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Previous Awards

The papers receiving these awards were selected from a set of outstanding papers, based on the quantitative and qualitative classifications as well as comments provided by the program committee reviewers, their final classification as full paper and their oral presentation at the conference.

2025 | 2024 | 2023 | 2022 | 2021 | 2020 | 2019 | 2018 | 2017 | 2016 | 2015 | 2014 | 2013 | 2012 | 2011 | 2010

BIOINFORMATICS 2025

Best Paper Award

Feasibility of Inferring Spatial Transcriptomics from Single-Cell Histological Patterns for Studying Colon Cancer Tumor Heterogeneity
Michael Y. Fatemi, Yunrui Lu, Zarif L. Azher, Cyril Sharma, Eric Feng, Alos B. Diallo, Gokul Srinivasan, Grace M. Rosner, Kelli B. Pointer, Brock C. Christensen, Lucas A. Salas, Gregory J. Tsongalis, Scott M. Palisoul, Laurent Perreard, Fred W. Kolling IV, Louis J. Vaickus and Joshua J. Levy

Best Student Paper Award

GenomeCruzer, a 3D Interactive Environment for Genomic Data Visualization and Analysis
Cassisa Anna, Jamal Elhasnaoui, Uliveto Chiara, Riccardo Corsi, Elena Grassi, Dalibor Stuchlík, Livio Trusolino, Aleš Křenek, Luca Vezzadini, Andrea Bertotti, Claudio Isella and Enzo Medico

Best Poster Award

A Framework for Reproducible Parallel DNA String Matching
Ricardo Regis Cavalcante Chaves and Alba Cristina Magalhaes Alves de Melo

BIOINFORMATICS 2024

Best Paper Award

Modeling Intestinal Glucose Absorption from D-Xylose Data
Danilo Dursoniah, Maxime Folschette, Rebecca Goutchtat, Violeta Raverdy, François Pattou and Cédric Lhoussaine

Best Student Paper Award

Assembling Close Strains in Metagenome Assemblies Using Discrete Optimization
Tam Khac Minh Truong, Roland Faure and Rumen Andonov

Best Poster Award

Semantic Textual Similarity Assessment in Chest X-ray Reports Using a Domain-Specific Cosine-Based Metric
Sayeh Gholipour Picha, Dawood Al Chanti and Alice Caplier

BIOINFORMATICS 2023

Best Paper Award

Efficient Representation of Biochemical Structures for Supervised and Unsupervised Machine Learning Models Using Multi-Sensoric Embeddings
Katrin Sophie Bohnsack, Alexander Engelsberger, Marika Kaden and Thomas Villmann

Best Poster Award

Prediction of Antimicrobial Peptides Using Deep Neural Networks
Ümmü Gülsüm Söylemez, Malik Yousef and Burcu Bakir-Gungor

BIOINFORMATICS 2022

Best Paper Award

Lossy Compressor Preserving Variant Calling through Extended BWT
Veronica Guerrini, Felipe A. Louza and Giovanna Rosone

Best Student Paper Award

Efficient k-mer Indexing with Application to Mapping-free SNP Genotyping
Mattia Marcolin, Francesco Andreace and Matteo Comin

Best Poster Award

Bioinformatics Analysis of Gene Targets for Birt-Hogg-Dube Syndrome Associated with Renal Cell Cancer using NetworkAnalyst
Mariemme Keilsy D. Martos and Marineil C. Gomez

BIOINFORMATICS 2021

Best Paper Award

Backward Pattern Matching on Elastic Degenerate Strings
Petr Procházka, Ondřej Cvacho, Luboš Krčál and Jan Holub

Best Student Paper Award

Applying PySCMGroup to Breast Cancer Biomarkers Discovery
Mazid Abiodoun Osseni, Prudencio Tossou, Jacques Corbeil and François Laviolette

Coordinate Systems for Pangenome Graphs based on the Level Function and Minimum Path Covers
Thomas Büchler, Caroline Räther, Pascal Weber and Enno Ohlebusch

Best Poster Award

A Deep Learning Method to Impute Missing Values and Compress Genome-wide Polymorphism Data in Rice
Tanzila Islam, Chyon Hae Kim, Hiroyoshi Iwata, Hiroyuki Shimono, Akio Kimura, Hein Zaw, Chitra Raghavan, Hei Leung and Rakesh Kumar Singh

BIOINFORMATICS 2020

Best Paper Award

Prediction of Dynamical Properties of Biochemical Pathways with Graph Neural Networks
Pasquale Bove, Alessio Micheli, Paolo Milazzo and Marco Podda

Efficient Computation of Base-pairing Probabilities in Multi-strand RNA Folding
Ronny Lorenz, Christoph Flamm, Ivo L. Hofacker and Peter F. Stadler

Best Poster Award

SIRA-HIV: A User-friendly System to Evaluate HIV-1 Drug Resistance from Next-generation Sequencing Data
Letícia Martins Raposo, Mônica Barcellos Arruda, Rodrigo de Moraes Brindeiro and Flavio Fonseca Nobre

BIOINFORMATICS 2019

Best Paper Award

On-line Searching in IUPAC Nucleotide Sequences
Petr Procházka and Jan Holub

Best Student Paper Award

Method Choice in Gene Set Analysis Has Important Consequences for Analysis Outcome
Farhad Maleki, Katie L. Ovens, Elham Rezaei, Alan M. Rosenberg and Anthony J. Kusalik

Constraint Maximal Inter-molecular Helix Lengths within RNA-RNA Interaction Prediction Improves Bacterial sRNA Target Prediction
Rick Gelhausen, Sebastian Will, Ivo L. Hofacker, Rolf Backofen and Martin Raden

Best Poster Award

Prediction of Malaria Vaccination Outcomes from Gene Expression Data
Ahmad Shayaan, Indu Ilanchezian and Shrisha Rao

BIOINFORMATICS 2018

Best Paper Award

Supervised Classification of Metatranscriptomic Reads Reveals the Existence of Light-dark Oscillations During Infection of Phytoplankton by Viruses
Enzo Acerbi, Caroline Chenard, Stephan C. Schuster and Federico M. Lauro

Best Student Paper Award

Protein Disorder Prediction using Jumping Motifs from Torsion Angles Dynamics in Ramachandran Plots
Jonny Alexander-Uribe, Julián D. Arias-Londoño and Alexandre Perera-Lluna

Best Poster Award

Species Categorization via MicroRNAs - Based on 3’UTR Target Sites using Sequence Features
Malik Yousef, Dalit Levy and Jens Allmer

BIOINFORMATICS 2017

Best Paper Award

Protein Disorder Prediction using Information Theory Measures on the Distribution of the Dihedral Torsion Angles from Ramachandran Plots
Jonny A. Uribe, Julián D. Arias-Londoño and Alexandre Perera-Lluna

Best Student Paper Award

Reconstruction of Mitochondrial Genotypes from Diverse next Generation Sequencing Datasets
Peter Ulz, Michael R. Speicher and Gerhard G. Thallinger

Best Poster Award

A Web- and Cloud- based Service for the Clinical Use of a CAD (Computer Aided Detection) System - Automated Detection of Lung Nodules in Thoracic CTs (Computed Tomographies)
M. E. Fantacci, A. Traverso, S. Bagnasco, C. Bracco, D. Campanella, G. Chiara, E. Lopez Torres, A. Manca, D. Regge, M. Saletta, M. Stasi, S. Vallero, L. Vassallo and P. Cerello

BIOINFORMATICS 2016

Best Paper Award

Highly Robust Classification: A Regularized Approach for Omics Data
Jan Kalina and Jaroslav Hlinka

Best Student Paper Award

BioMed Xplorer - Exploring (Bio)Medical Knowledge using Linked Data
Mohammad Shafahi, Hayo Bart and Hamideh Afsarmanesh

Best Poster Award

Use of GeIS for Early Diagnosis of Alcohol Sensitivity
José Fabián Reyes Román and Óscar Pastor López

BIOINFORMATICS 2015

Best Paper Award

Identifying Aging Genes in the Aging Mouse Hypothalamus Using Gateway Node Analysis of Correlation Networks
Kathryn M. Cooper, Stephen Bonasera and Hesham Ali

Best Student Paper Award

Essential Proteins and Functional Modules in the Host-Pathogen Interactions from Innate to Adaptive Immunity - C. albicans-zebrafish Infection Model
Chia-Chou Wu and Bor-Sen Chen

BIOINFORMATICS 2014

Best Paper Award

A Computational Study to Identify TP53 and SREBF2 as Regulation Mediators of miR-214 in Melanoma Progression
Gianfranco Politano, Alfredo Benso, Stefano Di Carlo, Francesca Orso, Alessandro Savino and Daniela Taverna

Best Student Paper Award

Exploring a Sub-optimal Hidden Markov Model Sampling Approach for De Novo Peptide Structure Modeling
Pierre Thevenet and Pierre Tufféry

BIOINFORMATICS 2013

Best Paper Award

Qualitative Analysis of Gene Regulatory Networks using Network Motifs
Sohei Ito, Takuma Ichinose, Masaya Shimakawa, Naoko Izumi, Shigeki Hagihara and Naoki Yonezaki

Best Student Paper Award

A Methodology for Optimizing the Cost Matrix in Cost Sensitive Learning Models applied to Prediction of Molecular Functions in Embryophyta Plants
S. García-López, J. A. Jaramillo-Garzón, L. Duque-Muñoz and C. G. Castellanos-Domínguez

BIOINFORMATICS 2012

Best Paper Award

A n2 RNA SECONDARY STRUCTURE PREDICTION ALGORITHM
Markus E. Nebel and Anika Scheid

Best Student Paper Award

LASER DOPPLER FLOWMETERS PROTOTYPES VALIDATION USING MONTE CARLO SIMULATIONS
Edite Figueiras, Rita Campos, Ricardo Oliveira, Luís F. Requicha Ferreira, Frits de Mul and Anne Humeau-Heurtier

BIOINFORMATICS 2011

Best Paper Award

AUTOMATED COUNTING OF YEAST COLONIES USING THE FAST RADIAL TRANSFORM ALGORITHM
Jan Schier and Bohumil Kovář

Best Student Paper Award

KINETIC MODELS AND QUALITATIVE ABSTRACTION FOR RELATIONAL LEARNING IN SYSTEMS BIOLOGY
Gabriel Synnaeve, Katsumi Inoue, Andrei Doncescu, Hidetomo Nabeshima, Yoshitaka Kameya, Masakazu Ishihata and Taisuke Sato

BIOINFORMATICS 2010

Best Paper Award

CO-EVOLUTION IN HIV ENZYMES

Best Student Paper Award

REACTION KERNELS - Structured Output Prediction Approaches for Novel Enzyme Function