Schedule

Wednesday, September 20, 2023

Time (CEST)	Session	Presenting author(s)	Title/Event
09:15	Opening Session		Opening Session
09:30	Keynote	Yvan Saeys	Modelling intercellular communication using the NicheNet ecosystem
10:15	Short talk	Christophe Vanderaa	Linear models for single-cell proteomics
10:30	Coffee break		Coffee break
11:00	Short talk	Constantin Ahlmann-Eltze	Analysis of multi-condition single-cell data with latent embedding multivariate regression
11:15	Short talk	Jeroen Gilis	Differential detection workflows for multi-patient single-cell RNA-seq data
11:30	Short talk	Ahmad Al Ajami	Unraveling Immunogenomic Diversity in Single-Cell Data
11:45	Short talk	Michael P Lynch	demuxSNP: supervised demultiplexing of scRNAseq data using cell hashing and SNPs
12:00	Short talk	Silvia Giulia Galfre'	COTAN v2: a Comprehensive and Versatile Framework for Single-Cell Gene Co-Expression Studies and Cell Type Identification
12:15	Short talk	Koen Van den Berge	Assessing differences in cell type/state abundance: compositionality, heteroscedasticity and bias
12:30	Lunch break		Lunch break
13:30	Package demo	Lasse Meyer (room OEHOE)	cytomapper/cytoviewer: R/Bioconductor packages for visualization and exploration of highly multiplexed imaging data
13:30	Package demo	Laurent Gatto (room E2)	The R for Mass Spectrometry initiative: from raw data to identifications and quantitative proteomics data analysis
13:30	Package demo	Marcel Ramos (room E3)	Multi-omic Integration and Analysis of cBioPortal and TCGA data with MultiAssayExperiment
14:15	Keynote	Emma Schymanski	Exploring Environmental Chemical Space in R
15:00	Poster pitches		Poster pitches 1
15:15	Posters		GSK Poster session 1
16:00	Package demo	Rachel Queen (room OEHOE)	SPANIEL: Spatial Analysis: Integrating, Expression data with Location
16:00	Package demo	Philippe Hauchamps (room E3)	CytoPipeline: Building and visualizing automated pre-processing and quality control pipelines for flow cytometry data
16:00	Package demo	Johannes Rainer (room E2)	Spectra: an expandable infrastructure to handle mass spectrometry data
16:45	Short talk	Peiying Cai	DESpace: a sensitive approach to discover spatially variable genes
17:00	Short talk	Mike L Smith	Rarr: A native R reader for Zarr
17:15	Short talk	Annekathrin Silvia Ludt	GeDi - Improving gene set distances accounting for network-based information
19:00	Conference dinner		Conference dinner. Restaurant VOLTA, Nieuwewandeling 2B, 9000 Gent. https://www.voltagent.be

Thursday, September 21, 2023

Time (CEST)	Session	Presenting author(s)	Title/Event
09:00	Keynote	Raphael Gottardo	Modeling spatial transcriptomics data at super-resolution
09:45	Short talk	Bárbara Zita Peters Couto	MoleculeExperiment enables consistent infrastructure for molecule-resolved spatial transcriptomics data
10:00	Short talk	Simone Tiberi	A novel statistical method for single isoform proteogenomics inference
10:30	Coffee break		Coffee break
11:00	Short talk	Benjamin Haibe-Kains	PredictIO: A Package For Meta-Analysis of Immunotherapy Clinical Trials in Cancer
11:15	Short talk	Wassim Gabriel	Access and use the European prediction service for biological data
11:30	Short talk	Pablo Vangeenderhuysen	T.A.R.D.I.S.: Targeted Analysis and Raw Data Integration in Mass Spectrometry
11:45	Short talk	Nina Demeulemeester	msqrob2PTM: differential abundance and differential usage analysis of MS-based proteomics data at the post-translational modification and peptidoform level
12:00	Short talk	Sebastian Lobentanzer	Democratising Knowledge Representation with BioCypher
12:15	Short talk	Fabrício Almeida-Silva	Identification and analysis of gene and genome duplications with the doubletrouble Bioconductor package
12:30	Lunch break		Lunch break
13:30	Package demo	Dario Righelli (room OEHOE)	Differential Accessible Regions analysis of single-cell 10X Genomics multiome data
13:30	Package demo	Tuomas Borman (room E3)	Microbiome data integration workflow for population cohort studies
13:30	Package demo	Federico Marini (room E2)	iSEEing is believing: the iSEE package for efficient, interactive, and reproducible exploration of data
14:15	Keynote	Franka Voigt	Deciphering RNA localization codes via live single-molecule imaging in organoids
15:00	Poster pitches		Poster pitches 2
15:15	Posters		GSK Poster session 2
16:00	Short talk	Aakanksha Singh	Evaluating the efficacy of methodologies for Deconvolution of transcriptional profiles: A benchmarking study
16:15	Short talk	Alexandre Segers	Juggling with offsets unlocks bulk RNA-seq tools for fast and scalable differential usage and aberrant splicing analyses
16:30	Short talk	Leyla Kodalci	Neutralise: an open science initiative for neutral comparison of two-sample tests
16:45	Short talk	Benjamin Hivert	Data fission for post-clustering differential analysis using dearseq
17:00	Discussion		Discussion

Friday, September 22, 2023

Time (CEST)	Session	Presenting author(s)	Title/Event
09:00	Keynote	Isaac Virshup	The scverse project: a computational ecosystem for single-cell omics data analysis
09:45	Birds of a Feather	Tobia De Koninck (room E2)	Shiny app deployment using ShinyProxy
09:45	Package demo	Brian Schilder (room OEHOE)	rworkflows: taming the Wild West of R packages
10:30	Coffee break		Coffee break
11:10	Short talk	Aedin Culhane	Bioconductor boards
11:20	Flash talks		Flash talks
12:00	Lunch break		Lunch break
13:00	Birds of a Feather	Marcel Ramos (room OEHOE)	Bioconductor 4.0: Aspirational anatomy of a computational ecosystem for genomic data science
13:00	Birds of a Feather	Ivo Kwee, Mauro Masiero (room E2)	Comparison of deployment methods for Shiny Apps
14:00	Birds of a Feather	Davide Risso, Helena Crowell (room OEHOE)	Interoperability in the single-cell field
14:00	Birds of a Feather	Jacques Serizay (room E2)	Versioned online books with Bioconductor