First Workshop On Pangenomics Algorithms for Omics Data

June 21st, 2019

Univ. Milano-Bicocca. Building U6 – Room Martini.

Theme and scope

Computational Pangenomics wants to produce the computational tools for transitioning from a sequence-based genome to graph-based reference genomes, where variants of huge cohorts are represented in a unified way.

Transcriptomics was the first field where the need of imposing a structure over strings has become clear, leading to the notion of a splicing graph to represent all possible transcripts of a gene, as well as the exon-intron structure.

Genome assemblers are increasingly aware that a diploid organism has two different, but very similar, copies of each genome: hence the correct outcome of an assembly cannot be a single string. Finally, metagenomics studies different species that can share portions of the genome: another example where the correct representation of an assembly cannot be linear. Moreover, the 1000 Genomes project has generated new interest in the analysis of a population genome.

The aim of this  workshop is to bring together researchers from different, but correlated, areas under the widest possible notions of graph-based algorithmic approaches to bioinformatics, such as genome assembly, alternative splicing prediction, metagenomics, graph manipulation and representation, that are involved in the thorough investigation of these problems with both theoretical and experimental approaches.

Please fill in the registration form if you are interested in participating or willing to give a talk.

Confirmed Speakers

  • Iman Hajirasouliha (Weill Cornell Medical College)

Nonexclusive list of relevant topics

  • graph assembly
  • variation graphs
  • de Bruijn graphs
  • string graphs
  • alternative splicing
  • metagenomics
  • the population genome
  • pan-genome graph
  • graph fragment assembly

Venue and accommodation

The workshop will take place in Milano, at the U6 building (Edificio U6). The building is close to the Bicocca underground station (MM5).

Milan is easily reachable by all major European and main international airports.

The suggested hotels are Starhotel Tourist and Hotel Arcimboldi that are both within a 5-minute walk from the workshop site.

Scientific Committee:

Paola Bonizzoni (
Gianluca Della Vedova (
Raffaella Rizzi (

Author: Gianluca Della Vedova