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Awards Winners

ISMB/ECCB 2023 was an incredibly successful and memorable event! With nearly 2,600 participants from various countries, both in-person and online attendance, it was a diverse and engaging experience. The impressive number of talks, panel discussions, and posters shows the depth and breadth of scientific content covered during the conference. The Ideation Hall, where participants could interact with exhibitors, provided a great opportunity for networking, job exploration and exploring new ideas and technologies. ISMB/ECCB 2023 wouldn't be possible without the dedication and hard work of volunteers, and it's heartening to see their efforts being acknowledged. Steven Leard's long-term commitment to the conference is also commendable. ISCB wishes him all the best in his retirement from ISCB. Plan now to join us in 2024 in Montreal, Canada, July 12-16. ISMB/ECCB 2023 is a highlight of the summer for the scientific community, and the upcoming conference in Montreal holds promising prospects for further scientific advancement and collaboration.

Ian Lawson Van Toch Memorial Award for Outstanding Student Paper | RCSB PDB Poster Prize | RSC Chemical Biology Poster Prize | Wikipedia Winner | Bio-ontologies COSI | BioVis COSI | CompMS COSI | CAMDA Trophy Award for Best Presentation | EvolCompGen COSIHiTSeQ Award | iRNA Award | MLCSB COSI | RegSys COSI | SysMod COSI | TransMed COSI

Award Winner:

Cassandra Burdziak (Memorial Sloan Kettering Cancer Center, New York, USA)
scKINETICS: inference of regulatory velocity with single-cell transcriptomics data

Honorable mention:

Jonas Christian Ditz (University of Tübingen, USA)
COmic: Convolutional Kernel Networks for Interpretable End-to-End Learning on (Multi-)Omics Data

With Support From:

Nele Quast, University of Oxford, United Kingdom
Matthew Raybould, University of Oxford, United Kingdom
Charlotte Deane, University of Oxford, United Kingdom
A Structure-Focused Analysis of Antigens Presented by the Class 1 Major Histocompatibility Complex

RSC Chemical Biology Poster Prize

Fuyi Li
Jiangning Song
ProsperousPlus: An integrated platform for protease-specific substrate cleavage prediction and machine learning model construction of more than 100 proteases

Wikipedia Winner

1st prize

Article 1 - Adam Dubsky, Lukas Fernandes, Dolapo Salami
Similarity measure

Article 2 - Aarón Gallego Crespo
Tecnologías de transcriptómica
3rd prize

Article1 - Imanol Nuñez, Sofía Zorrila, Goretty Mendoza, Mario Molina
Índice Chao1

Article 2 - Anton Pashkov, Sofía González Sánchez
DNA annotation

COSI Awards

Bio-ontologies COSI

Best Poster

Jade Hotchkiss, University of Cape Town
First Layperson Translation of the Sickle Cell Disease Ontology – Making SCD-Centred eHealth Platforms more Accessible

Best Talk

Shuai Jiang, Beijing Institute of Genomics Chinese Academy of Sciences
Cell Taxonomy: a curated repository of cell types with multifaceted characterization


Best Long Abstract

Kari Lavikka, University of Helsinki, Finland
Ilari Maarala, University of Helsinki, Finland
Jaana Oikkonen, University of Helsinki, Finland
Yilin Li, University of Helsinki, Finland
Alexandra Lahtinen, University of Helsinki, Finland
Sampsa Hautaniemi, University of Helsinki, Finland
Visualizing temporal and multi-regional evolution of tumor subclones with Jellyfish plots

Best Poster

Felix Offensperger, Ludwig-Maximilians-Universität München, Germany
Markus Joppich, Ludwig-Maximilians-Universität München, Germany
Ralf Zimmer, Ludwig-Maximilians-Universität München, Germany
Visualizing (differential) expression patterns with fuzzy concepts as FlowSets

Test of Time Award

Kenneth Sabir, Garvan Institute of Medical Research, Australia
Christian Stolte, CSIRO Computational Informatics, Australia
Bruce Tabor, CSIRO Computational Informatics, Australia
Seán I. O'Donoghue, CSIRO Computational Informatics, Australia
A new modeling paradigm to study complete and harmonious whole biological systems


Best Talk

Cecile Le Sueur - EMBL Heidelberg, Germany
Hierarchical Gaussian Process models uncover the dark meltome of Thermal Proteome Profiling experiments

Best Poster

Yannek Nowatzky - Bundesanstalt für Materialforschung und -prüfung (BAM), Germany
Fragmentation site prediction for non-targeted metabolomics using graph neural networks

EvolCompGen Awards

Long talks

Brice Letcher
Programmed DNA Elimination in Mesorhabditis nematodes

Honorable mentions:
Xiaoyue Cui
Probing domain architecture design using language models

Axel Fehrenbach
Uncovering the Dynamics of CRISPR Array Evolution with a New Maximum Likelihood Approach

Short talks


Gwanghoon Jung
Improving genome variation calls from non-human sequencing data using machine learning

Honorable mention:

Sarah Farhat
Whole genome duplication and gene evolution in the hyperdiverse venomous gastropods



Daehong Kwon
SHERLOG: a full homology-based synteny block detection program

Honorable mentions:

Vivian B. Brandenburg
A quartet-based approach for inferring phylogenetically informative features from genomic and phenomic data

Sean MacRae
Generative Adversarial Networks for the Simulation of DNA Sequence EvolutionXiaoyue Cui, Probing domain architecture design using language models

iRNA Award

Best Poster

Kamil Hepak, Earlham Institute 
Muex: a method to identify microexons from long-read RNA sequencing data


Best Poster

Geert-Jan Huizing, Institut Pasteur, Université Paris Cité
Paired single-cell multi-omics data integration with Mowgli


Best Talk

Océane Cassan, LIRMM, Univ Montpellier, CNRS, Montpellier, France
Gene-specific optimization of binding sites integration to expression data improves regression-based Gene Regulatory Network inference in Arabidopsis thaliana

Best Poster

Salvo D. Lombardo, CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences, Vienna, Austria
The human exposure network: a multi-scale study of the impact of chemicals in human health


Best Talks

Ibrahim Ihsan Taskiran (KU Leuven)
Cell type directed design of synthetic enhancers

Jacob Schreiber (Stanford University)
DragoNNFruit: Learning cis- and trans-regulatory factors of chromatin accessibility profiles at single base and single cell resolution



Riccardo Aucello, Simone Pernice, Dora Tortarolo, Francesca Cordero, Marco Beccuti and Pietro Liò
Computer Science Department, University of Turin, Turin, Italy
A new modeling paradigm to study complete and harmonious whole biological systems


Othmane Hayoun Mya, Arnau Montagud, Alfonso Valencia and Miguel Ponce de Leon
Barcelona Supercomputing Center, Spain
Integrating stochastic Boolean and agent-based modelling frameworks for in-silico gastric cancer drug screening experiments with PhysiBoSS 2.0


Wim Thiels, Michiel Vanslambrouck, Casper Van Bavel, Jef Vangheel, Bart Smeets and Rob Jelier
KU Leuven, Belgium
Using mechanical simulation to study early gastrulation movements in C. elegans.

TransMed COSI

Best Talk

Michelle Li, Harvard Medical School
Deep learning for diagnosing patients with rare genetic diseases

Best Poster

Dries Heylen, UHasselt &VITO NV, Belgium
Evaluating the frequency of multi-omics longitudinal data collection in the perspective of chronic disease development