Research

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2022

Single-cell multiomics reveal the scale of multilayered adaptations enabling CLL relapse during venetoclax therapy

Rachel Thijssen, Luyi Tian, Mary Ann Anderson, Christoffer Flensburg, Andrew Jarratt, Alexandra L. Garnham, Jafar S. Jabbari, Hongke Peng, Thomas E. Lew, Charis E. Teh, Quentin Gouil, Angela Georgiou, Tania Tan, Tirta M. Djajawi, Constantine S. Tam, John F. Seymour, Piers Blombery, Daniel H. D. Gray, Ian J. Majewski, Matthew E. Ritchie, Andrew W. Roberts, David C. S. Huang

Blood · 17 Nov 2022

Immunology Nanopore sequencing

The expanding vistas of spatial transcriptomics

Luyi Tian, Fei Chen, Evan Z. Macosko

Nature Biotechnology · 03 Oct 2022

Review Spatial transcriptomics

2021

Comprehensive characterization of single-cell full-length isoforms in human and mouse with long-read sequencing

Luyi Tian, Jafar S. Jabbari, Rachel Thijssen, Quentin Gouil, Shanika L. Amarasinghe, Oliver Voogd, Hasaru Kariyawasam, Mei R. M. Du, Jakob Schuster, Changqing Wang, Shian Su, Xueyi Dong, Charity W. Law, Alexis Lucattini, Yair David Joseph Prawer, Coralina Collar-Fernández, Jin D. Chung, Timur Naim, Audrey Chan, Chi Hai Ly, Gordon S. Lynch, James G. Ryall, Casey J. A. Anttila, Hongke Peng, Mary Ann Anderson, Christoffer Flensburg, Ian Majewski, Andrew W. Roberts, David C. S. Huang, Michael B. Clark, Matthew E. Ritchie

Genome Biology · 11 Nov 2021

Nanopore sequencing Alternative splicing

Single-cell immune profiling reveals distinct immune response in asymptomatic COVID-19 patients

Xiang-Na Zhao, Yue You, Xiao-Ming Cui, Hui-Xia Gao, Guo-Lin Wang, Sheng-Bo Zhang, Lin Yao, Li-Jun Duan, Ka-Li Zhu, Yu-Ling Wang, Li Li, Jian-Hua Lu, Hai-Bin Wang, Jing-Fang Fan, Huan-Wei Zheng, Er-Hei Dai, Lu-Yi Tian, Mai-Juan Ma

Signal Transduction and Targeted Therapy · 16 Sep 2021

SARS-CoV-2 scRNAseq

Clonal multi-omics reveals Bcor as a negative regulator of emergency dendritic cell development

Luyi Tian, Sara Tomei, Jaring Schreuder, Tom S. Weber, Daniela Amann-Zalcenstein, Dawn S. Lin, Jessica Tran, Cindy Audiger, Mathew Chu, Andrew Jarratt, Tracy Willson, Adrienne Hilton, Ee Shan Pang, Timothy Patton, Madison Kelly, Shian Su, Quentin Gouil, Peter Diakumis, Melanie Bahlo, Toby Sargeant, Lev M. Kats, Philip D. Hodgkin, Meredith O’Keeffe, Ashley P. Ng, Matthew E. Ritchie, Shalin H. Naik

Immunity · 01 Jun 2021

Immunology scRNAseq Lineage tracing

2020

A new lymphoid-primed progenitor marked by Dach1 downregulation identified with single cell multi-omics

Daniela Amann-Zalcenstein, Luyi Tian, Jaring Schreuder, Sara Tomei, Dawn S. Lin, Kirsten A. Fairfax, Jessica E. Bolden, Mark D. McKenzie, Andrew Jarratt, Adrienne Hilton, Jacob T. Jackson, Ladina Di Rago, Matthew P. McCormack, Carolyn A. de Graaf, Olivia Stonehouse, Samir Taoudi, Warren S. Alexander, Stephen L. Nutt, Matthew E. Ritchie, Ashley P. Ng, Shalin H. Naik

Nature Immunology · 19 Oct 2020

Immunology scRNAseq

2019

Benchmarking single cell RNA-sequencing analysis pipelines using mixture control experiments

Luyi Tian, Xueyi Dong, Saskia Freytag, Kim-Anh Lê Cao, Shian Su, Abolfazl JalalAbadi, Daniela Amann-Zalcenstein, Tom S. Weber, Azadeh Seidi, Jafar S. Jabbari, Shalin H. Naik, Matthew E. Ritchie

Nature Methods · 27 May 2019

scRNAseq Benchmarking