| Pan-cancer analysis of whole genomes Nature 578 (7793), 82-93, 2020 | 1663* | 2020 |
| PEAKS DB: de novo sequencing assisted database search for sensitive and accurate peptide identification J Zhang, L Xin, B Shan, W Chen, M Xie, D Yuen, W Zhang, Z Zhang, ... Molecular & cellular proteomics 11 (4), 2012 | 1122 | 2012 |
| The Dockstore: enabling modular, community-focused sharing of Docker-based genomics tools and workflows BD O'Connor, D Yuen, V Chung, AG Duncan, XK Liu, J Patricia, B Paten, ... F1000Research 6, 2017 | 87 | 2017 |
| Automated protein (re) sequencing with MS/MS and a homologous database yields almost full coverage and accuracy X Liu, Y Han, D Yuen, B Ma Bioinformatics 25 (17), 2174-2180, 2009 | 53 | 2009 |
| Large-scale uniform analysis of cancer whole genomes in multiple computing environments CK Yung, BD O’Connor, S Yakneen, J Zhang, K Ellrott, K Kleinheinz, ... BioRxiv, 161638, 2017 | 22 | 2017 |
| The Dockstore: enhancing a community platform for sharing reproducible and accessible computational protocols D Yuen, L Cabansay, A Duncan, G Luu, G Hogue, C Overbeck, N Perez, ... Nucleic acids research 49 (W1), W624-W632, 2021 | 17 | 2021 |
| Butler enables rapid cloud-based analysis of thousands of human genomes S Yakneen, SM Waszak, M Gertz, JO Korbel Nature biotechnology 38 (3), 288-292, 2020 | 16 | 2020 |
| The Dockstore: enabling modular, community-focused sharing of Docker-based genomics tools and workflows.[version 1; referees: 2 approved]. F1000Res. 2017; 6: 52 BD O’Connor, D Yuen, V Chung PubMed Abstract| Publisher Full Text| Free Full Text, 2018 | 10 | 2018 |
| Segment choice models: Feature-rich models for global distortion in statistical machine translation R Kuhn, D Yuen, M Simard, P Paul, G Foster, E Joanis, H Johnson Proceedings of the Human Language Technology Conference of the NAACL, Main …, 2006 | 9 | 2006 |
| SPIDER: reconstructive protein homology search with de novo sequencing tags D Yuen University of Waterloo, 2011 | 2 | 2011 |
| Author Correction: Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing I Cortés-Ciriano, JJK Lee, R Xi, D Jain, YL Jung, L Yang, D Gordenin, ... Nature genetics 55 (6), 1076-1076, 2023 | 1 | 2023 |
| Author Correction: Pan-cancer analysis of whole genomes Nature 614 (7948), E39-E39, 2023 | 1 | 2023 |
| Dockstore 2.0: Enhancing a community platform for sharing cloud-agnostic research tools D Yuen, B O’Connor, C Sloan, D Steinberg, N Perez, W Shands, G Luu, ... F1000 Research Limited.[version 1, 2019 | 1 | 2019 |
| Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples WU Meyerson, LJ Dursi, LB Wang, G Dong, WW Liang, A Weerasinghe, ... Nature Publishing Group UK, 2020 | | 2020 |
| Sex differences in oncogenic mutational processes SD Prokopec, RX Sun, F Yousif, N Schmitz, F Al-Shahrour, G Atwal, ... Nature Publishing Group UK, 2020 | | 2020 |
| common-workflow-language/cwltool P Amstutz, MR Crusoe, M Singh, K Kumar, J Chilton, S Soiland-Reyes, ... | | 2017 |
| Improving de novo sequencing accuracy for Ion Trap data in PEAKS software D Yuen, B Ma, I Rogers PEAKS, 2, 0 | | |
| Improving protein coverage by de novo sequence homology searching with SPIDER W Yang, D Yuen, B Ma, I Rogers PEAKS, 8, 0 | | |
| Peptide sequence reconstruction from de novo sequences and their homologues D Yuen, B Ma, I Rogers PEAKS, 11, 0 | | |
