Jan Fostier

Affiliations

Department of Plant Biotechnology and Bioinformatics, Department of Information Technology, IDLab, imec, iGent Toren, Ghent, Belgium.

Publications (18)

Comparative analysis of somatic variant calling on matched FF and FFPE WGS samples.

BMC medical genomics

Avec: Louise de Schaetzen van Brienen , Maarten Larmuseau , Kim Van der Eecken , Frederic De Ryck , Pauline Robbe , Anna Schuh , Jan Fostier , Piet Ost , Kathleen Marchal

Illumina error correction near highly repetitive DNA regions improves de novo genome assembly.

BMC bioinformatics

Avec: Mahdi Heydari , Giles Miclotte , Yves Van de Peer , Jan Fostier

Preservation of Genetic Variation in a Breeding Population for Long-Term Genetic Gain.

G3 (Bethesda, Md.)

Avec: David Vanavermaete , Jan Fostier , Steven Maenhout , Bernard De Baets

Multithreaded variant calling in elPrep 5.

PloS one

Avec: Charlotte Herzeel , Pascal Costanza , Dries Decap , Jan Fostier , Roel Wuyts , Wilfried Verachtert

elPrep 4: A multithreaded framework for sequence analysis.

PloS one

Avec: Charlotte Herzeel , Pascal Costanza , Dries Decap , Jan Fostier , Wilfried Verachtert

GABAC: an arithmetic coding solution for genomic data.

Bioinformatics (Oxford, England)

Avec: Jan Voges , Tom Paridaens , Fabian Müntefering , Liudmila S Mainzer , Brian Bliss , Mingyu Yang , Idoia Ochoa , Jan Fostier , Jörn Ostermann , Mikel Hernaez

Dynamic partitioning of search patterns for approximate pattern matching using search schemes.

iScience

Avec: Luca Renders , Kathleen Marchal , Jan Fostier

Pan-genome de Bruijn graph using the bidirectional FM-index.

BMC bioinformatics

Avec: Lore Depuydt , Luca Renders , Thomas Abeel , Jan Fostier

Deep scoping: a breeding strategy to preserve, reintroduce and exploit genetic variation.

TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik

Avec: David Vanavermaete , Jan Fostier , Steven Maenhout , Bernard De Baets

Halvade somatic: Somatic variant calling with Apache Spark.

GigaScience

Avec: Dries Decap , Louise de Schaetzen van Brienen , Maarten Larmuseau , Pascal Costanza , Charlotte Herzeel , Roel Wuyts , Kathleen Marchal , Jan Fostier

Oracle selection provides insight into how far off practice is from Utopia in plant breeding.

Frontiers in plant science

Avec: David Vanavermaete , Steven Maenhout , Jan Fostier , Bernard De Baets

BLSSpeller to discover novel regulatory motifs in maize.

DNA research : an international journal for rapid publication of reports on genes and genomes

Avec: Razgar Seyed Rahmani , Dries Decap , Jan Fostier , Kathleen Marchal

Accurate determination of node and arc multiplicities in de bruijn graphs using conditional random fields.

BMC bioinformatics

Avec: Aranka Steyaert , Pieter Audenaert , Jan Fostier

BLAMM: BLAS-based algorithm for finding position weight matrix occurrences in DNA sequences on CPUs and GPUs.

BMC bioinformatics

Avec: Jan Fostier

Computational assessment of the feasibility of protonation-based protein sequencing.

PloS one

Avec: Giles Miclotte , Koen Martens , Jan Fostier

Lossless Approximate Pattern Matching: Automated Design of Efficient Search Schemes.

Journal of computational biology : a journal of computational molecular cell biology

Avec: Luca Renders , Lore Depuydt , Sven Rahmann , Jan Fostier

b-move: faster bidirectional character extensions in a run-length compressed index.

bioRxiv : the preprint server for biology

Avec: Lore Depuydt , Luca Renders , Simon Van de Vyver , Lennart Veys , Travis Gagie , Jan Fostier

Faster Maximal Exact Matches with Lazy LCP Evaluation.

Proceedings. Data Compression Conference

Avec: Adrián Goga , Lore Depuydt , Nathaniel K Brown , Jan Fostier , Travis Gagie , Gonzalo Navarro

Réseau de co-auteurs

Kathleen Marchal 4 collaborations

Dries Decap 4 collaborations

Luca Renders 4 collaborations

Lore Depuydt 4 collaborations

David Vanavermaete 3 collaborations

Steven Maenhout 3 collaborations

Bernard De Baets 3 collaborations

Charlotte Herzeel 3 collaborations

Pascal Costanza 3 collaborations

Louise de Schaetzen van Brienen 2 collaborations

Maarten Larmuseau 2 collaborations

Giles Miclotte 2 collaborations

Roel Wuyts 2 collaborations

Wilfried Verachtert 2 collaborations

Travis Gagie 2 collaborations

Kim Van der Eecken 1 collaboration

Frederic De Ryck 1 collaboration

Pauline Robbe 1 collaboration

Anna Schuh 1 collaboration

Piet Ost 1 collaboration

Mahdi Heydari 1 collaboration

Yves Van de Peer 1 collaboration

Jan Voges 1 collaboration

Tom Paridaens 1 collaboration

Fabian Müntefering 1 collaboration

Liudmila S Mainzer 1 collaboration

Brian Bliss 1 collaboration

Mingyu Yang 1 collaboration

Idoia Ochoa 1 collaboration

Jörn Ostermann 1 collaboration

Mikel Hernaez 1 collaboration

Thomas Abeel 1 collaboration

Razgar Seyed Rahmani 1 collaboration

Aranka Steyaert 1 collaboration

Pieter Audenaert 1 collaboration

Koen Martens 1 collaboration

Sven Rahmann 1 collaboration

Simon Van de Vyver 1 collaboration

Lennart Veys 1 collaboration

Adrián Goga 1 collaboration

Nathaniel K Brown 1 collaboration

Gonzalo Navarro 1 collaboration