70 Publications (Page 1 of 3)
2026
Cell type annotation using large language models (LLMs) and CytoAnalyst
 
Dietary Lycopene Intake and Gastric Cancer Risk: Findings from a Case-Control Study. Nutrients
. | Journal Article
2025
A comprehensive review of cancer survival prediction using multi-omics integration and clinical variables.
 
DSCC: disease subtyping using spectral clustering and community detection from consensus networks
Tran, Dao⋅Pham, Van-Dung⋅Nguyen, Ha⋅Bya, Phi⋅Qdaisat, Aiham⋅Phan, Liem Minh⋅Yeung, Sai-Ching Jim and Nguyen, Tin
Briefings in bioinformatics, vol. 26, (no. 6), Nov 2025. | Journal Article
 
DSCC: Disease subtyping using Spectral clustering and Community detection from Consensus networks
 
Identifying representative sequences of protein families using submodular optimization
Nguyen, Ha⋅Nguyen, Hung⋅Nguyen, Phuong⋅Luu, Anh N⋅Cantu, David C and Nguyen, Tin
Scientific reports, vol. 15, (no. 1), pp. 1069, Jan 7, 2025. | Journal Article
 
Plant-based Diet Index and Risk of Pancreatic Cancer: Findings from a Prospective Cohort Study. Cancer Epidemiology, Biomarkers & Prevention
. | Journal Article
2024
CCPA: cloud-based, self-learning modules for consensus pathway analysis using GO, KEGG and Reactome
Nguyen, Ha⋅Pham, Van-Dung⋅Nguyen, Hung⋅Tran, Bang⋅Petereit, Juli and Nguyen, Tin
Briefings in bioinformatics, vol. 25, (no. Supplement_1), Jul 23, 2024. | Journal Article
 
CCPA: Cloud-based, self-learning modules for Consensus Pathway Analysis using GO, KEGG and Reactome
 
Current approaches and outstanding challenges of functional annotation of metabolites: a comprehensive review
Nguyen, Quang-Huy⋅Nguyen, Ha⋅Oh, Edwin C and Nguyen, Tin
Briefings in bioinformatics, vol. 25, (no. 6), Sep 23, 2024. | Journal Article
 
Current approaches and outstanding challenges of functional annotation of metabolites: a comprehensive review
 
Fourteen years of cellular deconvolution: methodology, applications, technical evaluation and outstanding challenges. Nucleic Acids Research
. | Journal Article
 
RCPA: An Open-Source R Package for Data Processing, Differential Analysis, Consensus Pathway Analysis, and Visualization.
Nguyen, Hung⋅Nguyen, Ha⋅Maghsoudi, Zeynab⋅Tran, Bang⋅Draghici, Sorin and Nguyen, Tin
Current protocols, vol. 4, (no. 5), pp. e1036, May 2024. | Journal Article
 
RCPA: An Open‐Source R Package for Data Processing, Differential Analysis, Consensus Pathway Analysis, and Visualization. Current Protocols
. | Journal Article
2023
Acyltransferase families that act on thioesters: Sequences, structures, and mechanisms.
de Carvalho, Caio C⋅Murray, Ian P⋅Nguyen, Hung⋅Nguyen, Tin and Cantu, David C
Proteins, September 30, 2023. | Journal Article
 
A novel approach for predicting upstream regulators (PURE) that affect gene expression.
Nguyen, Tuan-Minh⋅Craig, Douglas B⋅Tran, Duc⋅Nguyen, Tin and Draghici, Sorin
Scientific reports, vol. 13, (no. 1), pp. 18571, October 30, 2023. | Journal Article
 
A robust and accurate single-cell data trajectory inference method using ensemble pseudotime.
Zhang, Yifan⋅Zhang, Yifan⋅Tran, Duc⋅Tran, Duc⋅Nguyen, Tin⋅Nguyen, Tin⋅Dascalu, Sergiu M⋅Dascalu, Sergiu M⋅Harris, Frederick C and Harris, Frederick C
BMC bioinformatics, vol. 24, (no. 1), pp. 55, February 20, 2023. | Journal Article
 
Mouse genomic associations with in vitro sensitivity to simulated space radiation.
Cekanaviciute, Egle⋅Tran, Duc⋅Nguyen, Hung⋅Lopez Macha, Alejandra⋅Pariset, Eloise⋅Langley, Sasha⋅Babbi, Giulia⋅Malkani, Sherina⋅Penninckx, Sébastien⋅Schisler, Jonathan C⋅Nguyen, Tin⋅Karpen, Gary H and Costes, Sylvain V
Life sciences in space research, vol. 36, pp. 47-58, February 2023. | Journal Article
2022
A comprehensive survey of the approaches for pathway analysis using multi-omics data integration
Maghsoudi, Zeynab⋅Nguyen, Ha and Tavakkoli, Alireza
Briefings in Bioinformatics. | Journal Article
 
A novel method for single-cell data imputation using subspace regression
Tran, Duc⋅Tran, Bang⋅Nguyen, Hung and Nguyen, Tin
Scientific Reports (Nature Publisher Group), vol. 12, (no. 1), 2022. | Journal Article
 
DrGA: cancer driver gene analysis in a simpler manner.
Nguyen, Quang-Huy⋅Nguyen, Tin and Le, Duc-Hau
BMC bioinformatics, vol. 23, (no. 1), pp. 86, March 5, 2022. | Journal Article
 
Identification and Validation of a Novel Three Hub Long Noncoding RNAs With m6A Modification Signature in Low-Grade Gliomas.
Nguyen, Quang-Huy⋅Nguyen, Tin and Le, Duc-Hau
Frontiers in molecular biosciences, vol. 9, pp. 801931, 2022. | Journal Article
 
Provenance documentation to enable explainable and trustworthy AI: A literature review
Kale, Amruta⋅Nguyen, Tin⋅Harris, Frederick C.⋅Li, Chenhao⋅Zhang, Jiyin and Ma, Xiaogang
Data Intelligence, pp. 1–41. | Journal Article
 
Quantitative proteomic analytic approaches to identify metabolic changes in the medial prefrontal cortex of rats exposed to space radiation.
Laiakis, Evagelia C⋅Pinheiro, Maisa⋅Nguyen, Tin⋅Nguyen, Hung⋅Beheshti, Afshin⋅Dutta, Sucharita M⋅Russell, William K⋅Emmett, Mark R and Britten, Richard A
Frontiers in physiology, vol. 13, pp. 971282, 2022. | Journal Article
 
scCAN: single-cell clustering using autoencoder and network fusion
Tran, Bang⋅Tran, Duc⋅Nguyen, Hung⋅Ro, Seungil and Nguyen, Tin
Scientific Reports (Nature Publisher Group), vol. 12, (no. 1), 2022. | Journal Article