| The sequences of 150,119 genomes in the UK Biobank BV Halldorsson, HP Eggertsson, KHS Moore, H Hauswedell, O Eiriksson, ... Nature 607 (7920), 732-740, 2022 | 327 | 2022 |
| Long-read sequencing of 3,622 Icelanders provides insight into the role of structural variants in human diseases and other traits D Beyter, H Ingimundardottir, A Oddsson, HP Eggertsson, E Bjornsson, ... Nature genetics 53 (6), 779-786, 2021 | 260 | 2021 |
| Bifrost: highly parallel construction and indexing of colored and compacted de Bruijn graphs G Holley, P Melsted Genome biology 21, 1-20, 2020 | 193 | 2020 |
| Bloom Filter Trie: an alignment-free and reference-free data structure for pan-genome storage G Holley, R Wittler, J Stoye Algorithms for Molecular Biology 11, 1-9, 2016 | 91 | 2016 |
| Ratatosk: hybrid error correction of long reads enables accurate variant calling and assembly G Holley, D Beyter, H Ingimundardottir, PL Møller, S Kristmundsdottir, ... Genome Biology 22 (1), 28, 2021 | 59 | 2021 |
| Pan-genome storage and analysis techniques T Zekic, G Holley, J Stoye Comparative Genomics: Methods and Protocols, 29-53, 2017 | 31 | 2017 |
| BlastFrost: fast querying of 100,000 s of bacterial genomes in Bifrost graphs N Luhmann, G Holley, M Achtman Genome biology 22, 1-15, 2021 | 30 | 2021 |
| Dynamic alignment-free and reference-free read compression G Holley, R Wittler, J Stoye, F Hach Journal of Computational Biology 25 (7), 825-836, 2018 | 24 | 2018 |
| A comparison of methods for detecting DNA methylation from long-read sequencing of human genomes BD Sigurpalsdottir, OA Stefansson, G Holley, D Beyter, F Zink, ... Genome Biology 25 (1), 69, 2024 | 19 | 2024 |
| Sequence variants affecting the genome-wide rate of germline microsatellite mutations S Kristmundsdottir, H Jonsson, MT Hardarson, G Palsson, D Beyter, ... Nature Communications 14 (1), 3855, 2023 | 18 | 2023 |
| Population-scale detection of non-reference sequence variants using colored de Bruijn graphs T Krannich, WTJ White, S Niehus, G Holley, BV Halldórsson, B Kehr Bioinformatics 38 (3), 604-611, 2022 | 18 | 2022 |
| Accurate quantification of single-cell and single-nucleus RNA-seq transcripts using distinguishing flanking k-mers K Eldjárn Hjörleifsson, DK Sullivan, NP Swarna, G Holley, P Melsted, ... BioRxiv, 2022.12. 02.518832, 2022 | 17 | 2022 |
| kallisto, bustools and kb-python for quantifying bulk, single-cell and single-nucleus RNA-seq DK Sullivan, KH Min, KE Hjörleifsson, L Luebbert, G Holley, L Moses, ... Nature Protocols, 1-21, 2024 | 16 | 2024 |
| BlastGraph: intensive approximate pattern matching in string graphs and de-Bruijn graphs G Holley, P Peterlongo PSC 2012, 2012 | 12 | 2012 |
| Benchmarking small variant detection with ONT reveals high performance in challenging regions PL Møller, G Holley, D Beyter, M Nyegaard, BV Halldórsson bioRxiv, 2020.10. 22.350009, 2020 | 9 | 2020 |
| Accurate quantification of single-cell and single-nucleus RNA-seq transcripts using distinguishing flanking k-mers KE Hjörleifsson, DK Sullivan, NP Swarna, G Holley, P Melsted, L Pachter bioRxiv, 2024 | 1 | 2024 |
| Accurate quantification of nascent and mature RNAs from single-cell and single-nucleus RNA-seq DK Sullivan, KE Hjörleifsson, NP Swarna, C Oakes, G Holley, P Melsted, ... Nucleic Acids Research 53 (1), gkae1137, 2025 | | 2025 |
| Accurate quantification of single-nucleus and single-cell RNA-seq transcripts DK Sullivan, G Holley, P Melsted, L Pachter | | 2022 |
| Pan-genome Search and Storage G Holley | | 2018 |
