High-throughput targeted long-read single cell sequencing reveals the clonal and transcriptional landscape of lymphocytes M Singh, G Al-Eryani, S Carswell, JM Ferguson, J Blackburn, K Barton, ... Nature communications 10 (1), 1-13, 2019 | 275 | 2019 |
Analytical validity of nanopore sequencing for rapid SARS-CoV-2 genome analysis RA Bull, TN Adikari, JM Ferguson, JM Hammond, I Stevanovski, ... Nature communications 11 (1), 6272, 2020 | 257 | 2020 |
Comprehensive genetic diagnosis of tandem repeat expansion disorders with programmable targeted nanopore sequencing I Stevanovski, SR Chintalaphani, H Gamaarachchi, JM Ferguson, ... Science advances 8 (9), eabm5386, 2022 | 105 | 2022 |
Fast nanopore sequencing data analysis with SLOW5 H Gamaarachchi, H Samarakoon, SP Jenner, JM Ferguson, TG Amos, ... Nature biotechnology 40 (7), 1026-1029, 2022 | 66 | 2022 |
Molecular barcoding of native RNAs using nanopore sequencing and deep learning MA Smith, T Ersavas, JM Ferguson, H Liu, MC Lucas, O Begik, L Bojarski, ... Genome Research 30 (9), 1345-1353, 2020 | 63* | 2020 |
DNA methylation is required to maintain both DNA replication timing precision and 3D genome organization integrity Q Du, GC Smith, PL Luu, JM Ferguson, NJ Armstrong, CE Caldon, ... Cell Reports 36 (12), 2021 | 44 | 2021 |
Chromosome-length genome assembly and structural variations of the primal Basenji dog (Canis lupus familiaris) genome RJ Edwards, MA Field, JM Ferguson, O Dudchenko, J Keilwagen, ... BMC genomics 22, 1-19, 2021 | 34 | 2021 |
SquiggleKit: a toolkit for manipulating nanopore signal data JM Ferguson, MA Smith Bioinformatics 35 (24), 5372-5373, 2019 | 23 | 2019 |
Genopo: a nanopore sequencing analysis toolkit for portable Android devices H Samarakoon, S Punchihewa, A Senanayake, JM Hammond, ... Communications biology 3 (1), 538, 2020 | 21 | 2020 |
Flexible and efficient handling of nanopore sequencing signal data with slow5tools H Samarakoon, JM Ferguson, SP Jenner, TG Amos, S Parameswaran, ... Genome Biology 24 (1), 69, 2023 | 17 | 2023 |
Accelerated nanopore basecalling with SLOW5 data format H Samarakoon, JM Ferguson, H Gamaarachchi, IW Deveson Bioinformatics 39 (6), btad352, 2023 | 16 | 2023 |
InterARTIC: an interactive web application for whole-genome nanopore sequencing analysis of SARS-CoV-2 and other viruses JM Ferguson, H Gamaarachchi, T Nguyen, A Gollon, S Tong, ... Bioinformatics 38 (5), 1443-1446, 2022 | 14 | 2022 |
Squigulator: simulation of nanopore sequencing signal data with tunable noise parameters H Gamaarachchi, JM Ferguson, H Samarakoon, K Liyanage, IW Deveson Biorxiv, 2023.05. 09.539953, 2023 | 9 | 2023 |
High-throughput targeted long-read single cell sequencing reveals the clonal and transcriptional landscape of lymphocytes. Nat Commun. 2019; 10: 3120 M Singh, G Al-Eryani, S Carswell, JM Ferguson, J Blackburn, K Barton, ... | 9 | |
Interactive visualisation of raw nanopore signal data with Squigualiser H Samarakoon, K Liyanage, JM Ferguson, S Parameswaran, ... Biorxiv, 2024.02. 19.581111, 2024 | 4 | 2024 |
CAR+ and CAR− T cells share a differentiation trajectory into an NK-like subset after CD19 CAR T cell infusion in patients with B cell malignancies RHY Louie, C Cai, J Samir, M Singh, IW Deveson, JM Ferguson, TG Amos, ... Nature Communications 14 (1), 7767, 2023 | 3 | 2023 |
Epidemiological and genomic analysis of a Sydney hospital COVID-19 outbreak E Tennant, M Figtree, J Tallon, RA Bull, M Yeang, IW Deveson, ... medRxiv, 2021.02. 17.21251943, 2021 | 3 | 2021 |
Simulation of nanopore sequencing signal data with tunable parameters H Gamaarachchi, JM Ferguson, H Samarakoon, K Liyanage, IW Deveson Genome Research 34 (5), 778-783, 2024 | 1 | 2024 |
Nanopore sequencing and data analysis for base-resolution genome-wide 5-methylcytosine profiling A Angeloni, J Ferguson, O Bogdanovic Chromatin: Methods and Protocols, 75-94, 2022 | 1 | 2022 |
Nanopore-and AI-empowered metagenomic viability inference H Urel, S Benassou, T Reska, H Marti, E Rayo, EJ Martin, M Schloter, ... bioRxiv, 2024.06. 10.598221, 2024 | | 2024 |