Nenad Sestan
    Professor & Executive Director of the Genome Editing Center, Yale School of Medicine (US) - Speaker
  • Genevieve Lauren Stein-O’Brien
    Assistant Professor, Johns Hopkins University - School of Medicine (US) - Speaker
  • Alessia Valenti
    PhD Student, HT - Instructor
  • Emanuele Villa
    Senior Staff Scientist, HT - Instructor
  • Alessandro Vitriolo
    ​Affiliate Scientist, HT - Instructor

Main Topics

Lectures: impact of multimodal approaches on neurobiology research; spatial transcriptomics; single-cell omics; long non-coding RNAs; innovative computational approaches for multi-omics data analysis; integrative biology; spatial transcriptomics approaches in neuroscience; CRISPR-based approaches for perturbation experiments.

Computational hand-on sessions: key steps and troubleshooting in the analysis of single-cell transcriptomics data; advanced computational approaches to single-cell RNA-seq data; analysis of spatial transcriptomics data; analytical workflow for single cell ATACSeq and multi-omics data integration; analytical approaches to CRISPR perturbation data.

Fees include

  • Participation in all lectures, practical sessions, tutorials, and seminars
  • Personal working station
  • All meals provided during the course, including dinners if scheduled in the programme
  • Onsite transport

Fees do not include accommodation and travel.


Courses and conferences are supported by institutional and external funding; sponsorships are welcome. Become a sponsor here!


Image credits: Aurelio Ortale, Oliviero Leonardi (Testa Group, HT)