Thomas Abeel

34 papers A 2Journal 29Unranked 3
YearRankTypeTitle / Venue / Authors
2025 J jnl
Circling in on plasmids: benchmarking plasmid detection and reconstruction tools for short-read data from diverse species.
Briefings Bioinform.
Marco Teixeira, Célia Souque, Colin J. Worby, Terrance Shea, Nicoletta Commins, Joshua T. Smith, Arjun M. Miklos, Thomas Abeel, Ashlee M. Earl, Abigail L. Manson
2025 J jnl
Fast and exact gap-affine partial order alignment with POASTA.
Bioinform.
Lucas R. van Dijk, Abigail L. Manson, Ashlee M. Earl, Kiran V. Garimella, Thomas Abeel
2025 J jnl
Jaxkineticmodel: Neural ordinary differential equations inspired parameterization of kinetic models.
PLoS Comput. Biol.
Paul van Lent, Olga Bunkova, Bálint Magyar, Léon Planken, Joep Schmitz, Thomas Abeel
2025 J jnl
Performance and interaction assessment of neural network architectures and bivariate smart predict-then-optimize.
Mach. Learn.
Junhan Wen, Thomas Abeel, Mathijs de Weerdt
2024 J jnl
SAFPred: synteny-aware gene function prediction for bacteria using protein embeddings.
Bioinform.
Aysun Urhan, Bianca-Maria Cosma, Ashlee M. Earl, Abigail L. Manson, Thomas Abeel
2024 A conf
The Growing Strawberries Dataset: Tracking Multiple Objects with Biological Development over an Extended Period.
WACV
Junhan Wen, Camiel R. Verschoor, Chengming Feng, Irina-Mona Epure, Thomas Abeel, Mathijs de Weerdt
2023 J jnl
Pan-genome de Bruijn graph using the bidirectional FM-index.
BMC Bioinform.
Lore Depuydt, Luca Renders, Thomas Abeel, Jan Fostier
2023 J jnl
SHIP: identifying antimicrobial resistance gene transfer between plasmids.
Bioinform.
Marco Teixeira, Stephanie Pillay, Aysun Urhan, Thomas Abeel
2022 J jnl
HAT: haplotype assembly tool using short and error-prone long reads.
Bioinform.
Ramin Shirali Hossein Zade, Aysun Urhan, Alvaro Assis de Souza, Akash Singh, Thomas Abeel
2020 J jnl
An educational guide for nanopore sequencing in the classroom.
PLoS Comput. Biol.
Alex Salazar, Franklin L. Nobrega, Christine Anyansi, Cristian Aparicio-Maldonado, Ana Rita Costa, Anna C. Haagsma, Anwar Hiralal, Ahmed Mahfouz, Rebecca E. McKenzie, Teunke van Rossum, Stan J. J. Brouns, Thomas Abeel
2018 J jnl
Approximate, simultaneous comparison of microbial genome architectures via syntenic anchoring of quiver representations.
Bioinform.
Alex Salazar, Thomas Abeel
2015 J jnl
Normalizing alternate representations of large sequence variants across multiple bacterial genomes.
BMC Bioinform.
Alex Salazar, Ashlee Earl, Christopher Desjardins, Thomas Abeel
2014 J jnl
Soft Skills: An Important Asset Acquired from Organizing Regional Student Group Activities.
PLoS Comput. Biol.
Jeroen de Ridder, Pieter Meysman, Olugbenga Oluseun Oluwagbemi, Thomas Abeel
2014 J jnl
The Upside of Failure: How Regional Student Groups Learn from Their Mistakes.
PLoS Comput. Biol.
Tarun Mishra, R. Gonzalo Parra, Thomas Abeel
2013 J jnl
Don't Wear Your New Shoes (Yet): Taking the Right Steps to Become a Successful Principal Investigator.
PLoS Comput. Biol.
Jeroen de Ridder, Thomas Abeel, Magali Michaut, Venkata P. Satagopam, Nils Gehlenborg
2013 J jnl
ISCB Computational Biology Wikipedia Competition.
PLoS Comput. Biol.
Alex Bateman, Janet Kelso, Daniel Mietchen, Geoff MacIntyre, Tomás Di Domenico, Thomas Abeel, Darren W. Logan, Predrag Radivojac, Burkhard Rost
2013 J jnl
Ten Simple Rules for Starting a Regional Student Group.
PLoS Comput. Biol.
Avinash Kumar Shanmugam, Geoff MacIntyre, Magali Michaut, Thomas Abeel
2013 J jnl
The
Nat.
James E. Galagan, Kyle J. Minch, Matthew Peterson, Anna Lyubetskaya, Elham Azizi, Linsday Sweet, Antonio Gomes, Tige R. Rustad, Gregory Dolganov, Irina Glotova, Thomas Abeel, Chris Mahwinney, Adam D. Kennedy, René Allard, William Brabant, Andrew Krueger, Suma Jaini, Brent Honda, Wen-Han Yu, Mark J. Hickey, Jeremy Zucker, Christopher Garay, Brian Weiner, Peter Sisk, Christian Stolte, Jessica K. Winkler, Yves Van de Peer, Paul Iazzetti, Diogo Camacho, Jonathan M. Dreyfuss, Yang Liu, Anca Dorhoi, Hans-Joachim Mollenkopf, Paul Drogaris, Julie Lamontagne, Yiyong Zhou, Julie Piquenot, Sang Tae Park, Sahadevan Raman, Stefan H. E. Kaufmann, Robert P. Mohney, Daniel Chelsky, D. Branch Moody, David R. Sherman, Gary K. Schoolnik
2013 J jnl
The Regional Student Group Program of the ISCB Student Council: Stories from the Road.
PLoS Comput. Biol.
Geoff MacIntyre, Magali Michaut, Thomas Abeel
2013 J jnl
The Spirit of Competition: To Win or Not To Win.
PLoS Comput. Biol.
Teresa Szczepinska, Wataru Iwasaki, Thomas Abeel
2012 J jnl
Highlights from the Eighth International Society for Computational Biology (ISCB) Student Council Symposium 2012.
BMC Bioinform.
Alexander Goncearenco, Priscila Grynberg, Olga B. Botvinnik, Geoff MacIntyre, Thomas Abeel
2012 J jnl
Semantically linking molecular entities in literature through entity relationships.
BMC Bioinform.
Sofie Van Landeghem, Jari Björne, Thomas Abeel, Bernard De Baets, Tapio Salakoski, Yves Van de Peer
2011 — conf
Detecting Entity Relations as a Supporting Task for Bio-Molecular Event Extraction.
BioNLP@ACL (Shared Task)
Sofie Van Landeghem, Thomas Abeel, Bernard De Baets, Yves Van de Peer
2011 J jnl
Highlights from the Student Council Symposium 2011 at the International Conference on Intelligent Systems for Molecular Biology and European Conference on Computational Biology.
BMC Bioinform.
Priscila Grynberg, Thomas Abeel, Pedro Lopes, Geoff MacIntyre, Lorena Pantano Rubiño
2010 J jnl
Discriminative and informative features for biomolecular text mining with ensemble feature selection.
Bioinform.
Sofie Van Landeghem, Thomas Abeel, Yvan Saeys, Yves Van de Peer
2010 J jnl
Highlights from the 6th International Society for Computational Biology Student Council Symposium at the 18th Annual International Conference on Intelligent Systems for Molecular Biology.
BMC Bioinform.
Christiaan Klijn, Magali Michaut, Thomas Abeel
2010 J jnl
Highlights of the BioTM 2010 workshop on advances in bio text mining.
BMC Bioinform.
Thomas Abeel, Sofie Van Landeghem, Roser Morante, Vincent Van Asch, Yves Van de Peer, Walter Daelemans, Yvan Saeys
2010 J jnl
Robust biomarker identification for cancer diagnosis with ensemble feature selection methods.
Bioinform.
Thomas Abeel, Thibault Helleputte, Yves Van de Peer, Pierre Dupont, Yvan Saeys
2009 J jnl
Highlights from the 5
BMC Bioinform.
Thomas Abeel, Jeroen de Ridder, Lucia Peixoto
2009 J jnl
Java-ML: A Machine Learning Library.
J. Mach. Learn. Res.
Thomas Abeel, Yves Van de Peer, Yvan Saeys
2009 J jnl
Toward a gold standard for promoter prediction evaluation.
Bioinform.
Thomas Abeel, Yves Van de Peer, Yvan Saeys
2008 A conf
ProSOM: core promoter prediction based on unsupervised clustering of DNA physical profiles.
ISMB
Thomas Abeel, Yvan Saeys, Pierre Rouzé, Yves Van de Peer
2008 — conf
Robust Feature Selection Using Ensemble Feature Selection Techniques.
ECML/PKDD (2)
Yvan Saeys, Thomas Abeel, Yves Van de Peer
2007 — conf
Translation initiation site prediction on a genomic scale: beauty in simplicity.
ISMB/ECCB (Supplement of Bioinformatics)
Yvan Saeys, Thomas Abeel, Sven Degroeve, Yves Van de Peer