Directory

EMBO Global Investigator

2027

EMBO Global Investigator

2026

EMBO Global Investigator

EMBO,2025

EMBO Global Investigator

EMBO,2024

A*STAR Fellow

A*STAR,2024

SG 100 Women in Tech

2023

A*STAR Fellow

A*STAR,2023

My research interests and expertise include single-cell omics, spatial omics, AI, immunology, and developing novel analytical methods and databases for the integration and analyses of single-cell and spatial omics data.

Mosaic integration of spatial multi-omics with SpaMosaic.

Nature genetics – Yan Xuhua; Fang Zhaoyu; Ang Kok Siong; Olst Lynn van; Edwards Alex; Watson Thomas; Zheng Ruiqing; Zhang Di; Fan Rong; Li Min; Gate David; Chen Jinmiao (2026)

58 (5); 1126-1137

SMART: spatial multi-omic aggregation using graph neural networks and metric learning.

Nature communications – Du Zhihua; Chen Qiyi; Huang Weiliang; Chen Jinmiao; Zheng Xubin (2026)

17 (1);

Single-nucleus transcriptomics reveals a distinct microglial state and increased MSR1-mediated phagocytosis as common features across dementia subtypes.

Genome medicine – Chia Sook-Yoong; Li Mengwei; Li Zhihong; Tu Haitao; Lee Jolene Wei Ling; Qiu Lifeng; Ling Jingjing; Reynolds Richard; Albani Salvatore; Tan Eng-King; Ng Adeline Su Lyn; Chen Jinmiao; Zeng Li (2025)

17 (1); 92-114

Rediscovering publicly available single-cell data with the DISCO platform.

Nucleic acids research – Li Mengwei; Ang Kok Siong; Teo Brian; Rom Uddamvathanak; Nguyen Minh N; Maurer-Stroh Sebastian; Chen Jinmiao (2025)

53 (D1); D932-D938

Spatial dynamics of brain development and neuroinflammation.

Nature – Zhang Di; Rubio Rodríguez-Kirby Leslie A; Lin Yingxin; Wang Wenqi; Song Mengyi; Wang Li; Wang Lijun; Kanatani Shigeaki; Jimenez-Beristain Tony; Dang Yonglong; Zhong Mei; Kukanja Petra; Bao Shuozhen; Wang Shaohui; Chen Xinyi Lisa; Gao Fu; Wang Dejiang; Xu Hang; Ma Cong; Lou Xing; Liu Yang; Chen Jinmiao; Sestan Nenad; Uhlén Per; Kriegstein Arnold; Zhao Hongyu; Castelo-Branco Gonçalo; Fan Rong (2025)

647 (8088); 213-227

Septal LYVE1 macrophages control adipocyte stem cell adipogenic potential.

Science (New York, N.Y.) – Yu Xiaotong; Hu Yanan; Lim Hwee Ying; Li Ziyi; Jaitin Diego Adhemar; Yang Katharine; Kong Wan Ting; Xu Jiaqian; Bejarano David Alejandro; Bied Mathilde; Orliaguet Lucie; Rengasamy Gowshika; Chow Zachary; Lee Christopher Zhe Wei; Lum Josephine; Tian Jing; Zhang Xiao-Meng; Liu Honghao; Tan Shu Wen; Chen Jinmiao; See Peter; Loh Yuin-Han; Malleret Benoit; Baig Sonia; Yassin M Shabeer M; Toh Sue-Anne Ee Shiow; Malissen Bernard; Fu Xiujun; Kabashima Kenji; Ng Lai Guan; Blériot Camille; Liu Zhaoyuan; Sheng Lingling; Zheng Dan-Ning; Qu Junwen; Venteclef Nicolas; Su Bing; Amit Ido; Schlitzer Andreas; Angeli Veronique; Ginhoux Florent; Chakarov Svetoslav (2025)

389 (6763);

Microglial mechanisms drive amyloid-β clearance in immunized patients with Alzheimer's disease.

Nature medicine – van Olst Lynn; Simonton Brooke; Edwards Alex J; Forsyth Anne V; Boles Jake; Jamshidi Pouya; Watson Thomas; Shepard Nate; Krainc Talia; Argue Benney Mr; Zhang Ziyang; Kuruvilla Joshua; Camp Lily; Li Mengwei; Xu Hang; Norman Jeanette L; Cahan Joshua; Vassar Robert; Chen Jinmiao; Castellani Rudolph J; Nicoll James Ar; Boche Delphine; Gate David (2025)

31 (5); 1604-1616

Interpretable spatially aware dimension reduction of spatial transcriptomics with STAMP.

Nature methods – Zhong Chengwei; Ang Kok Siong; Chen Jinmiao (2024)

21 (11); 2072-2083

Deciphering spatial domains from spatial multi-omics with SpatialGlue.

Nature methods – Long Yahui; Ang Kok Siong; Sethi Raman; Liao Sha; Heng Yang; van Olst Lynn; Ye Shuchen; Zhong Chengwei; Xu Hang; Zhang Di; Kwok Immanuel; Husna Nazihah; Jian Min; Ng Lai Guan; Chen Ao; Gascoigne Nicholas R J; Gate David; Fan Rong; Xu Xun; Chen Jinmiao (2024)

21 1658-1667

ezSingleCell: an integrated one-stop single-cell and spatial omics analysis platform for bench scientists.

Nature communications – Sethi Raman; Ang Kok Siong; Li Mengwei; Long Yahui; Ling Jingjing; Chen Jinmiao (2024)

15 (1);

Unsupervised spatially embedded deep representation of spatial transcriptomics.

Genome medicine – Xu Hang; Fu Huazhu; Long Yahui; Ang Kok Siong; Sethi Raman; Chong Kelvin; Li Mengwei; Uddamvathanak Rom; Lee Hong Kai; Ling Jingjing; Chen Ao; Shao Ling; Liu Longqi; Chen Jinmiao (2024)

16 (1);

Spatially informed clustering, integration, and deconvolution of spatial transcriptomics with GraphST.

Nature communications – Long Yahui; Ang Kok Siong; Li Mengwei; Chong Kian Long Kelvin; Sethi Raman; Zhong Chengwei; Xu Hang; Ong Zhiwei; Sachaphibulkij Karishma; Chen Ao; Zeng Li; Fu Huazhu; Wu Min; Lim Lina Hsiu Kim; Liu Longqi; Chen Jinmiao (2023)

14 (1);

Establishing a human bone marrow single cell reference atlas to study ageing and diseases.

Frontiers in immunology – Lee Nicole Yee Shin; Li Mengwei; Ang Kok Siong; Chen Jinmiao (2023)

14

DISCO: a database of Deeply Integrated human Single-Cell Omics data.

Nucleic acids research – Li Mengwei; Zhang Xiaomeng; Ang Kok Siong; Ling Jingjing; Sethi Raman; Lee Nicole Yee Shin; Ginhoux Florent; Chen Jinmiao (2022)

50 (D1); D596-D602

A benchmark of batch-effect correction methods for single-cell RNA sequencing data.

Genome biology – Tran Hoa Thi Nhu; Ang Kok Siong; Chevrier Marion; Zhang Xiaomeng; Lee Nicole Yee Shin; Goh Michelle; Chen Jinmiao (2020)

21 (1);

Mapping the human DC lineage through the integration of high-dimensional techniques.

Science (New York, N.Y.) – See Peter; Dutertre Charles-Antoine; Chen Jinmiao; Günther Patrick; McGovern Naomi; Irac Sergio Erdal; Gunawan Merry; Beyer Marc; Händler Kristian; Duan Kaibo; Sumatoh Hermi Rizal Bin; Ruffin Nicolas; Jouve Mabel; Gea-Mallorquí Ester; Hennekam Raoul C M; Lim Tony; Yip Chan Chung; Wen Ming; Malleret Benoit; Low Ivy; Shadan Nurhidaya Binte; Fen Charlene Foong Shu; Tay Alicia; Lum Josephine; Zolezzi Francesca; Larbi Anis; Poidinger Michael; Chan Jerry K Y; Chen Qingfeng; Rénia Laurent; Haniffa Muzlifah; Benaroch Philippe; Schlitzer Andreas; Schultze Joachim L; Newell Evan W; Ginhoux Florent (2017)

356 (6342);

Mpath maps multi-branching single-cell trajectories revealing progenitor cell progression during development.

Nature communications – Chen Jinmiao; Schlitzer Andreas; Chakarov Svetoslav; Ginhoux Florent; Poidinger Michael (2016)

7

Cytofkit: A Bioconductor Package for an Integrated Mass Cytometry Data Analysis Pipeline.

PLoS computational biology – Chen Hao; Lau Mai Chan; Wong Michael Thomas; Newell Evan W; Poidinger Michael; Chen Jinmiao (2016)

12 (9);

Mapping the Diversity of Follicular Helper T Cells in Human Blood and Tonsils Using High-Dimensional Mass Cytometry Analysis.

Cell reports – Wong Michael T; Chen Jinmiao; Narayanan Sriram; Lin Wenyu; Anicete Rosslyn; Kiaang Henry Tan Kun; De Lafaille Maria Alicia Curotto; Poidinger Michael; Newell Evan W (2015)

11 (11); 1822-1833

High-dimensional analysis of the murine myeloid cell system.

Nature immunology – Becher Burkhard; Schlitzer Andreas; Chen Jinmiao; Mair Florian; Sumatoh Hermi R; Teng Karen Wei Weng; Low Donovan; Ruedl Christiane; Riccardi-Castagnoli Paola; Poidinger Michael; Greter Melanie; Ginhoux Florent; Newell Evan W (2014)

15 (12); 1181-1189