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Shane Kelly, Mandeep Singh, Amanda Russell, Katherine J.L. Jackson, Timothy J. Peters, Andrew Carr, Anthony D. Kelleher, Matt Field, Matthew Silsby, Dan Suan, Christopher C. Goodnow

Kit Moloney-Geany, Michael A. Black, Robert C. Day, Parry Guilford, Michael J. Dunnet

Sonam Dukda, Manoharan Kumar, Andrew Calcino, Ulf Schmitz, Matt A. Field

Elizabeth G. Schmitz, Malachi Griffith, Obi L. Griffith, Megan A. Cooper

Mandeep Singh, Raymond H. Y. Louie, Jerome Samir, Matthew A. Field, Claire Milthorpe, Thiruni Adikari, Joseph Mackie, Ellise Roper, Megan Faulks, Katherine J. L. Jackson, Andrew Calcino, Melinda Y. Hardy, Piers Blombery, Timothy G. Amos, Ira W. Deveson, Helen Vander Wende, Stephen N. Floor, Scott A. Read, Dmitri Shek, Antoine Guerin, Cindy S. Ma, Stuart G. Tangye, Antonio Di Sabatino, Marco V. Lenti, Alessandra Pasini, Rachele Ciccocioppo, Golo Ahlenstiel, Dan Suan, Jason A. Tye-Din, Christopher C. Goodnow, Fabio Luciani

Rugare Maruzani, Liam Brierley, Andrea Jorgensen, Anna Fowler

Daniel Andersson, Firaol Tamiru Kebede, Mandy Escobar, Tobias Österlund, Anders Ståhlberg

Xudong Xiang, Bowen Lu, Dongyang Song, Jie Li, Kunxian Shu, Dan Pu

Vincent Sater, Pierre-Julien Viailly, Thierry Lecroq, Élise Prieur-Gaston, Élodie Bohers, Mathieu Viennot, Philippe Ruminy, Hélène Dauchel, Pierre Vera, Fabrice Jardin

Tobias Österlund, Stefan Filges, Gustav Johansson, Anders Ståhlberg

Sander N Goossens, Tim H Heupink, Elise De Vos, Anzaan Dippenaar, Margaretha De Vos, Rob Warren, Annelies Van Rie

August E. Woerner, Sammed Mandape, Jonathan L. King, Melissa Muenzler, Benjamin Crysup, Bruce Budowle

Abdul Rezzak Hamzeh, T. Daniel Andrews, Matt A. Field

Vincent Sater, Pierre-Julien Viailly, Thierry Lecroq, Élise Prieur-Gaston, Élodie Bohers, Mathieu Viennot, Philippe Ruminy, Hélène Dauchel, Pierre Vera, Fabrice Jardin

Mandeep Singh, Katherine J.L. Jackson, Jing J. Wang, Peter Schofield, Matt A. Field, David Koppstein, Timothy J. Peters, Deborah L. Burnett, Simone Rizzetto, Damien Nevoltris, Etienne Masle-Farquhar, Megan L. Faulks, Amanda Russell, Divya Gokal, Asami Hanioka, Keisuke Horikawa, Alexander D. Colella, Timothy K. Chataway, James Blackburn, Tim R. Mercer, David B. Langley, D. Margaret Goodall, Roy Jefferis, Muralikrishna Gangadharan Komala, Anthony D. Kelleher, Dan Suan, Maureen Rischmueller, Daniel Christ, Robert Brink, Fabio Luciani, Tom P. Gordon, Christopher C. Goodnow, Joanne H. Reed

Vincent Sater, Pierre-Julien Viailly, Thierry Lecroq, Philippe Ruminy, Caroline Bérard, Élise Prieur-Gaston, Fabrice Jardin

Nusrat J. Epsi, Sukanya Panja, Antonina Mitrofanova

Zachary S. Bohannan, Antonina Mitrofanova

Chang Xu, Xiujing Gu, Raghavendra Padmanabhan, Zhong Wu, Quan Peng, John DiCarlo, Yexun Wang

Maram Shouman, Nahla Belal, Yasser El Sonbaty

2025	Lymphoma driver mutations at the root of somatic evolution of nerve-damaging autoantibodies in myelin associated glycoprotein neuropathy Journal of Autoimmunity Shane Kelly, Mandeep Singh, Amanda Russell, Katherine J.L. Jackson, Timothy J. Peters, Andrew Carr, Anthony D. Kelleher, Matt Field, Matthew Silsby, Dan Suan, Christopher C. Goodnow
2025	A set cover algorithm identifies minimal circulating tumour DNA sequencing targets for colorectal cancer detection Scientific Reports Kit Moloney-Geany, Michael A. Black, Robert C. Day, Parry Guilford, Michael J. Dunnet
2025	Increasing pathogenic germline variant diagnosis rates in precision medicine: current best practices and future opportunities Human Genomics Sonam Dukda, Manoharan Kumar, Andrew Calcino, Ulf Schmitz, Matt A. Field
2025	Identifying genetic errors of immunity due to mosaicism Journal of Experimental Medicine Elizabeth G. Schmitz, Malachi Griffith, Obi L. Griffith, Megan A. Cooper
2025	Expanded T cell clones with lymphoma driver somatic mutations accumulate in refractory celiac disease Science Translational Medicine Mandeep Singh, Raymond H. Y. Louie, Jerome Samir, Matthew A. Field, Claire Milthorpe, Thiruni Adikari, Joseph Mackie, Ellise Roper, Megan Faulks, Katherine J. L. Jackson, Andrew Calcino, Melinda Y. Hardy, Piers Blombery, Timothy G. Amos, Ira W. Deveson, Helen Vander Wende, Stephen N. Floor, Scott A. Read, Dmitri Shek, Antoine Guerin, Cindy S. Ma, Stuart G. Tangye, Antonio Di Sabatino, Marco V. Lenti, Alessandra Pasini, Rachele Ciccocioppo, Golo Ahlenstiel, Dan Suan, Jason A. Tye-Din, Christopher C. Goodnow, Fabio Luciani
2024	Benchmarking UMI-aware and standard variant callers for low frequency ctDNA variant detection BMC Genomics Rugare Maruzani, Liam Brierley, Andrea Jorgensen, Anna Fowler
2024	Principles of digital sequencing using unique molecular identifiers Molecular Aspects of Medicine Daniel Andersson, Firaol Tamiru Kebede, Mandy Escobar, Tobias Österlund, Anders Ståhlberg
2023	Evaluating the performance of low-frequency variant calling tools for the detection of variants from short-read deep sequencing data Scientific Reports Xudong Xiang, Bowen Lu, Dongyang Song, Jie Li, Kunxian Shu, Dan Pu
2022	Methods in Molecular Biology Vincent Sater, Pierre-Julien Viailly, Thierry Lecroq, Élise Prieur-Gaston, Élodie Bohers, Mathieu Viennot, Philippe Ruminy, Hélène Dauchel, Pierre Vera, Fabrice Jardin
2022	UMIErrorCorrect and UMIAnalyzer: Software for Consensus Read Generation, Error Correction, and Visualization Using Unique Molecular Identifiers Clinical Chemistry Tobias Österlund, Stefan Filges, Gustav Johansson, Anders Ståhlberg
2022	Detection of minor variants in Mycobacterium tuberculosis whole genome sequencing data Briefings in Bioinformatics Sander N Goossens, Tim H Heupink, Elise De Vos, Anzaan Dippenaar, Margaretha De Vos, Rob Warren, Annelies Van Rie
2021	Detecting pathogenic variants in autoimmune diseases using high‐throughput sequencing Immunology & Cell Biology Matt A Field
2021	Reducing noise and stutter in short tandem repeat loci with unique molecular identifiers Forensic Science International: Genetics August E. Woerner, Sammed Mandape, Jonathan L. King, Melissa Muenzler, Benjamin Crysup, Bruce Budowle
2021	Methods in Molecular Biology Abdul Rezzak Hamzeh, T. Daniel Andrews, Matt A. Field
2020	UMI-VarCal: a new UMI-based variant caller that efficiently improves low-frequency variant detection in paired-end sequencing NGS libraries Bioinformatics Vincent Sater, Pierre-Julien Viailly, Thierry Lecroq, Élise Prieur-Gaston, Élodie Bohers, Mathieu Viennot, Philippe Ruminy, Hélène Dauchel, Pierre Vera, Fabrice Jardin
2020	Lymphoma Driver Mutations in the Pathogenic Evolution of an Iconic Human Autoantibody Cell Mandeep Singh, Katherine J.L. Jackson, Jing J. Wang, Peter Schofield, Matt A. Field, David Koppstein, Timothy J. Peters, Deborah L. Burnett, Simone Rizzetto, Damien Nevoltris, Etienne Masle-Farquhar, Megan L. Faulks, Amanda Russell, Divya Gokal, Asami Hanioka, Keisuke Horikawa, Alexander D. Colella, Timothy K. Chataway, James Blackburn, Tim R. Mercer, David B. Langley, D. Margaret Goodall, Roy Jefferis, Muralikrishna Gangadharan Komala, Anthony D. Kelleher, Dan Suan, Maureen Rischmueller, Daniel Christ, Robert Brink, Fabio Luciani, Tom P. Gordon, Christopher C. Goodnow, Joanne H. Reed
2020	UMI-Gen: A UMI-based read simulator for variant calling evaluation in paired-end sequencing NGS libraries Computational and Structural Biotechnology Journal Vincent Sater, Pierre-Julien Viailly, Thierry Lecroq, Philippe Ruminy, Caroline Bérard, Élise Prieur-Gaston, Fabrice Jardin
2020	Detection Methods in Precision Medicine Nusrat J. Epsi, Sukanya Panja, Antonina Mitrofanova
2019	Advances in Clinical Chemistry
2019	Calling Variants in the Clinic: Informed Variant Calling Decisions Based on Biological, Clinical, and Laboratory Variables Computational and Structural Biotechnology Journal Zachary S. Bohannan, Antonina Mitrofanova
2019	smCounter2: an accurate low-frequency variant caller for targeted sequencing data with unique molecular identifiers Bioinformatics Chang Xu, Xiujing Gu, Raghavendra Padmanabhan, Zhong Wu, Quan Peng, John DiCarlo, Yexun Wang
2018	Lecture Notes in Computer Science Maram Shouman, Nahla Belal, Yasser El Sonbaty
2018	A review of somatic single nucleotide variant calling algorithms for next-generation sequencing data Computational and Structural Biotechnology Journal Chang Xu
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