Comprehensive molecular characterization of gastric adenocarcinoma Cancer Genome Atlas Research Network Nature 513 (7517), 202, 2014 | 5124 | 2014 |
Somatic mutations at EZH2 Y641 act dominantly through a mechanism of selectively altered PRC2 catalytic activity, to increase H3K27 trimethylation DB Yap, J Chu, T Berg, M Schapira, SWG Cheng, A Moradian, RD Morin, ... Blood, The Journal of the American Society of Hematology 117 (8), 2451-2459, 2011 | 706 | 2011 |
ABySS 2.0: resource-efficient assembly of large genomes using a Bloom filter SD Jackman, BP Vandervalk, H Mohamadi, J Chu, S Yeo, SA Hammond, ... Genome research 27 (5), 768-777, 2017 | 618 | 2017 |
A draft human pangenome reference WW Liao, M Asri, J Ebler, D Doerr, M Haukness, G Hickey, S Lu, JK Lucas, ... Nature 617 (7960), 312-324, 2023 | 322 | 2023 |
NanoSim: nanopore sequence read simulator based on statistical characterization C Yang, J Chu, RL Warren, I Birol GigaScience 6 (4), gix010, 2017 | 220 | 2017 |
ARCS: scaffolding genome drafts with linked reads S Yeo, L Coombe, RL Warren, J Chu, I Birol Bioinformatics 34 (5), 725-731, 2018 | 178 | 2018 |
BioBloom tools: fast, accurate and memory-efficient host species sequence screening using bloom filters J Chu, S Sadeghi, A Raymond, SD Jackman, KM Nip, R Mar, ... Bioinformatics 30 (23), 3402-3404, 2014 | 116 | 2014 |
Tigmint: correcting assembly errors using linked reads from large molecules SD Jackman, L Coombe, J Chu, RL Warren, BP Vandervalk, S Yeo, Z Xue, ... BMC bioinformatics 19, 1-10, 2018 | 105 | 2018 |
ARKS: chromosome-scale scaffolding of human genome drafts with linked read kmers L Coombe, J Zhang, BP Vandervalk, J Chu, SD Jackman, I Birol, ... BMC bioinformatics 19, 1-10, 2018 | 85 | 2018 |
ntHash: recursive nucleotide hashing H Mohamadi, J Chu, BP Vandervalk, I Birol Bioinformatics 32 (22), 3492-3494, 2016 | 76 | 2016 |
Innovations and challenges in detecting long read overlaps: an evaluation of the state-of-the-art J Chu, H Mohamadi, RL Warren, C Yang, I Birol Bioinformatics 33 (8), 1261-1270, 2017 | 64 | 2017 |
Organellar Genomes of White Spruce ( Picea glauca ): Assembly and Annotation SD Jackman, RL Warren, EA Gibb, BP Vandervalk, H Mohamadi, J Chu, ... Genome Biology and Evolution 8 (1), 29-41, 2016 | 62 | 2016 |
RNA-Bloom enables reference-free and reference-guided sequence assembly for single-cell transcriptomes KM Nip, R Chiu, C Yang, J Chu, H Mohamadi, RL Warren, I Birol Genome research 30 (8), 1191-1200, 2020 | 48* | 2020 |
The Genome of the North American Brown Bear or Grizzly: Ursus arctos ssp. horribilis GA Taylor, H Kirk, L Coombe, SD Jackman, J Chu, K Tse, D Cheng, ... Genes 9 (12), 598, 2018 | 38 | 2018 |
ntJoin: Fast and lightweight assembly-guided scaffolding using minimizer graphs L Coombe, V Nikolić, J Chu, I Birol, RL Warren Bioinformatics 36 (12), 3885-3887, 2020 | 26 | 2020 |
Kollector: transcript-informed, targeted de novo assembly of gene loci E Kucuk, J Chu, BP Vandervalk, SA Hammond, RL Warren, I Birol Bioinformatics 33 (12), 1782-1788, 2017 | 25 | 2017 |
Konnector v2. 0: pseudo-long reads from paired-end sequencing data BP Vandervalk, C Yang, Z Xue, K Raghavan, J Chu, H Mohamadi, ... BMC Medical Genomics 8, 1-10, 2015 | 25 | 2015 |
Jupiter Plot: A Circos-Based Tool to Visualize Genome Assembly Consistency (Version 1.0) J Chu Zenodo. Available online: https://zenodo. org/record/1241235#. XA92q2hKiUk …, 2018 | 22 | 2018 |
Konnector: Connecting paired-end reads using a bloom filter de Bruijn graph BP Vandervalk, SD Jackman, A Raymond, H Mohamadi, C Yang, ... 2014 IEEE international conference on bioinformatics and biomedicine (BIBM …, 2014 | 19 | 2014 |
Gaps and complex structurally variant loci in phased genome assemblies D Porubsky, MR Vollger, WT Harvey, AN Rozanski, P Ebert, G Hickey, ... Genome research 33 (4), 496-510, 2023 | 18 | 2023 |