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ORCIDJan Fostier
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- affiliation: Ghent University, Belgium
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2020 – today
- 2024
[c10]Adrián Goga, Lore Depuydt
, Nathaniel K. Brown, Jan Fostier, Travis Gagie, Gonzalo Navarro:
Faster Maximal Exact Matches with Lazy LCP Evaluation. DCC 2024: 123-132- [c9]Luca Renders, Lore Depuydt, Sven Rahmann, Jan Fostier:
Automated Design of Efficient Search Schemes for Lossless Approximate Pattern Matching. RECOMB 2024: 164-184 - [c8]Lore Depuydt, Luca Renders, Simon Van de Vyver, Lennart Veys, Travis Gagie, Jan Fostier:
b-move: Faster Bidirectional Character Extensions in a Run-Length Compressed Index. WABI 2024: 10:1-10:18 - 2023
- [j18]Lore Depuydt, Luca Renders, Thomas Abeel, Jan Fostier:
Pan-genome de Bruijn graph using the bidirectional FM-index. BMC Bioinform. 24(1): 400 (2023) - [j17]Aranka Steyaert, Pieter Audenaert, Jan Fostier:
Improved Node and Arc Multiplicity Estimation in De Bruijn Graphs Using Approximate Inference in Conditional Random Fields. IEEE ACM Trans. Comput. Biol. Bioinform. 20(3): 1995-2006 (2023) - [c7]Pratima Upretee, Sybren Santermans, Koen M. Martens, Juliette Gevers, Sanjin Marion, Wouter Van den Bosch, Jan Fostier, Nilesh Madhu:
Detecting Translocation of DNA Nanostructures Through Nanopores: First Steps Towards Structural Barcode Readout. EUSIPCO 2023: 1205-1209 - [i1]Adrián Goga, Lore Depuydt, Nathaniel K. Brown, Jan Fostier, Travis Gagie, Gonzalo Navarro:
Faster Maximal Exact Matches with Lazy LCP Evaluation. CoRR abs/2311.04538 (2023) - 2022
- [c6]Luca Renders, Lore Depuydt, Jan Fostier:
Approximate Pattern Matching Using Search Schemes and In-Text Verification. IWBBIO (2) 2022: 419-435 - 2020
- [j16]Jan Voges, Tom Paridaens, Fabian Müntefering, Liudmila S. Mainzer, Brian Bliss, Mingyu Yang, Idoia Ochoa, Jan Fostier, Jörn Ostermann, Mikel Hernaez:
GABAC: an arithmetic coding solution for genomic data. Bioinform. 36(7): 2275-2277 (2020) - [j15]Aranka Steyaert, Pieter Audenaert, Jan Fostier:
Accurate determination of node and arc multiplicities in de bruijn graphs using conditional random fields. BMC Bioinform. 21(1): 402 (2020)
2010 – 2019
- 2019
- [j14]Mahdi Heydari, Giles Miclotte, Yves Van de Peer, Jan Fostier:
Illumina error correction near highly repetitive DNA regions improves de novo genome assembly. BMC Bioinform. 20(1): 298:1-298:13 (2019) - 2018
- [j13]Mahdi Heydari, Giles Miclotte, Yves Van de Peer, Jan Fostier:
BrownieAligner: accurate alignment of Illumina sequencing data to de Bruijn graphs. BMC Bioinform. 19(1): 311:1-311:10 (2018) - [j12]Nele Vandersickel, Masaya Watanabe, Qian Tao, Jan Fostier, Katja Zeppenfeld, Alexander V. Panfilov:
Dynamical anchoring of distant arrhythmia sources by fibrotic regions via restructuring of the activation pattern. PLoS Comput. Biol. 14(12) (2018) - [c5]Jan Fostier:
A BLAS-Based Algorithm for Finding Position Weight Matrix Occurrences in DNA Sequences on CPUs and GPUs. IWBBIO (1) 2018: 439-449 - 2017
- [j11]Giles Miclotte, Stéphane Plaisance, Stephane Rombauts, Yves Van de Peer, Pieter Audenaert, Jan Fostier:
OMSim: a simulator for optical map data. Bioinform. 33(17): 2740-2742 (2017) - [j10]Mahdi Heydari, Giles Miclotte, Piet Demeester, Yves Van de Peer, Jan Fostier:
Evaluation of the impact of Illumina error correction tools on de novo genome assembly. BMC Bioinform. 18(1): 374:1-374:13 (2017) - 2016
- [j9]Giles Miclotte, Mahdi Heydari, Piet Demeester, Stephane Rombauts, Yves Van de Peer, Pieter Audenaert, Jan Fostier:
Jabba: hybrid error correction for long sequencing reads. Algorithms Mol. Biol. 11: 10 (2016) - 2015
- [j8]Dries Decap, Joke Reumers, Charlotte Herzeel, Pascal Costanza, Jan Fostier:
Halvade: scalable sequence analysis with MapReduce. Bioinform. 31(15): 2482-2488 (2015) - [j7]Dieter De Witte, Jan Van de Velde, Dries Decap, Michiel Van Bel, Pieter Audenaert, Piet Demeester, Bart Dhoedt, Klaas Vandepoele, Jan Fostier:
BLSSpeller: exhaustive comparative discovery of conserved cis-regulatory elements. Bioinform. 31(23): 3758-3766 (2015) - [c4]Arne De Coninck, Drosos Kourounis, Fabio Verbosio, Olaf Schenk, Bernard De Baets, Steven Maenhout, Jan Fostier:
Towards Parallel Large-Scale Genomic Prediction by Coupling Sparse and Dense Matrix Algebra. PDP 2015: 747-750 - [c3]Dries Decap, Joke Reumers, Charlotte Herzeel, Pascal Costanza, Jan Fostier:
Performance Analysis of a Parallel, Multi-node Pipeline for DNA Sequencing. PPAM (2) 2015: 233-242 - [c2]Giles Miclotte, Mahdi Heydari, Piet Demeester, Pieter Audenaert, Jan Fostier:
Jabba: Hybrid Error Correction for Long Sequencing Reads Using Maximal Exact Matches. WABI 2015: 175-188 - 2014
- [j6]Simon Dooms, Pieter Audenaert, Jan Fostier, Toon De Pessemier, Luc Martens:
In-memory, distributed content-based recommender system. J. Intell. Inf. Syst. 42(3): 645-669 (2014) - 2013
- [j5]Lieven P. C. Verbeke, Lore Cloots, Piet Demeester, Jan Fostier, Kathleen Marchal:
EPSILON: an eQTL prioritization framework using similarity measures derived from local networks. Bioinform. 29(10): 1308-1316 (2013) - [c1]Dieter De Witte, Michiel Van Bel, Pieter Audenaert, Piet Demeester, Bart Dhoedt, Klaas Vandepoele, Jan Fostier:
A Parallel, Distributed-Memory Framework for Comparative Motif Discovery. PPAM (2) 2013: 268-277 - 2012
- [j4]I. Bogaert, B. Michiels, Jan Fostier:
O(1) Computation of Legendre Polynomials and Gauss-Legendre Nodes and Weights for Parallel Computing. SIAM J. Sci. Comput. 34(3) (2012) - [j3]Maria Chtepen, Filip H. A. Claeys, Bart Dhoedt, Filip De Turck, Jan Fostier, Piet Demeester, Peter A. Vanrolleghem:
Online execution time prediction for computationally intensive applications with periodic progress updates. J. Supercomput. 62(2): 768-786 (2012) - 2011
- [j2]Jan Fostier, Sebastian Proost, Bart Dhoedt, Yvan Saeys, Piet Demeester, Yves Van de Peer, Klaas Vandepoele:
A greedy, graph-based algorithm for the alignment of multiple homologous gene lists. Bioinform. 27(6): 749-756 (2011)
2000 – 2009
- 2007
- [j1]Jan Fostier, Femke Olyslager:
A GRID Computer Implementation of the Multilevel Fast Multipole Algorithm for Full-Wave Analysis of Optical Devices. IEICE Trans. Commun. 90-B(9): 2430-2438 (2007)
Coauthor Index
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