Author

Emma Laks

BC Cancer Agency

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Genomics· 3 Bioinformatics· 2

Signature Assays, Organisms & Methods

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Organism:human· 5 Research Focus:clustering· 3 Approach:statistical model· 3 Research Focus:cell type annotation· 2 Approach:experimental assay· 2 Research Focus:gene regulatory network inference· 2 Assay:spatial transcriptomics· 2 Approach:benchmark study· 1

Frequent Co-Authors

Samuel A. J. R. AparicioiD· 5 shared Andrew McPhersoniD· 4 shared Daniel LaiiD· 4 shared Beixi WangiD· 3 shared Ciara H. O’FlanaganiD· 3 shared Farhia KabeeriD· 3 shared Jazmine BrimhalliD· 3 shared Justina BieleiD· 3 shared

Activity by Year

2018-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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5 shared papersGenomics

Samuel A. J. R. AparicioORCID

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Author profile →

5 papers

Recent·Most cited

Serval: A modular framework for decoding imaging based spatial transcriptomics data

Jenkin Tsui, Naila Adam, Woongcheol Choi, Luna Y Liu, C. Cárcamo Flores, Shadi Ansari, Esther Kong, Yukta Thapliyal, Hakwoo Lee, Shahid Haider, Issac Von Riedemann, Ciara H. O’Flanagan, Mohammad Al Sa’d, Bruno Albuquerque, Hamid Raza Ali, , Nicholas A. Walton

Serval is a modular framework for decoding spatial transcriptomics data that introduces Cosine, a method improving transcript recovery and correlation with expression references.

Bioinformatics · Sep 27, 2026Peer-reviewedBioinformatics

Expansion Sequencing: Spatially Precise In Situ Transcriptomics in Intact Biological Systems

Shahar Alon, Daniel Goodwin, Anubhav Sinha, Asmamaw T. Wassie, Fei Chen, Evan R Daugharthy, Yosuke Bando, Atsushi Kajita, Andrew G. Xue, Karl Marrett, Robert Prior, Yi Cui, Andrew C. Payne, Chun‐Chen Yao, Ho‐Jun Suk, , Kirsty Sawicka

ExSeq enables multiplexed RNA mapping at nanoscale resolution by expanding biological specimens for in situ sequencing.

Science · Jan 28, 2021Peer-reviewedGenomics

Epiclomal: probabilistic clustering of sparse single-cell DNA methylation data

Camila P. E. de Souza, Mirela Andronescu, Tehmina Masud, Farhia Kabeer, Justina Biele, Emma Laks, Daniel Lai, Patricia Ye, Jazmine Brimhall, Beixi Wang, Edmund Su, Tony Hui, Qi Cao, Marcus Wong, Michelle Moksa, , Sohrab P. Shah

Epiclomal clusters sparse single-cell DNA methylation data and imputes missing values, outperforming non-probabilistic methods and revealing sub-clonal methylation patterns in tumour genomes.

PLoS Computational Biology · Sep 23, 2020Peer-reviewedGenomics

clonealign: statistical integration of independent single-cell RNA & DNA-seq from human cancers

Kieran R. Campbell, Adi Steif, Emma Laks, Hans Zahn, Daniel Lai, Andrew McPherson, Hossein Farahani, Farhia Kabeer, Ciara H. O’Flanagan, Justina Biele, Jazmine Brimhall, Beixi Wang, Pascale Walters, Alexandre Bouchard‐Côté, Samuel A. J. R. Aparicio, Sohrab P. Shah

clonealign integrates single-cell RNA and DNA sequencing data from cancer samples to identify clone-specific gene expression patterns and dysregulated pathways.

Genome biology · Mar 12, 2019Peer-reviewedBioinformatics

Resource: Scalable whole genome sequencing of 40,000 single cells identifies stochastic aneuploidies, genome replication states and clonal repertoires

Emma Laks, Hans Zahn, Daniel Lai, Andrew McPherson, Adi Steif, Jazmine Brimhall, Justina Biele, Beixi Wang, Tehmina Masud, Diljot S. Grewal, Cydney B Nielsen, Samantha Leung, Viktoria Bojilova, Maia A. Smith, Oleg Golovko, , Samuel A. J. R. Aparicio

bioRxiv · Sep 13, 2018 · PreprintGenomics