Author

Shaun D. Jackman

BC Cancer AgencyORCID 0000-0002-9275-5966Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Assay:whole-genome sequencing· 4 Research Focus:benchmarking· 3 Research Focus:genome assembly· 3 Organism:human· 3 Approach:statistical model· 3 Assay:long-read sequencing· 2 Research Focus:variant calling· 2 Approach:benchmark study· 1

Frequent Co-Authors

İnanç BiroliD· 3 shared Lauren CoombeiD· 3 shared René L. WarreniD· 3 shared Benjamin P. VandervalkiD· 2 shared Jöerg BohlmanniD· 2 shared Justin ChuiD· 2 shared Steven J.M. JonesiD· 2 shared Aaron M. WengeriD· 1 shared

Activity by Year

2018-2020 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 24 mutual co-author links

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3 shared papersGenomics

İnanç BirolORCID

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4 papers

Recent·Most cited

Largest Complete Mitochondrial Genome of a Gymnosperm, Sitka Spruce (Picea sitchensis), Indicates Complex Physical Structure

Shaun D. Jackman, Lauren Coombe, René L. Warren, Heather Kirk, Eva Trinh, Tina MacLeod, Stephen Pleasance, Pawan K. Pandoh, Yongjun Zhao, Robin Coope, Jean Bousquet, Jöerg Bohlmann, Steven J.M. Jones, İnanç Birol

The paper sequences and assembles the largest complete mitochondrial genome of a gymnosperm, Sitka spruce, revealing a complex multipartite structure.

Genome Biology and Evolution · May 20, 2020Peer-reviewedGenomics

A robust benchmark for germline structural variant detection

Justin M. Zook, Nancy Fisher Hansen, Nathan D. Olson, Lesley M. Chapman, James C. Mullikin, Chunlin Xiao, Stephen T. Sherry, Sergey Koren, Adam M. Phillippy, Paul Christopher Boutros, Sayed Mohammad Ebrahim Sahraeian, Vincent Huang, Alexandre Rouette, Noah Alexander, Christopher E. Mason, , Marc Salit

Genome in a Bottle benchmark of 12745 sequence-resolved insertions and deletions of 50 bp or more, integrating 19 calling methods, scores false negatives and false positives alike.

bioRxiv · Jul 18, 2019 · PreprintGenomics

Tigmint: Correcting Assembly Errors Using Linked Reads From Large Molecules

Shaun D. Jackman, Lauren Coombe, Justin Chu, René L. Warren, Benjamin P. Vandervalk, Sarah Yeo, Zhuyi Xue, Hamid Mohamadi, Jöerg Bohlmann, Steven J.M. Jones, İnanç Birol

Tigmint corrects genome assembly errors using linked reads from long molecules, improving assembly contiguity and reducing misassemblies.

BMC Bioinformatics · Oct 26, 2018Peer-reviewedGenomics

ARKS: chromosome-scale scaffolding of human genomedrafts with linked read kmers

Lauren Coombe, Jessica J Zhang, Benjamin P. Vandervalk, Justin Chu, Shaun D. Jackman, İnanç Birol, René L. Warren

ARKS improves human genome assemblies using linked read kmers, achieving five-fold better contiguity than baseline methods.

BMC Bioinformatics · Jun 20, 2018Peer-reviewedBioinformatics