Location: at Biozentrum, Basel.


Conference agenda
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Monday 8 September
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Registration for the tutorial & workshops
08:15 - 09:00 -
Tutorials & workshops
09:00 - 16:15The tutorials and workshops take place at the Biozentrum in Basel.
Check out the full list.
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Registration for the conference
16:00 - 17:00 -
Conference opening
17:00 - 18:15Session chairs: David Gfeller and ??
Room: Montreal- 17:00 – 17:15
Welcome words
- 17:15 - 18:15 KEYNOTE SPEAKER
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Serena Nik-Zainal (University of Cambridge, UK)
- 17:00 – 17:15
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[BC]2 Welcome apéro & dinner
18:45 - 22:30The welcome dinner will take place at bambusnest, where we will be honoured to have [keynote] delivering an official speech.
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Tuesday 9 September
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Registration
08:00 - 08:30 -
Parallel session 1
08:30 - 10:00-
Track A: Bioinformatics in infectious diseases
Session chairs: Emma Hodcroft and Jacques Fellay
Room: Singapore- 09:15 - 09:45 INVITED SPEAKER
Comparative analysis of spatially resolved transcriptomics data
Aurélie Cobat (Institut Imagine | INSERM, Paris) - 09:45- 10:30 SELECTED TALKS (3x15')
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- 10:30 - 10:45 SELECTED POSTER PITCHES (3x5')
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- 09:15 - 09:45 INVITED SPEAKER
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Track B: Precision medicine: harnessing big data for cancer and other complex diseases
Session chairs: Charlotte Ng and Valentina Boeva
Room: Montreal- 09:15 - 09:45 INVITED SPEAKER
Multi-modal data integration for tumor biology and predictive models
Sohrab Shah (Memorial Sloan Kettering Cancer Center, US) - 09:45 -10:30 SELECTED TALKS (3x15')
Adipose tissue signature in large-scale human obesity cohort
Adhideb Ghosh (Functional Genomics Center Zurich, ETH Zurich, CH)
Causes and consequences of telomere shortening: a mendelian randomisation study
Samuel Moix (Department of Computational Biology, University of Lausanne, CH)
Can mutations in the non-protein-coding “Dark Matter” of our genome drive tumorigenesis? Insights from 16,000 Genomics England tumours
Sunandini Ramnarayanan (University College Dublin, IR) - 10:30 - 10:45 SELECTED POSTER PITCHES (3x5')
Computational approaches to deconvolve the tumor micro-environment using ATAC-Seq data.
Aurélie Gabriel (Ludwig Institute for Cancer Research, University of Lausanne, CH)
Decoding the collective impact of cancer genomic alterations
Arvind Iyer (Department of Computational Biology, University of Lausanne, CH)
Charting the hterogeneity of colorectal cancer consensus molecular subtypes using spatial transcriptomics
Alberto Valdeolivas (Roche Pharma Research and Early Development, CH)
- 09:15 - 09:45 INVITED SPEAKER
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Coffee break
10:00 - 10:30 -
SIB Bioinformatics Awards and Remarkable Outputs recognition
10:30 - 12:00Session chair: Luciano Cascione
Room: MontrealTo promote excellence and innovation in bioinformatics and computational biology, SIB established the Bioinformatics Awards in 2008 to recognise international early-career bioinformaticians and impactful resources. Additionally, since 2019, the SIB Remarkable Outputs programme annually highlights up to 10 notable contributions from members, enhancing the visibility and importance of bioinformatics.
- 10:30 – 10:50
PhD Paper Award
Announcement of awardee and presentation of paper
- 10:50 – 11:10
Early Career Award
Announcement of awardee and presentation of research
- 11:10 – 11:30
Innovative Resource Award
Announcement of awardee and presentation of resource - 11:30 - 12:00
SIB Remarkable Outputs
Shot presentation of each output
- 10:30 – 10:50
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Lunch
12:00 - 13:30-
Informal session with Elisabeth Bik (for students only)
- 13:30 - 14:00
Exclusively tailored for students, this informal session presents a rare opportunity to engage with renowned keynote speaker, Elisabeth Bik. Limited spots will be allocated through a lucky draw; selected students will receive a special card during registration. Seize this unique chance to interact, exchange ideas, and gain insights in a relaxed lunchtime atmosphere.
- 13:30 - 14:00
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'Charting the Future: AI in Precision Medicine and Career Opportunities' by Novigenix
The company Novigenix will hold a presentation at the 'Boost your career' corner, from 13:30 until 14:00.
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Spotlight on scientific innovations & research advancements in industry
12:45 - 13:15Discover how to transform an academic project into a successful start-up. Experts and entrepreneurs will share their experiences on key aspects such as intellectual property management, business models, legal considerations, and securing funding. This session features key stakeholders from intellectual property offices, incubators, funding agencies, and successful bioinformatics start-ups, providing practical guidance and real-world case studies.
Presenters:
- Riccardo Dainese, CEO and Co-Founder, Alithea Genomics
- Daniel von der Mühll, Executive director, PHRT
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Parallel session 2
13:30 - 15:00-
Track A: Proteins in 3D: the dynamics of protein structures and their interactions
Session chairs: Xavier Deupi and Torsten Schwede
Room: Singapore- 14:00 - 14:30 INVITED SPEAKER
Dynamic, global snapshots of the structural proteome to detect functional and pathological alterations
Paola Picotti (Institute for Molecular Systems Biology, ETH Zurich, CH)
- 14:30 - 15:15 SELECTED TALKS (3x15')
Machine-learning based CVs and OneOPES: the right ingredients for a path-less sampling of protein conformational change?
Simone Aureli (University of Geneva, CH)
Covalent Protein-Ligand Docking with Attracting Cavities
Mathilde Goullieux (SIB Swiss Institute of Bioinformatics, CH)
DeepTMHMM predicts alpha and beta transmembrane proteins using deep neural networks
Felix Teufel (University of Copenhagen, DK) - 15:15 - 15:30 SELECTED POSTER PITCHES (3x5')
Challenging the current view on protein prenylation in T helper cells using experimental data and information on protein 3D structures
Jana Koch (SIAF, University of Zurich,CH)
AlphaFold-based discovery of novel protein interaction interfaces
Chop Lee (Institute of Molecular Biology, DE)
Automated benchmarking of protein-ligand complex prediction
Xavier Robin (SIB Swiss Institute of Bioinformatics, CH)
- 14:00 - 14:30 INVITED SPEAKER
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Track B: Methods in single-cell data analysis: from pre-processing to biological inference
Session chairs: Santiago Carmona and Marianna Rapsomaniki
Room: Montreal- 14:00 - 14:30 INVITED SPEAKER
Deciphering intrinsic and extrinsic determinants of cell fate at single-cell resolution
Dominic Grün, (Institute of Systems Immunology, University of Würzburg, DE) - 14:30 - 15:15 SELECTED TALKS (3x15')
Semi-supervised integration of single-cell transcriptomics data with STACAS
Massimo Andreatta (Ludwig Centre for Cancer Research, University of Lausanne, CH)
scAbsolute: measuring single-cell ploidy and replication status
Michael Schneider (University of Cambridge, UK)
CanSig: discovery of shared transcriptional states across cancer patients from single-cell RNA sequencing data
Florian Barkmann (ETH Zürich, CH)
- 15:15 - 15:30 SELECTED POSTER PITCHES (3x5')
Metacells facilitate the analysis of single-cell multiomics data
Léonard Hérault (Ludwig Institute for Cancer research, University of Lausanne, CH)
A probabilistic framework for parametrizing RNA velocity fields with manifold-consistent cell cycle dynamics
Alex Lederer (EPFL, CH)
Generalizing fate mapping to multi-view single-cell data
Philipp Weiler (Technical University Munich, DE)
- 14:00 - 14:30 INVITED SPEAKER
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Poster session 1 and coffee break
15:00 - 16:30Browse our Poster Gallery to see who will present – on-site and virtually – and get in touch with your fellow scientists to discuss your and their latest research projects in front of the poster. Download list of posters
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Keynote lecture (16:30 - 17:15)
16:30 - 17:15Session chairs:
Room: MontrealPeer Bork (EMBL Heildelberg, Germany)
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Wednesday 10 September
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Parallel session 3
08:30 - 10:00-
Track A: Dynamics of immune processes: from responses to pathogens to immunotherapy
Session chairs: Marija Buljan and Adrian Egli
Room: Montreal- 08:30 - 09:00 INVITED SPEAKER
The power of ONE: Immunology in the age of spatial and single cell genomics
Ido Amit (Department of Immunology at the Weizmann Institute, IL) - 09:00 - 09:45 SELECTED TALKS (3 x 15')
A trans-ancestry genomics-based approach to the identification and interpretation of host immune response to sepsis
Serghei Mangul (University of Southern California, US)
Machine learning predictions of MHC-II specificities reveal alternative binding mode of class II epitopes
Julien Racle (University of Lausanne, CH)
Identification of HIV broadly neutralizing antibodies using a Deep Language Model
Chiara Rodella (Institute of Biochemistry and Molecular Medicine, University of Bern, CH) - 09:45 - 10:00 SELECTED POSTER PITCHES (3x5')
Transcriptome-based classifier identifies tumor CD8 T cell immunophenotype and predicts clinical outcome
Iakov Davydov (Roche Pharma Research and Early Development, CH)
GeneSelectR: A Machine Learning-Based R Package for Enhanced Feature Selection and Biological Assessment in RNAseq Analysis of Complex Biological Datasets
Damir Zhakparov (Swiss Institute of Allergy and Asthma Research, SIAF)
A multiomic single-cell landscape of intratumoral lung NK cells
Clara Serger (Department of Biomedicine, University of Basel, CH)
- 08:30 - 09:00 INVITED SPEAKER
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Track B: Deciphering ecology and evolution with creative genomics approaches
Session chairs: Claudia Bank and Roman Arguello
Room: Singapore- 08:30 - 09:00 INVITED SPEAKER
From so simple a molecule, endless forms most beautiful are monitored
Kristy Deiner (Dep. of Environmental Systems Science, ETH Zurich, CH) - 09:00 - 09:45 SELECTED TALKS (3x15')
Association study of genetic variation and spectroscopic imaging variants
Cheng Li (University of Zurich, CH)
Evolution of chemosensory tissues and cells across ecologically diverse Drosophila
Bastien Saint-Leandre (Department of Ecology and Evolution, University of Lausanne, CH)
Nanopore squiggle analysis for environmental monitoring
Lara Urban (Helmholtz AI, DE)
- 09:45 - 10:00 POSTER PITCHES (3x15')
The evolution of ant crop milk proteins over independent gains of a social transfer behavior
Marie-Pierre Meurville (University of Fribourg, CH)
Scoary2: Rapid association of phenotypic multi-omics data with microbial pan-genomes
Thomas Roder (University of Bern, CH)
The Swiss Pathogen Surveillance Platform – a nation-wide One-health sequencing data platform
Adrian Egli (University of Zurich, CH)
- 08:30 - 09:00 INVITED SPEAKER
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Coffee break
10:00 - 10:30 -
[BC]2 Highlights
10:30 - 12:00Session chairs: Katja Bärenfaller and ??
Room: MontrealTitle
Name presenter (Institution, CH)
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Name presenter (Institution, CH)
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Name presenter (Institution, CH)
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Name presenter (Institution, CH)
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Name presenter (Institution, CH)
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Lunch
12:00 - 13:30 -
From academia to industry: launching your bioinformatics startup
13:00 - 14:15Session chairs: Abdullah Kahraman, Elif Özkırımlı and Vincent Zoete
Room: Montreal- 13:00 - 13:10 Clément Parisato, Legal & Technology transfer, SIB Swiss Institute of Bioinformatics
Ensuring successful Academic-Industry Partnerships through balanced contractual frameworks
+ 5' Q&A - 13:15 - 13:25 Thomas Martignier, Innosuisse
Moving the world with Swiss innovation
+ 5' Q&A - 13:30 - 13:40 Oliver Hartley, University of Geneva
CTI/Innosuisse support for protein and peptide innovation: views from either side of the academia/industry divide
+ 5' Q&A - 13:45 - 13:55 David Dylus, Roche
The Immunology Incubator: A close collaboration with academic experts that benefits academia and industry
+ 5' Q&A - 14:00 - 14:10 Natasha Glover, SIB Swiss Institute of Bioinformatics
Pioneering Partnerships: Insights and Best Practices from Academic-Industry Collaborations in Crop Science
+ 5' Q&A
Start-up case studies
- 13:00 - 13:10 Clément Parisato, Legal & Technology transfer, SIB Swiss Institute of Bioinformatics
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Poster session 2 and Bier&Bretz'n
14:15 - 15:45Browse our Poster Gallery to see who will present – on-site and virtually – and get in touch with your fellow scientists to discuss your and their latest research projects in front of the poster.
Download list of posters
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Closing session
15:45 - 17:00Session chairs: Katja Bärenfaller and David Gfeller
Room: Montreal- 15:45 – 16:45 KEYNOTE SPEAKER
title
Keynote speaker (institution)
- 16:45 - 16:50
Artwork prize
Presented by xxxxx, poste,company - 16:50 - 17:00
Poster prizes - 17:00 - 17:10
Closing words
Christophe Dessimoz, Executive Director of SIB
- 15:45 – 16:45 KEYNOTE SPEAKER
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