Research output per year
Research output per year
Personal profile
Author IDs
ORCID iD: 0000-0002-5229-7470
Scopus Author ID: 57217500013
Google Scholar Profile: V6Ubb-oAAAAJ
Impact
Qualifications (Brief)
PhD (CityU)
Biography
Prof. Chen is a highly motivated researcher who holds a BSc in Computer Science from the University of Nottingham, an MSc in Web Science and Big Data Analytics from University College London, and a PhD in Computer Science from City University of Hong Kong. Her research area is computational biology, and she has published high-impact SCI papers in journals such as Nature Communications, Nucleic Acids Research, The Lancet Digital Health, etc. In Dec 2023, she joined the Department of Biomedical Sciences as an assistant professor. She is passionate about applying computer science and artificial intelligence to solve critical challenges in biomedical fields, such as cancer, complex diseases, and animal health.
Research Interests/Areas
Prof. Chen is dedicated to advancing research at the intersection of computer science and biomedicine, with a primary emphasis on developing computational tools and platforms that can address critical issues in cancer, complex diseases, and animal health. Her research interests span four distinct domains: Genomic Structural Aberrations, Single-Cell and Spatial Omics, AI in Healthcare, and Online Biomedical Platforms. These areas are essential for advancing computational biology and its contribution to the field of biomedical sciences.
- Genomic Structural Aberrations
To develop specialized tools for the detection and analysis of genomic aberrations, such as single nucleotide variations (SNVs), copy number variations (CNVs), and complex structural variations (CSVs). To identify the aberration biomarkers associated with multiple cancers and complex diseases for precision medicine. - Single-Cell and Spatial Omics
To design computational algorithms tailored for the analysis of bulk, single-cell, and spatial omics data. To address the challenges such as imputing missing data, dimension reduction, clustering, data integration, and more. - AI in Healthcare
To build diagnostic and prognostic AI models for various conditions, including cancer and complex diseases in humans and animals. - Online Biomedical Platforms
To create user-friendly online webservers and databases that offer integrated analysis pipelines and interactive visualization interfaces. To enable non-bioinformaticians to explore complex biological data with simple mouse operations.
Expertise related to UN Sustainable Development Goals
In 2015, UN member states agreed to 17 global Sustainable Development Goals (SDGs) to end poverty, protect the planet and ensure prosperity for all. This person’s work contributes towards the following SDG(s):
Fingerprint
Dive into the research topics where Lingxi CHEN is active. These topic labels come from the works of this person. Together they form a unique fingerprint.
- 1 Similar Profiles
Collaborations from the last five years
Recent external collaboration on country/territory level. Dive into details by clicking on the dots or
-
Incorporating cell hierarchy to decipher the functional diversity of single cells
Chen, L. & Li, S. C., 25 Jan 2023, In: Nucleic acids research. 51, 2, e9.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile9 Citations (Scopus)63 Downloads (CityUHK Scholars) -
Topology entropy: Enhancing graph partitioning for TAD identification and single-cell clustering
Liang, Q., Zhao, S., Chen, L. & Li, S. C., 2025, In: Computational and Structural Biotechnology Journal. 27, p. 1864-1886 23 p.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile5 Downloads (CityUHK Scholars) -
A novel deep generative model for mRNA vaccine development: Designing 5′ UTRs with N1-methyl-pseudouridine modification
Tang, X. (Co-first Author), Huo, M. (Co-first Author), Chen, Y. (Co-first Author), Huang, H. (Co-first Author), Qin, S., Luo, J., Qin, Z., Jiang, X., Liu, Y., Duan, X., Wang, R., Chen, L., Li, H., Fan, N., He, Z., He, X., Shen, B., Li, S. C. & Song, X., Apr 2024, In: Acta Pharmaceutica Sinica B. 14, 4, p. 1814-1826 13 p.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile7 Citations (Scopus)151 Downloads (CityUHK Scholars) -
Detecting tipping points of complex diseases by network information entropy
Lyu, C., Chen, L. & Liu, X., Jul 2024, In: Briefings in Bioinformatics. 25, 4, bbae311.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile3 Citations (Scopus)63 Downloads (CityUHK Scholars) -
Identifying T-cell clubs by embracing the local harmony between TCR and gene expressions
Zou, Y. (Co-first Author), Luo, J. (Co-first Author), Chen, L., Wang, X., Liu, W., Wang, R. H. & Li, S. C., Dec 2024, In: Molecular Systems Biology. 20, 12, p. 1329-1345Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile41 Downloads (CityUHK Scholars)
-
SSF-CityUHK: AI-assisted High-Throughput Identification of Natural and Synthetic Bioactive Peptides with Clinical Potential
HUANG, Y. (Principal Investigator / Project Coordinator), MA, J. (Co-Principal Investigator), WANG, L. (Co-Principal Investigator), WENG, J. (Co-Principal Investigator), CHEN, L. (Co-Investigator) & ZHANG, E. L. (Co-Investigator)
1/06/25 → …
Project: Research
-
NSFC-YPC-HK: Integrated Spatial Transcriptome Analysis and Algorithms for AI-Enabled Cancer Diagnosis
CHEN, L. (Principal Investigator / Project Coordinator)
1/01/25 → …
Project: Research
-
ASDC_Sub: Futian Research Project: Building AI-Enabled Cancer Diagnostic Model With Ligand-Receptor Interaction Biomarkers Through Spatial Transcriptome
CHEN, L. (Principal Investigator / Project Coordinator) & YANG, M. (Co-Investigator)
1/04/24 → …
Project: Research
-
ECS: Structural Information Theory and Its Applications to Spatiotemporal Dynamics in Spatial Transcriptomics
CHEN, L. (Principal Investigator / Project Coordinator)
1/01/26 → …
Project: Research
Press/Media
-
Thirty-two outstanding scientists at CityUHK recognised by national funding; Scholar from the Department of Biomedical Engineering receives highest honour for young scientists
XU, C., FU, B., HOU, C., WANG, W., CHU, J.-E., QIN, Y., HOU, J., DONG, M., MA, J., ZHANG, Z., ZHANG, G., JIAO, D., YIN, X., CHEN, L., WU, Y., WU, G., SU, W., XU, J., HE, J., LI, N., ZHU, F., ZHAO, L., DUAN, P., XU, Y. J., LIU, C., LIU, M., CUI, L., KWOK, C. K., TSANG, S. W., ZHANG, Q., WANG, X. S. & WU, W.
25/09/24
1 item of Media coverage
Press/Media: Press / Media
Thesis
-
Algorithm and Platform for Cancer Single Cell DNA
CHEN, L. (Author), LI, S. (Supervisor), 23 Sept 2020Student thesis: Doctoral Thesis