Vincent Hanlon
Postdoctoral Research Associate
Research group: Plant-parasitic interactions
Biography
I work on a hypervariable gene in plant-parasitic nematodes that is thought to have more than 1000 alleles. Strangely, these alleles seem not to be inherited but rather result from somatic rearrangements in just a few cells.
Before joining the Crop Science Centre, I did protocol development for single-cell DNA sequencing (Strand-seq), made an R package to detect and genotype inversions, co-developed a phasing technique that uses epigenetic imprinting to infer which parent alleles were inherited from, and estimated the rate at which heritable somatic mutations accumulate in Sitka spruce trees. I use a mix of bioinformatics, wet lab molecular biology, and (once upon a time) fieldwork.
I did my PhD with Peter Lansdorp, Diana Spierings, and Victor Guryev (University of Groningen / BC Cancer Research Centre; 2023), and I did my MSc with Sally Aitken (University of British Columbia; 2018). Before that I studied mathematics and philosophy (Queen’s University, Canada; 2014).
Publications
Publication
Parent-of-origin detection and chromosome-scale haplotyping using long-read DNA methylation sequencing and Strand-seq.
Date: 11 January 2023
Contributors: Vahid Akbari, Vincent C.T. Hanlon, Kieran O’Neill, Louis Lefebvre, Kasmintan A. Schrader, Peter M. Lansdorp, Steven J.M. Jones
Journal: Cell Genomics
Publication
Chromosome-Length Haplotypes with StrandPhaseR and Strand-seq
Date: 7 November 2022
Contributors: Vincent C. T. Hanlon, David Porubsky & Peter M. Lansdorp
Journal: In Haplotyping : Methods and Protocols. New York, NY : Springer US
Publication
A survey of current methods to detect and genotype inversions
Date: 1 September 2022
Contributors: Vincent C. T. Hanlon, Peter M. Lansdorp, Victor Guryev
Journal: Human Mutation
Publication
Mapping of sister chromatid exchange events and genome alterations in single cells
Date: 27 May 2022
Contributors: Zeid Hamadeh, Vincent Hanlon, Peter M. Lansdorp
Journal: Methods
Publication
Benchmarking challenging small variants with linked and long reads
Date: 11 May 2022
Contributors: Justin Wagner, Nathan D. Olson, Lindsay Harris, Ziad Khan, Jesse Farek, Medhat Mahmoud, Ana Stankovic, Vladimir Kovacevic, Byunggil Yoo, Neil Miller, Jeffrey A. Rosenfeld, Bohan Ni, Samantha Zarate, Melanie Kirsche, Sergey Aganezov, Michael C. Schatz, Giuseppe Narzisi, Marta Byrska-Bishop, Wayne Clarke, Uday S. Evani, Justin M. Zook
Journal: Cell Genomics
Publication
Construction of Strand-seq libraries in open nanoliter arrays
Date: 24 January 2022
Contributors: Vincent C.T. Hanlon, Daniel D. Chan, Zeid Hamadeh, Yanni Wang, Carl-Adam Mattsson, Diana C.J. Spierings, Robin J.N. Coope, Peter M. Lansdorp
Journal: Cell Reports Methods
Publication
A phylogenomic approach reveals a low somatic mutation rate in a long-lived plant
Date: 11 March 2020
Contributors: Adam J. Orr, Amanda Padovan, David Kainer, Carsten Külheim, Lindell Bromham, Carlos Bustos-Segura, William Foley, Tonya Haff, Ji-Fan Hsieh, Alejandro Morales-Suarez, Reed A. Cartwright and Robert Lanfear
Journal: Evolution Letters
