
Overview
Background
I got my BSc degree from the University of Natural Sciences in Vietnam. I spent the next two years working on characterisation of multi-drug resistant Mycobacterium tuberculosis with Dr Maxine Caws at the Oxford University Clinical Research Unit in Ho Chi Minh City, Vietnam. I went to the Wellcome Trust Sanger Institute and the University of Cambridge, UK to do my PhD in Prof. John Wain lab where I studied molecular mechanisms affecting the stability of IncHI1 multidrug resistant plasmids in Salmonella Typhi. I then moved to Australia to join the group of Prof. Mark Schembri at the School of Chemistry and Molecular Biosciences, University of Queensland. I am now working on identifying novel virulent factors in uropathogenic E. coli, especially in the newly emerged but globally spread ST131 clone, using high-throughput transposon mutagenesis and next-gen sequencing. I also maintain my interest in plasmid biology and have started projects to study multidrug resistant plasmids carrying blaCTX-M-15 or blaNDM-1 resistant genes.
Availability
- Dr Duy Phan is:
- Available for supervision
Fields of research
Qualifications
- Doctor of Philosophy, University of Cambridge
Works
Search Professor Duy Phan’s works on UQ eSpace
2024
Conference Publication
Multimodal analysis of methylation and fragmentomic profiles in plasma cell free DNA for differentiation of benign and malignant breast tumors
Van, Thi Tuong Vi, Nguyen, Hanh Thi-Hue, Nguyen, Thien-Chi Van Van, Vo, Dac Ho, Tran, Trung Hieu, Nguyen, Trong Hieu, Doan, Nhu Nhat Tan, Huynh, Le Anh Khoa, Nguyen, Xuan Vinh, Giang, Hoa, Phan, Minh-Duy, Nguyen, Hoai Nghia and Tran, Le Son (2024). Multimodal analysis of methylation and fragmentomic profiles in plasma cell free DNA for differentiation of benign and malignant breast tumors. ASCO Breakthrough 2024, Yokohama, Japan, 8-10 August 2024. Alexandria, VA United States: American Society of Clinical Oncology. doi: 10.1200/jco.2024.42.23_suppl.7
2024
Conference Publication
A novel cell-free multi-omics approach for enhancing multi-cancer early detection
Nguyen, Thien-Chi Van Van, Nguyen, Anh-Nhu, Nguyen, Thien-Phuc Hoang, Nguyen, Hanh Thi-Hue, Tran, Trung-Hieu, Nguyen, Tien-Anh, Tran, Trang Thi, Nguyen, Trong Hieu, Giang, Hoa, Phan, Minh-Duy, Nguyen, Hoai-Nghia and Tran, Le Son (2024). A novel cell-free multi-omics approach for enhancing multi-cancer early detection. ASCO Breakthrough 2024, Yokohama, Japan, 8-10 August 2024. Alexandria, VA United States: American Society of Clinical Oncology. doi: 10.1200/jco.2024.42.23_suppl.103
2024
Journal Article
Tissue of origin detection for cancer tumor using low-depth cfDNA samples through combination of tumor-specific methylation atlas and genome-wide methylation density in graph convolutional neural networks
Nguyen, Trong Hieu, Doan, Nhu Nhat Tan, Tran, Trung Hieu, Huynh, Le Anh Khoa, Doan, Phuoc Loc, Nguyen, Thi Hue Hanh, Nguyen, Van Thien Chi, Nguyen, Giang Thi Huong, Nguyen, Hoai-Nghia, Giang, Hoa, Tran, Le Son and Phan, Minh Duy (2024). Tissue of origin detection for cancer tumor using low-depth cfDNA samples through combination of tumor-specific methylation atlas and genome-wide methylation density in graph convolutional neural networks. Journal of Translational Medicine, 22 (1) 618, 1. doi: 10.1186/s12967-024-05416-z
2024
Conference Publication
Analytical and clinical validation of a circulating tumor DNA–based assay for multicancer early detection
Tran, Le Son, Nguyen, Luu Hong Dang, Nguyen, Hanh Thi-Hue, Nguyen, Duy Sinh, Tang, Hung Sang, Giang, Hoa, Nguyen, Hoai-Nghia and Phan, Minh-Duy (2024). Analytical and clinical validation of a circulating tumor DNA–based assay for multicancer early detection. 2024 ASCO Annual Meeting, Chicago, IL United States, 31 May - 4 June 2024. Alexandria, VA United States: American Society of Clinical Oncology. doi: 10.1200/jco.2024.42.16_suppl.10548
2024
Journal Article
High-risk Escherichia coli clones that cause neonatal meningitis and association with recrudescent infection
Nhu, Nguyen Thi Khanh, Phan, Minh-Duy, Hancock, Steven J., Peters, Kate M., Alvarez-Fraga, Laura, Forde, Brian M., Andersen, Stacey B., Miliya, Thyl, Harris, Patrick N. A., Beatson, Scott A., Schlebusch, Sanmarie, Bergh, Haakon, Turner, Paul, Brauner, Annelie, Westerlund-Wikström, Benita, Irwin, Adam D. and Schembri, Mark A (2024). High-risk Escherichia coli clones that cause neonatal meningitis and association with recrudescent infection. eLife, 12 RP91853. doi: 10.7554/elife.91853.3
2024
Journal Article
The genetic landscape of chromosomal aberrations in 3776 Vietnamese fetuses with clinical anomalies during pregnancy
Tran, Danh-Cuong, Phan, Minh Ngoc, Dao, Hong-Thuy Thi, Nguyen, Hong-Dang Luu, Nguyen, Duy-Anh, Le, Quang Thanh, Hoang, Diem-Tuyet Thi, Tran, Nhat Thang, Thi Ha, Thi Minh, Dinh, Thuy Linh, Nguyen, Canh Chuong, Thi Doan, Kim Phuong, Thi Luong, Lan Anh, Vo, Ta Son, Nhat Trinh, Thu Huong, Nguyen, Van Thong, Vo, Phuong-Anh Ngoc, Nguyen, Yen-Nhi, Dinh, My-An, Doan, Phuoc-Loc, Do, Thanh-Thuy Thi, Nguyen, Quynh-Tho Thi, Truong, Dinh-Kiet, Nguyen, Hoai-Nghia, Phan, Minh-Duy, Tang, Hung-Sang and Giang, Hoa (2024). The genetic landscape of chromosomal aberrations in 3776 Vietnamese fetuses with clinical anomalies during pregnancy. Personalized Medicine, 21 (2), 79-87. doi: 10.2217/pme-2023-0113
2024
Journal Article
A convergent evolutionary pathway attenuating cellulose production drives enhanced virulence of some bacteria
Nhu, Nguyen Thi Khanh, Rahman, M. Arifur, Goh, Kelvin G. K., Kim, Seung Jae, Phan, Minh-Duy, Peters, Kate M., Alvarez-Fraga, Laura, Hancock, Steven J., Ravi, Chitra, Kidd, Timothy J., Sullivan, Matthew J., Irvine, Katharine M., Beatson, Scott A., Sweet, Matthew J., Irwin, Adam D., Vukovic, Jana, Ulett, Glen C., Hasnain, Sumaira Z. and Schembri, Mark A. (2024). A convergent evolutionary pathway attenuating cellulose production drives enhanced virulence of some bacteria. Nature Communications, 15 (1) 1441, 1441. doi: 10.1038/s41467-024-45176-4
2024
Journal Article
THIẾT LẬP VÀ ĐÁNH GIÁ QUI TRÌNH SÀNG LỌC TRƯỚC SINH KHÔNG XÂM LẤN CHO HỘI CHỨNG MẤT ĐOẠN 22Q11.2
Nguyễn, Phạm Trường Vinh, Phạm, Thị Thuỳ Trang, Đỗ, Thị Thanh Thủy, Trương, Đình Kiệt, Tăng, Hùng Sang, Nguyễn, Hoài Nghĩa, Nguyễn, Thị Tường Vy, Giang, Hoa, Phan, Minh Duy, Nguyễn, Vạn Thông, Võ, Tá Sơn, Trần, Nhật Thăng, Nguyễn, Cảnh Chương, Tăng, Xuân Hải, Phạm, Thái Hạ, Nguyễn, Thị Bích Vân and Hà, Thị Minh Thi (2024). THIẾT LẬP VÀ ĐÁNH GIÁ QUI TRÌNH SÀNG LỌC TRƯỚC SINH KHÔNG XÂM LẤN CHO HỘI CHỨNG MẤT ĐOẠN 22Q11.2 . Tạp chí Y học Việt Nam, 535 (1B), 112-116. doi: 10.51298/vmj.v535i1b.8400
2024
Journal Article
Combined functional genomic and metabolomic approaches identify new genes required for growth in human urine by multidrug-resistant Escherichia coli ST131
Phan, Minh-Duy, Schirra, Horst Joachim, Nhu, Nguyen Thi Khanh, Peters, Kate M., Sarkar, Sohinee, Allsopp, Luke P., Achard, Maud E. S., Kappler, Ulrike and Schembri, Mark A. (2024). Combined functional genomic and metabolomic approaches identify new genes required for growth in human urine by multidrug-resistant Escherichia coli ST131. mBio, 15 (3) e0338823, e0338823. doi: 10.1128/mbio.03388-23
2023
Journal Article
De novo variants of dominant monogenic disorders in Vietnam detected by a noninvasive prenatal test: a case series
Tran, Nhat-Thang, Vo, Son Ta, Nguyen, Duy-Anh, Nguyen, Canh-Chuong, Dinh, Linh Thuy, Tran, Minh-Thu Thi, Tran, Danh-Cuong, Luong, Lan-Anh Thi, Doan, Kim-Phuong, Huy Nguyen, Vu Quoc, Thi Ha, Thi Minh, Truong, Linh-Giang Thi, Cao, Phuong Thi-Mai, Tran, Vy Thi-Nhat, Nhut Trinh, Thu Huong, Le, Quang Thanh, Nguyen, Van Thong, Hoang, Diem-Tuyet Thi, Nguyen, My-Nhi Ba, Bui, Chi-Thuong, Tran, Son-Tra Thi, Lam, Duc-Tam, Le, Hong-Thinh, Nguyen, My-Ngoc Ba, Ho, Viet-Thang, Nguyen, Minh-Trung, Dao, Trang Thi, Nguyen, Phuong Minh, Nguyen, Thu-Hang Le ... Tang, Hung-Sang (2023). De novo variants of dominant monogenic disorders in Vietnam detected by a noninvasive prenatal test: a case series. Personalized Medicine, 20 (6), 467-475. doi: 10.2217/pme-2023-0105
2023
Journal Article
Effects of Ocimum basilicum mucilage on hyperlipidemia and gut microbiota on mice fed a high-fat diet
Nguyen-Le, Duy, Nguyen, Cao-Tri, Ngo-Phan, Minh-Vu, Tran, Thuoc Linh, Phan, Minh-Duy, Unno, Tatsuya and Tran-Van, Hieu (2023). Effects of Ocimum basilicum mucilage on hyperlipidemia and gut microbiota on mice fed a high-fat diet. Bioactive Carbohydrates and Dietary Fibre, 30 100384, 1-9. doi: 10.1016/j.bcdf.2023.100384
2023
Journal Article
Multimodal analysis of methylomics and fragmentomics in plasma cell-free DNA for multi-cancer early detection and localization
Nguyen, Van Thien Chi, Nguyen, Trong Hieu, Doan, Nhu Nhat Tan, Pham, Thi Mong Quynh, Nguyen, Giang Thi Huong, Nguyen, Thanh Dat, Tran, Thuy Thi Thu, Vo, Duy Long, Phan, Thanh Hai, Jasmine, Thanh Xuan, Nguyen, Van Chu, Nguyen, Huu Thinh, Nguyen, Trieu Vu, Nguyen, Thi Hue Hanh, Huynh, Le Anh Khoa, Tran, Trung Hieu, Dang, Quang Thong, Doan, Thuy Nguyen, Tran, Anh Minh, Nguyen, Viet Hai, Nguyen, Vu Tuan Anh, Ho, Le Minh Quoc, Tran, Quang Dat, Pham, Thi Thu Thuy, Ho, Tan Dat, Nguyen, Bao Toan, Nguyen, Thanh Nhan Vo, Nguyen, Thanh Dang, Phu, Dung Thai Bieu ... Tran, Le Son (2023). Multimodal analysis of methylomics and fragmentomics in plasma cell-free DNA for multi-cancer early detection and localization. eLife, 12 89083, 1-28. doi: 10.7554/eLife.89083
2023
Journal Article
Multimodal analysis of methylomics and fragmentomics in plasma cell-free DNA for multi-cancer early detection and localization
Nguyen, Van Thien Chi, Nguyen, Trong Hieu, Doan, Nhu Nhat Tan, Pham, Thi Mong Quynh, Nguyen, Giang Thi Huong, Nguyen, Thanh Dat, Tran, Thuy Thi Thu, Vo, Duy Long, Phan, Thanh Hai, Jasmine, Thanh Xuan, Nguyen, Van Chu, Nguyen, Huu Thinh, Nguyen, Trieu Vu, Nguyen, Thi Hue Hanh, Huynh, Le Anh Khoa, Tran, Trung Hieu, Dang, Quang Thong, Doan, Thuy Nguyen, Tran, Anh Minh, Nguyen, Viet Hai, Nguyen, Vu Tuan Anh, Ho, Le Minh Quoc, Tran, Quang Dat, Pham, Thi Thu Thuy, Ho, Tan Dat, Nguyen, Bao Toan, Nguyen, Thanh Nhan Vo, Nguyen, Thanh Dang, Phu, Dung Thai Bieu ... Tran, Le Son (2023). Multimodal analysis of methylomics and fragmentomics in plasma cell-free DNA for multi-cancer early detection and localization. eLife, 12, 1-28. doi: 10.7554/elife.89083.3
2023
Journal Article
Improvement in neoantigen prediction via integration of RNA sequencing data for variant calling
Nguyen, Bui Que Tran, Tran, Thi Phuong Diem, Nguyen, Huu Thinh, Nguyen, Thanh Nhan, Pham, Thi Mong Quynh, Nguyen, Hoang Thien Phuc, Tran, Duc Huy, Nguyen, Vy, Tran, Thanh Sang, Pham, Truong-Vinh Ngoc, Le, Minh-Triet, Phan, Minh-Duy, Giang, Hoa, Nguyen, Hoai-Nghia and Tran, Le Son (2023). Improvement in neoantigen prediction via integration of RNA sequencing data for variant calling. Frontiers in Immunology, 14 1251603, 1-15. doi: 10.3389/fimmu.2023.1251603
2023
Journal Article
Developing and validating noninvasive prenatal testing for de novo autosomal dominant monogenic diseases in Vietnam
Nguyen, Nhi Yen, Lu, Y-Thanh, Nguyen, Duy-Anh, Nguyen, Canh-Chuong, Dinh, Linh Thuy, Tran, Minh-Thu Thi, Tran, Danh-Cuong, Luong, Lan-Anh Thi, Doan, Kim-Phuong, Huy Nguyen, Vu Quoc, Thi Ha, Thi Minh, Truong, Linh-Giang Thi, Tran, Nhat-Thang, Cao, Phuong Thi-Mai, Tran, Vy Thi-Nhat, Nhut Trinh, Thu Huong, Le, Quang Thanh, Nguyen, Van Thong, Hoang, Diem-Tuyet Thi, Vo, Son Ta, Nguyen, My-Nhi Ba, Bui, Chi-Thuong, Tran, Son-Tra Thi, Lam, Duc-Tam, Le, Hong-Thinh, Nguyen, My-Ngoc Ba, Ho, Viet-Thang, Nguyen, Minh-Trung, Doan, Phuoc-Loc ... Giang, Hoa (2023). Developing and validating noninvasive prenatal testing for de novo autosomal dominant monogenic diseases in Vietnam. Personalized Medicine, 425-433. doi: 10.2217/pme-2023-0076
2023
Conference Publication
Multimodal analysis of methylomics and fragmentomics in plasma cell-free DNA for multi-cancer early detection and localization
Tran, Le Son, Nguyen, Van Thien Chi, Nguyen, Hoai-Nghia, Giang, Hoa and Phan, Minh-Duy (2023). Multimodal analysis of methylomics and fragmentomics in plasma cell-free DNA for multi-cancer early detection and localization. ASCO Breakthrough 2023, Yokohama, Japan, 3-5 August 2023. Alexandria, VA United States: American Society of Clinical Oncology. doi: 10.1200/go.2023.9.supplement_1.62
2023
Journal Article
Genetic basis of I-complex plasmid stability and conjugation
Lian, Zheng Jie, Phan, Minh-Duy, Hancock, Steven J., Nhu, Nguyen Thi Khanh, Paterson, David L. and Schembri, Mark A. (2023). Genetic basis of I-complex plasmid stability and conjugation. PLoS Genetics, 19 (6) e1010773, 1-21. doi: 10.1371/journal.pgen.1010773
2023
Journal Article
Multimodal analysis of genome-wide methylation, copy number aberrations, and end motif signatures enhances detection of early-stage breast cancer
Pham, Thi Mong Quynh, Phan, Thanh Hai, Jasmine, Thanh Xuan, Tran, Thuy Thi Thu, Huynh, Le Anh Khoa, Vo, Thi Loan, Nai, Thi Huong Thoang, Tran, Thuy Trang, Truong, My Hoang, Tran, Ngan Chau, Nguyen, Van Thien Chi, Nguyen, Trong Hieu, Nguyen, Thi Hue Hanh, Le, Nguyen Duy Khang, Nguyen, Thanh Dat, Nguyen, Duy Sinh, Truong, Dinh Kiet, Do, Thi Thanh Thuy, Phan, Minh-Duy, Giang, Hoa, Nguyen, Hoai-Nghia and Tran, Le Son (2023). Multimodal analysis of genome-wide methylation, copy number aberrations, and end motif signatures enhances detection of early-stage breast cancer. Frontiers in Oncology, 13 1127086, 1-15. doi: 10.3389/fonc.2023.1127086
2023
Journal Article
epiTCR: a highly sensitive predictor for TCR–peptide binding
Pham, My-Diem Nguyen, Nguyen, Thanh-Nhan, Tran, Le Son, Nguyen, Que-Tran Bui, Nguyen, Thien-Phuc Hoang, Pham, Thi Mong Quynh, Nguyen, Hoai-Nghia, Giang, Hoa, Phan, Minh-Duy and Nguyen, Vy (2023). epiTCR: a highly sensitive predictor for TCR–peptide binding. Bioinformatics, 39 (5) btad284. doi: 10.1093/bioinformatics/btad284
2023
Journal Article
Genetic landscape and personalized tracking of tumor mutations in Vietnamese women with breast cancer
Nguyen Hoang, Van‐Anh, Nguyen, Sao Trung, Nguyen, Trieu Vu, Pham, Thanh Huyen, Doan, Phuoc Loc, Nguyen Thi, Ngoc Thanh, Nguyen, Minh Long, Dinh, Thi Cuc, Pham, Dinh Hoang, Nguyen, Ngoc Mai, Nguyen, Duy Sinh, Nguyen, Du Quyen, Lu, Y‐Thanh, Do, Thanh Thuy Thi, Truong, Dinh Kiet, Phan, Minh‐Duy, Nguyen, Hoai‐Nghia, Giang, Hoa and Tu, Lan N (2023). Genetic landscape and personalized tracking of tumor mutations in Vietnamese women with breast cancer. Molecular Oncology, 17 (4), 598-610. doi: 10.1002/1878-0261.13356
Supervision
Availability
- Dr Duy Phan is:
- Available for supervision
Before you email them, read our advice on how to contact a supervisor.
Supervision history
Current supervision
-
Doctor Philosophy
How bacteria form antibiotic resistant biofilms
Associate Advisor
Other advisors: Dr Nhu Nguyen, Professor Mark Schembri
-
Doctor Philosophy
Diversity, regulation and function of the uropathogenic Escherichia coli capsule
Associate Advisor
Other advisors: Professor Matt Sweet, Professor Mark Schembri
Completed supervision
-
2024
Doctor Philosophy
Understanding antibiotic resistance and virulence in uropathogenic Escherichia coli
Associate Advisor
Other advisors: Professor Mark Schembri
-
2023
Doctor Philosophy
Virulence and Resistance Plasmids of Extra-intestinal Pathogenic Escherichia coli
Associate Advisor
Other advisors: Professor Mark Schembri
-
2022
Doctor Philosophy
Characterisation of Escherichia coli fimbrial and autotransporter adhesins
Associate Advisor
Other advisors: Professor Mark Schembri
-
2019
Doctor Philosophy
Molecular characterisation of A/C plasmids
Associate Advisor
Other advisors: Professor Mark Schembri
Media
Enquiries
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