Dr Minh-Duy Phan

Featured projects	Duration
Discovery of new regulatory networks with long-read transcriptomics Genome Innovation Hub Collaborative Project (UQ infrastructure)	2019
Understanding host-pathogen interactions through development of new co-transcriptomic single cell RNA sequencing technologies Genome Innovation Hub Collaborative Project (UQ infrastructure)	2020
Proximity ligation sequencing of mixed bacterial communities Genome Innovation Hub Collaborative Project (UQ infrastructure)	2023

Nguyen, Van Thien Chi, Vo, Dac Ho, Tran, Thi Trang, Tran, Thanh Truong, Nguyen, Thi Hue Hanh, Vo, Truong Dang Huy, Van, Thi Tuong Vi, Vu, Thi Luyen, Lam, Minh Quang, Nguyen, Giang Thi Huong, Tran, Trung Hieu, Pham, Ngoc Tan, Trac, Quang Thinh, Nguyen, Trong Hieu, Phan, Thi Van, Dao, Thi Huyen, Nguyen, Huu Tam Phuc, Nguyen, Luu Hong Dang, Nguyen, Duy Sinh, Tang, Hung Sang, Giang, Hoa, Phan, Minh Duy, Nguyen, Hoai-Nghia and Tran, Le Son (2025). Cost-effective shallow genome-wide sequencing for profiling plasma cfDNA signatures to enhance lung cancer detection. Future Oncology, 21 (11), 1391-1402. doi: 10.1080/14796694.2025.2483154

Birch, Susan A. J., Stewardson, Charlotte I., Rho, Kate, Kataria, Ashali, Craig, Shannon M., Phan, Minh D. H., Savi, Irene, Voronkova, Kseniia, Lee, Jenny, Choudhary, Gayatri and Torjani, Diba (2025). Targeting cognitive biases to improve social cognition and social emotional health. Frontiers in Psychology, 16 1534125. doi: 10.3389/fpsyg.2025.1534125

Huynh, Tuan-Binh, Mai-Hoang, Thuy-Dung, Bui-Nguyen, Tram-Anh, Ha, Trinh Thi Phuong, Phan, Minh-Duy and Tran-Van, Hieu (2025). Characteristics and diversity of Vibrio parahaemolyticus causing acute hepatopancreatic necrosis disease in Vietnam. Aquaculture and Fisheries, 10 (2), 202-209. doi: 10.1016/j.aaf.2023.10.004

Pham, My-Diem Nguyen, Su, Chinh Tran-To, Nguyen, Thanh-Nhan, Nguyen, Hoai-Nghia, Nguyen, Dinh Duy An, Giang, Hoa, Nguyen, Dinh-Thuc, Phan, Minh-Duy and Nguyen, Vy (2024). epiTCR-KDA: knowledge distillation model on dihedral angles for TCR-peptide prediction. Bioinformatics Advances, 4 (1) vbae190. doi: 10.1093/bioadv/vbae190

Pham, Thi Mong Quynh, Nguyen, Thanh Nhan, Tran Nguyen, Bui Que, Diem Tran, Thi Phuong, Diem Pham, Nguyen My, Phuc Nguyen, Hoang Thien, Cuong Ho, Thi Kim, Linh Nguyen, Dinh Viet, Nguyen, Huu Thinh, Tran, Duc Huy, Tran, Thanh Sang, Pham, Truong Vinh Ngoc, Le, Minh Triet, Vy Nguyen, Thi Tuong, Phan, Minh-Duy, Giang, Hoa, Nguyen, Hoai-Nghia and Tran, Le Son (2024). The T cell receptor β chain repertoire of tumor infiltrating lymphocytes improves neoantigen prediction and prioritization. eLife, 13. doi: 10.7554/elife.94658.3

Obonyo, Nchafatso G., Raman, Sainath, Suen, Jacky Y., Peters, Kate M., Phan, Minh-Duy, Passmore, Margaret R., Bouquet, Mahe, Wilson, Emily S., Hyslop, Kieran, Palmieri, Chiara, White, Nicole, Sato, Kei, Farah, Samia M., Gandini, Lucia, Liu, Keibun, Fior, Gabriele, Heinsar, Silver, Ijuin, Shinichi, Kyun Ro, Sun, Abbate, Gabriella, Ainola, Carmen, Sato, Noriko, Lundon, Brooke, Portatadino, Sofia, Rachakonda, Reema H., Schneider, Bailey, Harley, Amanda, See Hoe, Louise E., Schembri, Mark A. ... Fraser, John F. (2024). An ovine septic shock model of live bacterial infusion. Intensive Care Medicine Experimental, 12 (1) 94, 1-20. doi: 10.1186/s40635-024-00684-x

Nhu, Nguyen Thi Khanh, Forde, Brian M., Ben Zakour, Nouri L., Phan, Minh-Duy, Roberts, Leah W., Beatson, Scott A. and Schembri, Mark A. (2024). Evolution of the pheV-tRNA integrated genomic island in Escherichia coli. PLoS Genetics, 20 (10) e1011459, e1011459. doi: 10.1371/journal.pgen.1011459

Thien Nguyen, Chi Van, Hanh Nguyen, Thi Hue, Vo, Dac Ho, Vi Van, Thi Tuong, Huong Nguyen, Giang Thi, Tran, Trung Hieu, Nguyen, Trong Hieu, Khoa Huynh, Le Anh, Nguyen, Thanh Dat, Tran, Nhat-Huy, Thi Ha, Thi Minh, Quynh Le, Phan Tuong, Truong, Xuan Long, Nguyen, Hong-Dang Luu, Tran, Uyen Vu, Hoang, Thanh Quang, Nguyen, Viet Binh, Le, Van Cuong, Nguyen, Xuan Chung, Phuong Nguyen, Thi Minh, Nguyen, Van Hung, Nhat Tran, Nu Thien, Quynh Dang, Thi Ngoc, Tran, Manh Hoang, Nguyen, Phuc Nguyen, Dao, Thi Huyen, Phuc Nguyen, Huu Tam, Tran, Nhat-Thang, Phan, Thi Van ... Tran, Le Son (2024). Evaluation of a multimodal ctDNA-based assay for detection of aggressive cancers lacking standard screening tests. Future Oncology, ahead-of-print (ahead-of-print), 1-11. doi: 10.1080/14796694.2024.2413266

Graf, Fabrice E., Goodman, Richard N., Gallichan, Sarah, Forrest, Sally, Picton-Barlow, Esther, Fraser, Alice J., Phan, Minh-Duy, Mphasa, Madalitso, Hubbard, Alasdair T. M., Musicha, Patrick, Schembri, Mark A., Roberts, Adam P., Edwards, Thomas, Lewis, Joseph M. and Feasey, Nicholas A. (2024). Molecular mechanisms of re-emerging chloramphenicol susceptibility in extended-spectrum beta-lactamase-producing Enterobacterales. Nature Communications, 15 (1) 9019, 1-12. doi: 10.1038/s41467-024-53391-2

White, Rhys T., Ashcroft, Melinda M., Bauer, Michelle J., Bell, Jan, Butkiewicz, Dominika, Álvarez-Fraga, Laura, Gibson, Justine S., Kidsley, Amanda K., Mollinger, Joanne L., Peters, Kate M., Phan, Minh-Duy, Roberts, Leah W., Rogers, Benjamin A., Schembri, Mark A., Trott, Darren J., Turnidge, John, Forde, Brian M. and Beatson, Scott A. (2024). The complete genome sequence of five pre-2013 Escherichia coli sequence type (ST)1193 strains reveals insights into an emerging pathogen. Access Microbiology, 6 (10) 000894.v3, 1-15. doi: 10.1099/acmi.0.000894.v3

Vinh, Dao Nguyen, Thi Ngoc Nguyen, Thanh, Nguyen Tran, Tuan-Anh, Doan, Phuoc-Loc, Nguyen Hoang, Van-Anh, Phan, Minh-Duy, Giang, Hoa, Nguyen, Hoai-Nghia, Nguyen, Hue Thi and Tu, Lan N. (2024). Breast cancer risk assessment based on susceptibility genes and polygenic risk score in Vietnamese women. BJC Reports, 2 (1) 80, 1-8. doi: 10.1038/s44276-024-00100-7

Chang, Chyden, Phan, Minh-Duy and Schembri, Mark A. (2024). Modified Tn 7 transposon vectors for controlled chromosomal gene expression. Applied and Environmental Microbiology, 90 (10) e01556-24, 1-13. doi: 10.1128/aem.01556-24

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

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

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

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

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

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

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

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

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

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

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

Tran, Danh Cuong, Nguyen, Thanh-Thanh Thi, Thi Hoang, Ngoc-Lan, Thi Luong, Lan-Anh, Doan, Kim-Phuong Thi, Ha, Minh Thi Thi, Tran, Nhat-Thang, Nguyen, Van-Thong, Trinh, Thu-Huong Nhat, Kieu Nguyen, Ngoc-Trinh, Nguyen, Cong-Trai, Nguyen, Thanh-Dat, Thi Nguyen, xQuynh-Tho, Do, Thanh-Thuy Thi, Truong, Dinh-Kiet, Giang, Hoa, Nguyen, Hoai-Nghia, Tang, Hung-Sang and Phan, Minh-Duy (2023). High prevalence of maternal mosaic monosomy X in pregnant women in Vietnam. The Journal of Maternal-Fetal and Neonatal Medicine, 36 (1) 2155044, 1-4. doi: 10.1080/14767058.2022.2155044

Nguyen, Huu Thinh, Khoa Huynh, Le Anh, Nguyen, Trieu Vu, Tran, Duc Huy, Thu Tran, Thuy Thi, Khang Le, Nguyen Duy, Le, Ngoc-An Trinh, Pham, Truong-Vinh Ngoc, Le, Minh-Triet, Quynh Pham, Thi Mong, Nguyen, Trong Hieu, Van Nguyen, Thien Chi, Nguyen, Thanh Dat, Tran Nguyen, Bui Que, Phan, Minh-Duy, Giang, Hoa and Tran, Le Son (2022). Multimodal analysis of ctDNA methylation and fragmentomic profiles enhances detection of nonmetastatic colorectal cancer. Future Oncology, 18 (35), 3895-3912. doi: 10.2217/fon-2022-1041

Nguyễn, Lưu Hồng Đăng, Tăng, Hùng Sang, Phan, Ngọc Minh, Nguyễn, Thị Thanh, Nguyễn, Dư Quyền, Tiêu, Bá Linh, Nguyễn, Thị Huệ Hạnh, Nguyễn, Yến Nhi, Trần, Vũ Uyên, Lê, Minh Phong, Nguyễn, Duy Sinh, Phan, Minh Duy, Từ, Ngọc Ly Lan, Giang, Hoa, Nguyễn, Hoài Nghĩa, Trương, Đình Kiệt and Đỗ, Thị Thanh Thủy (2022). Tần suất và phổ đột biến gen của Hội chứng ung thư vú và buồng trứng di truyền trên quần thể người Việt Nam. Tạp chí Phụ sản, 20 (3), 130-135. doi: 10.46755/vjog.2022.3.1433

Palkovicova, Jana, Sukkar, Iva, Delafuente, Javier, Valcek, Adam, Medvecky, Matej, Jamborova, Ivana, Bitar, Ibrahim, Phan, Minh Duy, San Millan, Alvaro and Dolejska, Monika (2022). Fitness effects of blaCTX-M-15-harbouring F2:A1:B− plasmids on their native Escherichia coli ST131 H30Rx hosts. Journal of Antimicrobial Chemotherapy, 77 (11), 2960-2963. doi: 10.1093/jac/dkac250

Hancock, Steven J., Lo, Alvin W., Ve, Thomas, Day, Christopher J., Tan, Lendl, Mendez, Alejandra A., Phan, Minh-Duy, Nhu, Nguyen Thi Khanh, Peters, Kate M., Richards, Amanda C., Fleming, Brittany A., Chang, Chyden, Ngu, Dalton H. Y., Forde, Brian M., Haselhorst, Thomas, Goh, Kelvin G. K., Beatson, Scott A., Jennings, Michael P., Mulvey, Matthew A., Kobe, Bostjan and Schembri, Mark A. (2022). Ucl fimbriae regulation and glycan receptor specificity contribute to gut colonisation by extra-intestinal pathogenic Escherichia coli. PLoS Pathogens , 18 (6) e1010582, e1010582. doi: 10.1371/journal.ppat.1010582

Schembri, Mark A., Nhu, Nguyen Thi Khanh and Phan, Minh-Duy (2022). Gut–bladder axis in recurrent UTI. Nature Microbiology, 7 (5), 601-602. doi: 10.1038/s41564-022-01113-z

Phan, Minh-Duy, Peters, Kate M., Alvarez Fraga, Laura, Wallis, Steven C., Hancock, Steven, Nhu, Nguyen Thi Khanh, Forde, Brian, Bauer, Michelle J., Paterson, David L., Beatson, Scott A, Lipman, Jeffrey and Schembri, Mark A. (2022). Plasmid-mediated ciprofloxacin resistance imparts a selective advantage on Escherichia coli ST131. Antimicrobial Agents and Chemotherapy, 66 (1) e02146-21, 1-11. doi: 10.1128/aac.02146-21

Alvarez-Fraga, Laura, Phan, Minh-Duy, Goh, Kelvin G. K., Nhu, Nguyen Thi Khanh, Hancock, Steven J., Allsopp, Luke P., Peters, Kate M., Forde, Brian M., Roberts, Leah W., Sullivan, Matthew J., Totsika, Makrina, Beatson, Scott A., Ulett, Glen C. and Schembri, Mark A. (2022). Differential Afa/Dr fimbriae expression in the multidrug-resistant Escherichia coli ST131 clone. mBio, 13 (1) e03519, e0351921. doi: 10.1128/mbio.03519-21

Tran, Van Thuan, Nguyen, Sao Trung, Pham, Xuan Dung, Phan, Thanh Hai, Nguyen, Van Chu, Nguyen, Huu Thinh, Nguyen, Huu Phuc, Doan, Phuong Thao Thi, Le, Tuan Anh, Nguyen, Bao Toan, Jasmine, Thanh Xuan, Nguyen, Duy Sinh, Nguyen, Hong-Dang Luu, Nguyen, Ngoc Mai, Do, Duy Xuan, Tran, Vu Uyen, Nguyen, Hue Hanh Thi, Le, Minh Phong, Nguyen, Yen Nhi, Do, Thanh Thuy Thi, Truong, Dinh Kiet, Tang, Hung Sang, Phan, Minh-Duy, Nguyen, Hoai-Nghia, Giang, Hoa and Tu, Lan N. (2022). Pathogenic Variant Profile of Hereditary Cancer Syndromes in a Vietnamese Cohort. Frontiers in Oncology, 11 789659. doi: 10.3389/fonc.2021.789659

Nguyen, Tat-Thanh, Le, Quang-Thanh, Hoang, Diem-Tuyet Thi, Du Nguyen, Huu, Ha, Thi Minh Thi, Nguyen, My-Nhi Ba, Ta, Thanh-Thuy Thi, Tran, Nhat Thang, Trinh, Thu Huong Nhat, Doan, Kim Phuong Thi, Lam, Duc Tam, Tran, Son Tra Thi, Nguyen, Thanh Xuan, Le, Hong-Thinh, Ha, Van Tuan, Nguyen, Manh Hoan, Le, Ba-Liem Kim, Duong, My Linh, Pham, Trung Ha, Tran, Anh Tuan, Phan, Xuan Lan Thi, Huynh, Thanh Liem, Nguyen, Lan-Phuong Thi, Vo, Thanh Binh, Le, Duy-Khang Nguyen, Tran, Ngoc Nhu Thi, Tran, Quynh Nhu Thi, Van, Yen-Linh Thi, Huynh, Bich-Ngoc Thi ... Giang, Hoa (2022). Massively parallel sequencing uncovered disease-associated variant spectra of glucose-6-phosphate dehydrogenase deficiency, phenylketonuria and galactosemia in Vietnamese pregnant women. Molecular Genetics and Genomic Medicine, 10 (7) e1959. doi: 10.1002/mgg3.1959

Amiss, Anna S., von Pein, Jessica B., Webb, Jessica R., Condon, Nicholas D., Harvey, Peta J., Phan, Minh-Duy, Schembri, Mark A., Currie, Bart J., Sweet, Matthew J., Craik, David J., Kapetanovic, Ronan, Henriques, Sónia Troeira and Lawrence, Nicole (2021). Modified horseshoe crab peptides target and kill bacteria inside host cells. Cellular and Molecular Life Sciences, 79 (1) 38, 38. doi: 10.1007/s00018-021-04041-z

Hancock, Steven J., Phan, Minh‐Duy, Roberts, Leah, Vu, Thu Ngoc Minh, Harris, Patrick N.A., Beatson, Scott A. and Schembri, Mark A. (2021). Characterisation of DtrJ as an IncC plasmid conjugative DNA transfer component. Molecular Microbiology, 116 (1), 154-167. doi: 10.1111/mmi.14697

Murigneux, Valentine, Roberts, Leah W., Forde, Brian M., Phan, Minh-Duy, Nhu, Nguyen Thi Khanh, Irwin, Adam D., Harris, Patrick N. A., Paterson, David L., Schembri, Mark A., Whiley, David M. and Beatson, Scott A. (2021). MicroPIPE: validating an end-to-end workflow for high-quality complete bacterial genome construction. BMC Genomics, 22 (1) 474, 474. doi: 10.1186/s12864-021-07767-z

Tong, Trang Mai, Dao, Thuy Thi Hong, Doan, Loc Phuoc, Nguyen, Dat Thanh, Nguyen, Quynh-Tho Thi, Do, Thanh-Thuy Thi, Truong, Kiet Dinh, Phan, Minh-Duy, Nguyen, Hoai-Nghia, Tran, Thang Cong and Giang, Hoa (2021). Genetic analysis of Vietnamese patients with early-onset Alzheimer's disease. International Journal of Neuroscience, 132 (12), 1-8. doi: 10.1080/00207454.2020.1870974

Dang, Anh-Thu Huynh, Tran, Vu-Uyen, Tran, Thanh-Truong, Thi Pham, Hong-Anh, Le, Dinh-Thong, Nguyen, Lam, Nguyen, Ngoc-Vu, Thi Nguyen, Thai-Hoa, Nguyen, Chu Van, Le, Ha Thu, Thi Nguyen, Mai-Lan, Le, Vu Thuong, Nguyen, Phuc Huu, Vo, Binh Thanh, Thi Dao, Hong-Thuy, Nguyen, Luan Thanh, Van Nguyen, Thien-Chi, Bui, Quynh-Tram Nguyen, Nguyen, Long Hung, Nguyen, Nguyen Huu, Thi Nguyen, Quynh-Tho, Le, Truong Xuan, Do, Thanh-Thuy Thi, Dinh, Kiet Truong, Do, Han Ngoc, Phan, Minh-Duy, Nguyen, Hoai-Nghia, Tran, Le Son and Giang, Hoa (2020). Actionable Mutation Profiles of Non-Small Cell Lung Cancer patients from Vietnamese population. Scientific Reports, 10 (1) 2707, 2707. doi: 10.1038/s41598-020-59744-3

Tran, Ngoc Hieu, Vo, Thanh Binh, Nguyen, Van Thong, Tran, Nhat-Thang, Trinh, Thu-Huong Nhat, Pham, Hong-Anh Thi, Dao, Thi Hong Thuy, Nguyen, Ngoc Mai, Van, Yen-Linh Thi, Tran, Vu Uyen, Vu, Hoang Giang, Bui, Quynh-Tram Nguyen, Vo, Phuong-Anh Ngoc, Nguyen, Huu Nguyen, Nguyen, Quynh-Tho Thi, Do, Thanh-Thuy Thi, Lam, Nien Vinh, Ngoc, Phuong Cao Thi, Truong, Dinh Kiet, Nguyen, Hoai-Nghia, Giang, Hoa and Phan, Minh-Duy (2020). Genetic profiling of Vietnamese population from large-scale genomic analysis of non-invasive prenatal testing data. Scientific Reports, 10 (1) 19142, 1-8. doi: 10.1038/s41598-020-76245-5

De Oliveira, David M. P., Bohlmann, Lisa, Conroy, Trent, Jen, Freda E.-C., Everest-Dass, Arun, Hansford, Karl A., Bolisetti, Raghu, El-Deeb, Ibrahim M., Forde, Brian M., Phan, Minh-Duy, Lacey, Jake A., Tan, Aimee, Rivera-Hernandez, Tania, Brouwer, Stephan, Keller, Nadia, Kidd, Timothy J., Cork, Amanda J., Bauer, Michelle J., Cook, Gregory M., Davies, Mark R., Beatson, Scott A., Paterson, David L., McEwan, Alastair G., Li, Jian, Schembri, Mark A., Blaskovich, Mark A. T., Jennings, Michael P., McDevitt, Christopher A., von Itzstein, Mark and Walker, Mark J. (2020). Repurposing a neurodegenerative disease drug to treat Gram-negative antibiotic-resistant bacterial sepsis. Science Translational Medicine, 12 (570) abb3791, eabb3791. doi: 10.1126/scitranslmed.abb3791

Hancock, Steven J., Phan, Minh-Duy, Luo, Zhenyao, Lo, Alvin W., Peters, Kate M., Nhu, Nguyen Thi Khanh, Forde, Brian M., Whitfield, Jason, Yang, Ji, Strugnell, Richard A., Paterson, David L., Walsh, Timothy R., Kobe, Bostjan, Beatson, Scott A. and Schembri, Mark A. (2020). Comprehensive analysis of IncC plasmid conjugation identifies a crucial role for the transcriptional regulator AcaB. Nature Microbiology, 5 (11), 1340-1348. doi: 10.1038/s41564-020-0775-0

Stocks, Claudia J., Pein, Jessica B., Curson, James E.B., Rae, James, Phan, Minh‐Duy, Foo, Darren, Bokil, Nilesh J., Kambe, Taiho, Peters, Kate M., Parton, Robert G., Schembri, Mark A., Kapetanovic, Ronan and Sweet, Matthew J. (2020). Frontline Science: LPS‐inducible SLC30A1 drives human macrophage‐mediated zinc toxicity against intracellular Escherichia coli. Journal of Leukocyte Biology, 109 (2) JLB.2HI0420-160R, 287-297. doi: 10.1002/jlb.2hi0420-160r

Phan, Minh-Duy, Bottomley, Amy L., Peters, Kate M., Harry, Elizabeth J. and Schembri, Mark A. (2020). Uncovering novel susceptibility targets to enhance the efficacy of third-generation cephalosporins against ESBL-producing uropathogenic Escherichia coli. Journal of Antimicrobial Chemotherapy, 75 (6), 1415-1423. doi: 10.1093/jac/dkaa023

Yasir, Muhammad, Turner, A Keith, Bastkowski, Sarah, Baker, David, Page, Andrew J., Telatin, Andrea, Phan, Minh-Duy, Monahan, Leigh, Savva, George M., Darling, Aaron, Webber, Mark A. and Charles, Ian G. (2020). TraDIS-Xpress: a high-resolution whole-genome assay identifies novel mechanisms of triclosan action and resistance. Genome Research, 30 (2), 239-249. doi: 10.1101/gr.254391.119

Roberts, Leah W., Harris, Patrick N. A., Forde, Brian M., Ben Zakour, Nouri L., Catchpoole, Elizabeth, Stanton-Cook, Mitchell, Phan, Minh-Duy, Sidjabat, Hanna E., Bergh, Haakon, Heney, Claire, Gawthorne, Jayde A., Lipman, Jeffrey, Allworth, Anthony, Chan, Kok-Gan, Chong, Teik Min, Yin, Wai-Fong, Schembri, Mark A., Paterson, David L. and Beatson, Scott A. (2020). Integrating multiple genomic technologies to investigate an outbreak of carbapenemase-producing Enterobacter hormaechei. Nature Communications, 11 (1) 466, 466. doi: 10.1038/s41467-019-14139-5

Nhu, Nguyen Thi Khanh, Phan, Minh-Duy, Forde, Brian M., Murthy, Ambika M. V., Peters, Kate M., Day, Christopher J., Poole, Jessica, Kidd, Timothy J., Welch, Rodney A., Jennings, Michael P., Ulett, Glen C., Sweet, Matthew J., Beatson, Scott A. and Schembri, Mark A. (2019). Complex multilevel control of hemolysin production by uropathogenic Escherichia coli. mBio, 10 (5) e02248-19. doi: 10.1128/mbio.02248-19

Goh, Kelvin G. K., Moriel, Danilo G., Hancock, Steven J., Phan, Minh-Duy and Schembri, Mark A. (2019). Bioinformatic and molecular analysis of inverse autotransporters from Escherichia coli. MSphere, 4 (4) e00572-19. doi: 10.1128/msphere.00572-19

Forde, Brian M., Roberts, Leah W., Phan, Minh-Duy, Peters, Kate M., Fleming, Brittany A., Russell, Colin W., Lenherr, Sara M., Myers, Jeremy B., Barker, Adam P., Fisher, Mark A., Chong, Teik-Min, Yin, Wai-Fong, Chan, Kok-Gan, Schembri, Mark A., Mulvey, Matthew A. and Beatson, Scott A. (2019). Population dynamics of an Escherichia coli ST131 lineage during recurrent urinary tract infection. Nature Communications, 10 (1) 3643, 3643. doi: 10.1038/s41467-019-11571-5

Serafini, Agnese, Tan, Lendl, Horswell, Stuart, Howell, Steven, Greenwood, Daniel J., Hunt, Deborah M., Phan, Minh-Duy, Schembri, Mark, Monteleone, Mercedes, Montague, Christine R., Britton, Warwick, Garza-Garcia, Acely, Snijders, Ambrosius P., VanderVen, Brian, Gutierrez, Maximiliano G., West, Nicholas P. and de Carvalho, Luiz Pedro S. (2019). Mycobacterium tuberculosis requires glyoxylate shunt and reverse methylcitrate cycle for lactate and pyruvate metabolism. Molecular Microbiology, 112 (4) mmi.14362, 1284-1307. doi: 10.1111/mmi.14362

Paxman, Jason J., Lo, Alvin W., Sullivan, Matthew J., Panjikar, Santosh, Kuiper, Michael, Whitten, Andrew E., Wang, Geqing, Luan, Chi-Hao, Moriel, Danilo G., Tan, Lendl, Peters, Kate M., Phan, Minh-Duy, Gee, Christine L., Ulett, Glen C., Schembri, Mark A. and Heras, Begoña (2019). Unique structural features of a bacterial autotransporter adhesin suggest mechanisms for interaction with host macromolecules. Nature Communications, 10 (1) 1967, 1967. doi: 10.1038/s41467-019-09814-6

Stocks, Claudia J., Phan, Minh-Duy, Achard, Maud E. S., Nhu, Nguyen Thi Khanh, Condon, Nicholas D., Gawthorne, Jayde A., Lo, Alvin W., Peters, Kate M., McEwan, Alastair G., Kapetanovic, Ronan, Schembri, Mark A. and Sweet, Matthew J. (2019). Uropathogenic Escherichia coli employs both evasion and resistance to subvert innate immune-mediated zinc toxicity for dissemination. Proceedings of the National Academy of Sciences, 116 (13), 6341-6350. doi: 10.1073/pnas.1820870116

Murthy, Ambika M. V., Sullivan, Matthew J., Nhu, Nguyen Thi Khanh, Lo, Alvin W., Phan, Minh-Duy, Peters, Kate M., Boucher, Dave, Schroder, Kate, Beatson, Scott A., Ulett, Glen C., Schembri, Mark A. and Sweet, Matthew J. (2019). Variation in hemolysin A expression between uropathogenic Escherichia coli isolates determines NLRP3-dependent vs. -independent macrophage cell death and host colonization. FASEB Journal : official publication of the Federation of American Societies for Experimental Biology, 33 (6), fj201802100R-7450. doi: 10.1096/fj.201802100R

Phan, Minh‐Duy, Vo, Binh T., Nguyen, Thong V., Tran, Thang N., Trinh, Huong N.T., Nguyen, Tho T.Q., Nguyen, Nguyen H., Tran, Truong T., Tran, Uyen V., Dao, Thuy H., Pham, Anh H., Tran, Tam H., Truong, Kiet D., Hoang, Tuyet T.D., Do, Thuy T.T., Nguyen, Hoai‐Nghia and Giang, Hoa (2019). Reducing false positive rate of fetal monosomy X in non‐invasive prenatal testing using a combined algorithm to detect maternal mosaic monosomy X. Prenatal Diagnosis, 39 (4) pd.5430, 324-327. doi: 10.1002/pd.5430

Giang, Hoa, Nguyen, Vu T., Nguyen, Sinh D., Nguyen, Huu-Phuc, Vo, Binh T., Nguyen, Truc M., Nguyen, Nguyen H., Truong, Kiet D., Do, Thanh-Thuy T., Phan, Minh-Duy and Nguyen, Hoai-Nghia (2018). Detection of a heterozygous germline APC mutation in a three-generation family with familial adenomatous polyposis using targeted massive parallel sequencing in Vietnam. BMC Medical Genetics, 19 (1) 188. doi: 10.1186/s12881-018-0701-y

Nhu, Nguyen Thi Khanh, Phan, Minh-Duy, Peters, Kate M., Lo, Alvin W., Forde, Brian M., Min Chong, Teik, Yin, Wai-Fong, Chan, Kok-Gan, Chromek, Milan, Brauner, Annelie, Chapman, Matthew R., Beatson, Scott A. and Schembri, Mark A. (2018). Discovery of new genes involved in curli production by a uropathogenic Escherichia coli strain from the highly virulent O45:K1:H7 lineage. mBio, 9 (4) e01462-18. doi: 10.1128/mbio.01462-18

Chen, Zhuoran, Phan, Minh-Duy, Bates, Lucy J., Peters, Kate M., Mukerjee, Chinmoy, Moore, Kate H. and Schembri, Mark A. (2018). The urinary microbiome in patients with refractory urge incontinence and recurrent urinary tract infection. International Urogynecology Journal, 29 (12), 1-8. doi: 10.1007/s00192-018-3679-2

Phan, Minh-Duy, Nguyen, Thong V., Trinh, Huong N. T., Vo, Binh T., Nguyen, Truc M., Nguyen, Nguyen H., Nguyen, Tho T. Q., Do, Thuy T. T., Hoang, Tuyet T. D., Truong, Kiet D., Giang, Hoa and Nguyen, Hoai-Nghia (2018). Establishing and validating noninvasive prenatal testing procedure for fetal aneuploidies in Vietnam. The Journal of Maternal - Fetal & Neonatal Medicine, 32 (23), 1-7. doi: 10.1080/14767058.2018.1481032

Murthy, Ambika M. V., Phan, Minh-Duy, Peters, Kate M., Nhu, Nguyen Thi Khanh, Welch, Rodney A., Ulett, Glen C., Schembri, Mark A. and Sweet, Matthew J. (2018). Regulation of hemolysin in uropathogenic Escherichia coli fine-tunes killing of human macrophages. Virulence, 9 (1), 1-32. doi: 10.1080/21505594.2018.1465786

Djoko, Karrera Y., Achard, Maud E. S., Phan, Minh-Duy, Lo, Alvin W., Miraula, Manfredi, Prombhul, Sasiprapa, Hancock, Steven J., Peters, Kate M., Sidjabat, Hanna E., Harris, Patrick N., Mitić, Nataša, Walsh, Timothy R., Anderson, Gregory J., Shafer, William M., Paterson, David L., Schenk, Gerhard, McEwan, Alastair G. and Schembri, Mark A. (2018). Copper ions and coordination complexes as novel carbapenem adjuvants. Antimicrobial Agents and Chemotherapy, 62 (2) e02280-17. doi: 10.1128/AAC.02280-17

Goh, Kelvin G. K., Phan, Minh-Duy, Forde, Brian M., Chong, Teik Min, Yin, Wai-Fong, Chan, Kok-Gan, Ulett, Glen C., Sweet, Matthew J., Beatson, Scott A. and Schembri, Mark A. (2017). Genome-wide discovery of genes required for capsule production by uropathogenic Escherichia coli. MBio, 8 (5) e01558-17. doi: 10.1128/mBio.01558-17

Phan, Minh-Duy, Nhu, Nguyen Thi Khanh, Achard, Maud E. S., Forde, Brian M., Hong, Kar Wai, Chong, Teik Min, Yin, Wai-Fong, Chan, Kok-Gan, West, Nicholas P., Walker, Mark J., Paterson, David L., Beatson, Scott A. and Schembri, Mark A. (2017). Modifications in the pmrB gene are the primary mechanism for the development of chromosomally encoded resistance to polymyxins in uropathogenic Escherichia coli. Journal of Antimicrobial Chemotherapy, 72 (10), 2729-2736. doi: 10.1093/jac/dkx204

Djoko, Karrera Y., Phan, Minh-Duy, Peters, Kate M., Walker, Mark J. , Schembri, Mark A. and McEwan, Alastair G. (2017). Interplay between tolerance mechanisms to copper and acid stress in Escherichia coli. Proceedings of the National Academy of Sciences of the United States of America, 114 (26), 6818-6823. doi: 10.1073/pnas.1620232114

Lo, Alvin W., Moriel, Danilo G., Phan, Minh-Duy, Schulz, Benjamin L., Kidd, Timothy J., Beatson, Scott A. and Schembri, Mark A. (2017). 'Omic' approaches to study Uropathogenic Escherichia coli virulence. Trends in Microbiology, 25 (9), 729-740. doi: 10.1016/j.tim.2017.04.006

Kakkanat, Asha, Minh-Duy Phan, Lo, Alvin W., Beatson, Scott A. and Schembri, Mark A. (2017). Novel genes associated with enhanced motility of Escherichia coli ST131. PLoS One, 12 (5) e0176290, e0176290.1-e0176290.22. doi: 10.1371/journal.pone.0176290

Hancock, Steven J., Phan, Minh-Duy, Peters, Kate M., Forde, Brian M., Chong, Teik Min, Yin, Wai-Fong, Chan, Kok-Gan, Paterson, David L., Walsh, Timothy R., Beatson, Scott A. and Schembri, Mark A. (2017). Identification of IncA/C plasmid replication and maintenance genes and development of a plasmid multi-locus sequence-typing scheme. Antimicrobial Agents and Chemotherapy, 61 (2) e01740. doi: 10.1128/AAC.01740-16

Moriel, Danilo G., Tan, Lendl, Goh, Kelvin G. K., Phan, Minh-Duy, Ipe, Deepak S., Lo, Alvin W., Peters, Kate M., Ulett, Glen C., Beatson, Scott. A. and Schembri, Mark A. (2016). A novel protective vaccine antigen from the core Escherichia coli genome. mSphere, 1 (6) e00326-16. doi: 10.1128/mSphere.00326-16

Shepherd, Mark, Achard, Maud E. S., Idris, Adi, Totsika, Makrina, Phan, Minh-Duy, Peters, Kate M., Sarkar, Sohinee, Ribeiro, Cláudia A., Holyoake, Louise V., Ladakis, Dimitrios, Ulett, Glen C., Sweet, Matthew J., Poole, Robert K., McEwan, Alastair G. and Schembri, Mark A. (2016). The cytochrome bd-I respiratory oxidase augments survival of multidrug-resistant Escherichia coli during infection. Scientific Reports, 6 (1) 35285, 35285. doi: 10.1038/srep35285

Sarkar, Sohinee, Roberts, Leah W., Phan, Minh-Duy, Tan, Lendl, Lo, Alvin W., Peters, Kate M., Paterson, David L., Upton, Mathew, Ulett, Glen C., Beatson, Scott A., Totsika, Makrina and Schembri, Mark A. (2016). Comprehensive analysis of type 1 fimbriae regulation in fimB-null strains from the multidrug resistant Escherichia coli ST131 clone. Molecular Microbiology, 101 (6), 1069-1087. doi: 10.1111/mmi.13442

Stubenrauch, Christopher, Belousoff, Matthew J., Hay, Iain D., Shen, Hsin-Hui, Lillington, James, Tuck, Kellie L., Peters, Kate M., Phan, Minh-Duy, Lo, Alvin, W., Schembri, Mark A., Strugnell, Richard A., Waksman, Gabriel and Lithgow, Trevor (2016). Effective assembly of fimbriae in Escherichia coli depends on the translocation assembly module nanomachine. Nature Microbiology, 1 (7) 16064, 16064. doi: 10.1038/nmicrobiol.2016.64

Kapetanovic, Ronan, Bokil, Nilesh J., Achard, Maud E. S., Ong, Cheryl-lynn Y, Peters, Kate M., Stocks, Claudia J., Phan, Minh-Duy, Monteleone, Mercedes, Schroder, Kate, Irvine, Katharine M., Saunders, Bernadette M., Walker, Mark J., Stacey, Katryn J., McEwan, Alastair G., Schembri, Mark A. and Sweet, Matthew J. (2016). Salmonella employs multiple mechanisms to subvert the TLR-inducible zinc-mediated antimicrobial response of human macrophages. The FASEB Journal, 30 (5), 1901-1912. doi: 10.1096/fj.201500061

Schaale, K., Peters, K. M., Murthy, A. M., Fritzsche, A. K., Phan, M.-D., Totsika, M., Robertson, A. A. B., Nichols, K. B., Cooper, M. A., Stacey, K. J., Ulett, G. C., Schroder, K., Schembri, M. A. and Sweet, M. J. (2016). Strain- and host species-specific inflammasome activation, IL-1β release, and cell death in macrophages infected with uropathogenic Escherichia coli.. Mucosal Immunology, 9 (1), 124-136. doi: 10.1038/mi.2015.44

Forde, Brian M., Phan, Minh-Duy, Gawthorne, Jayde A., Ashcroft, Melinda M., Stanton-Cook, Mitchell, Sarkar, Sohinee, Peters, Kate M., Chan, Kok-Gan, Chong, Teik Min, Yin, Wai-Fong, Upton, Mathew, Schembri, Mark A. and Beatson, Scott A. (2015). Lineage-specific methyltransferases define the methylome of the globally disseminated Escherichia coli ST131 clone. MBio, 6 (6) e01602-15, e01602-15. doi: 10.1128/mBio.01602-15

Kakkanat, Asha, Totsika, Makrina, Schaale, Kolja, Duell, Benjamin L., Lo, Alvin W., Phan, Minh-Duy, Moriel, Danilo G., Beatson, Scott A., Sweet, Matthew J., Ulett, Glen C. and Schembri, Mark A. (2015). The role of H4 flagella in Escherichia coli ST131 virulence. Scientific Reports, 5 (16149) 16149, 1-14. doi: 10.1038/srep16149

Selkrig, Joel, Belousoff, Matthew J., Headey, Stephen J., Heinz, Eva, Shiota, Takuya, Shen, Hsin-Hui, Beckham, Simone A., Bamert, Rebecca S., Phan, Minh-Duy, Schembri, Mark A., Wilce, Matthew C.J., Scanlon, Martin J., Strugnell, Richard A. and Lithgow, Trevor (2015). Conserved features in TamA enable interaction with TamB to drive the activity of the translocation and assembly module.. Scientific Reports, 5 (1) 12905, 12905. doi: 10.1038/srep12905

Phan, Minh Duy, Forde, Brian M., Peters, Kate M., Sarkar, Sohinee, Hancock, Steven, Stanton-Cook, Mitchell, Zakour, Nouri L. Ben, Upton, Mathew, Beatson, Scott A. and Schembri, Mark A. (2015). Molecular Characterization of a Multidrug Resistance IncF Plasmid from the Globally Disseminated Escherichia coli ST131 Clone.. PLoS One, 10 (4) e0122369, e0122369-e0122369. doi: 10.1371/journal.pone.0122369

Phan, Minh-Duy, Peters, Kate M., Sarkar, Sohinee, Forde, Brian M., Lo, Alvin W., Stanton-Cook, Mitchell, Roberts, Leah W., Upton, Mathew, Beatson, Scott A. and Schembri, Mark A. (2015). Third-generation cephalosporin resistance conferred by a chromosomally encoded blaCMY-23 gene in the Escherichia coli ST131 reference strain EC958. Journal of Antimicrobial Chemotherapy, 70 (7) dkv066, 1969-1972. doi: 10.1093/jac/dkv066

Easton, Donna M., Allsopp, Luke P., Phan, Minh-Duy, Gomes Moriel, Danilo, Goh, Guan Kai, Beatson, Scott A., Mahony, Timothy J., Cobbold, Rowland N. and Schembri, Mark A. (2014). The intimin-like protein FdeC is regulated by H-NS and temperature in Enterohaemorrhagic Escherichia coli. Applied and Environmental Microbiology, 80 (23), 7337-7347. doi: 10.1128/AEM.02114-14

Forde, Brian M., Ben Zakour, Nouri L., Stanton-Cook, Mitchell, Phan, Minh-Duy, Totsika, Makrina, Peters, Kate M., Chan, Kok Gan, Schembri, Mark A., Upton, Mathew and Beatson, Scott A. (2014). The complete genome sequence of Escherichia coli EC958: a high quality reference sequence for the globally disseminated multidrug resistant E. coli O25b:H4-ST131 clone. PLoS One, 9 (8) e104400, e104400.1-e104400.13. doi: 10.1371/journal.pone.0104400

Petty, Nicola K., Ben Zakour, Nouri L., Stanton-Cook, Mitchell, Skippington, Elizabeth, Totsika, Makrina, Forde, Brian M., Phan, Minh-Duy, Gomes Moriel, Danilo, Peters, Kate M., Davies, Mark, Rogers, Benjamin A., Dougan, Gordon, Rodriguez-Baño, Jesús, Pascual, Alvaro, Pitout, Johann D., Upton, Mathew, Paterson, David L., Walsh, Timothy R., Schembri, Mark A. and Beatson, Scott A. (2014). Global dissemination of a multidrug resistant Escherichia coli clone. Proceedings of the National Academy of Sciences, 111 (15), 5694-5699. doi: 10.1073/pnas.1322678111

Sarkar, Sohinee, Ulett, Glen C., Totsika, Makrina, Phan, Minh-Duy and Schembri, Mark A. (2014). Role of capsule and O antigen in the virulence of uropathogenic Escherichia coli. PLoS One, 9 (4) e94786, e94786. doi: 10.1371/journal.pone.0094786

Goh, H. M. Sharon, Beatson, Scott A., Totsika, Makrina, Moriel, Danilo G., Phan, Minh-Duy, Szubert, Jan, Runnegar, Naomi, Sidjabat, Hanna E., Paterson, David L., Nimmo, Graeme R., Lipman, Jeffrey and Schembri, Mark A. (2013). Molecular analysis of the Acinetobacter baumannii biofilm-associated protein. Applied and Environmental Microbiology, 79 (21), 6535-6543. doi: 10.1128/AEM.01402-13

Phan, Minh-Duy, Peters, Kate M., Sarkar, Sohinee, Lukowski, Samuel W., Allsopp, Luke P., Moriel, Danilo Gomes, Achard, Maud E. S., Totsika, Makrina, Marshall, Vikki M., Upton, Mathew, Beatson, Scott A. and Schembri, Mark A. (2013). The serum resistome of a globally disseminated multidrug resistant uropathogenic Escherichia coli clone. PloS Genetics, 9 (10) e1003834, e1003834.1-e1003834.18. doi: 10.1371/journal.pgen.1003834

Barquist, Lars, Langridge, Gemma C., Turner, Daniel J., Phan, Minh-Duy, Turner, A. Keith, Bateman, Alex, Parkhill, Julian, Wain, John and Gardner, Paul P. (2013). A comparison of dense transposon insertion libraries in the Salmonella serovars Typhi and Typhimurium. Nucleic Acids Research, 41 (8), 4549-4564. doi: 10.1093/nar/gkt148

Totsika, Makrina, Moriel, Danilo Gomes, Idris, Adi, Rogers, Benjamin A., Wurpel, Daniel J., Phan, Minh-Duy, Paterson, David L. and Schembri, Mark A. (2012). Uropathogenic Escherichia coli mediated urinary tract infection. Current Drug Targets, 13 (11), 1386-1399. doi: 10.2174/138945012803530206

Vejborg, Rebecca M., de Evgrafov, Mari R., Phan, Minh Duy, Totsika, Makrina, Schembri, Mark A. and Hancock, Viktoria (2012). Identification of genes important for growth of asymptomatic Bacteriuria Escherichia coli in urine. Infection and Immunity, 80 (9), 3179-3188. doi: 10.1128/IAI.00473-12

Selkrig, Joel, Mosbahi, Khedidja, Webb, Chaille T., Belousoff, Matthew J., Perry, Andrew J., Wells, Timothy J., Morris, Faye, Leyton, Denisse L., Totsika, Makrina, Phan, Minh-Duy, Celik, Nermin, Kelly, Michelle, Oates, Clare, Hartland, Elizabeth L., Robins-Browne, Roy M., Ramarathinam, Sri Harsha, Purcell, Anthony W., Schembri, Mark A., Strugnell, Richard A., Henderson, Ian R., Walker, Daniel and Lithgow, Trevor (2012). Discovery of an archetypal protein transport system in bacterial outer membranes. Nature Structural and Molecular Biology, 19 (5), 506-510. doi: 10.1038/nsmb.2261

Totsika, Makrina, Beatson, Scott A., Sarkar, Sohinee, Phan, Minh-Duy, Petty, Nicola K., Bachmann, Nathan, Szubert, Marek, Sidjabat, Hanna E., Paterson, David L., Upton, Mathew and Schembri, Mark A. (2011). Insights into a multidrug resistant escherichia coli pathogen of the globally disseminated ST131 lineage: Genome analysis and virulence mechanisms. Plos One, 6 (10) e26578, e26578-1-e26578-11. doi: 10.1371/journal.pone.0026578

Holt, Kathryn E., Phan, Minh Duy, Baker, Stephen, Duy, Pham Thanh, Nga, Tran Vu Thieu, Nair, Satheesh, Turner, A. Keith, Walsh, Ciara, Fanning, Se´amus, Farrell-Ward, Sine´ad, Dutta, Shanta, Kariuki, Sam, Weill, Francois-Xavier, Parkhill, Julian, Dougan, Gordon and Wain, John (2011). Emergence of a globally dominant IncHI1 plasmid type associated with multiple drug resistant typhoid. PLoS Neglected Tropical Diseases, 5 (7) e1245, e1245-1-e1245-13. doi: 10.1371/journal.pntd.0001245

Easton, Donna M., Totsika, Makrina, Allsopp, Luke P., Phan, Minh-Duy, Idris, Adi, Wurpel, Daniël J., Sherlock, Orla, Zhang, Bing, Venturini, Carola, Beatson, Scott A., Mahony, Timothy J., Cobbold, Rowland N. and Schembri, Mark A. (2011). Characterization of EhaJ, a new autotransporter protein from enterohemorrhagic and enteropathogenic Escherichia coli. Frontiers in Microbiology: Frontiers in Cellular and Infection Microbiology, 2 (JUNE), 120.1-120.9. doi: 10.3389/fmicb.2011.00120

Langridge, Gemma C., Phan, Minh-Duy, Turner, Daniel J., Perkins, Timothy T., Parts, Leopold, Haase, Jana, Charles, Ian, Maskell, Duncan J., Peters, Sarah E., Dougan, Gordon, Wain, John, Parkhill, Julian and Turner, A. Keith (2009). Simultaneous assay of every Salmonella Typhi gene using one million transposon mutants. Genome Research, 19 (12), 2308-2316. doi: 10.1101/gr.097097.109

Phan, Minh-Duy, Kidgell, Claire, Nair, Satheesh, Holt, Kathryn E., Turner, Arthur K., Hinds, Jason, Butcher, Philip, Cooke, Fiona J., Thomson, Nicholas R., Titball, Richard, Bhutta, Zulfiqar A., Hassan, Rumina, Dougan, Gordon and Wain, John (2009). Variation in Salmonella enterica serovar Typhi IncHI1 plasmids during the global spread of resistant typhoid fever. Antimicrobial Agents and Chemotherapy, 53 (2), 716-727. doi: 10.1128/AAC.00645-08

Tho, D. Q., Ha, D. T. M., Duy, P. M., Lan, N. T. N., Hoa, D. V., Chau, N. V. V., Farrar, J. and Caws, M. (2008). Comparison of MAS-PCR and GenoType MTBDR assay for the detection of rifampicin-resistant Mycobacterium tuberculosis. International Journal of Tuberculosis And Lung Disease, 12 (11), 1306-1312.

Phan, Minh-Duy and Wain, John (2008). IncHI plasmids, a dynamic link between resistance and pathogenicity. Journal of Infection in Developing Countries, 2 (4), 272-278. doi: 10.3855/jidc.221

van Doorn, H. R., An, D. D., de Jong, M. D., Lan, N. T., Hoa, D. V., Quy, H. T., Chau, N. V., Duy, P. M., Tho, D. Q., Chinh, N. T., Farrar, J. J. and Caws, M. (2008). Fluoroquinolone resistance detection in Mycobacterium tuberculosis with locked nucleic acid probe real-time PCR. International Journal of Tuberculosis and Lung Disease, 12 (7), 736-742.

van Doorn, H. R., An, D. D., de Jong, M. D., Lan, N. T. N., Hoa, D. V., Quy, H. T., Chau, N. V. V., Duy, P. M., Tho, D. Q., Chinh, N. T., Farrar, J J and Caws, M. (2008). Fluoroquinolone resistance detection in Mycobacterium tuberculosis with locked nucleic acid probe real-time PCR. International Journal of Tuberculosis and Lung Disease, 12 (7), 736-742.

Caws, Maxine, Thwaites, Guy, Dunstan, Sarah, Hawn, Thomas R., Lan, Nguyen Thi, Thuong, Nguyen Thuy, Stepniewska, Kasia, Huyen, Mai Nguyet, Bang, Nguyen Duc, Loc, Tran Huy, Gagneux, Sebastien, van Soolingen, Dick, Kremer, Kristin, van der Sande, Marianne, Small, Peter, Anh, Phan Thi, Chinh, Nguyen Tran, Quy, Hoang Thi, Duyen, Nguyen Thi, Tho, Dao Quang, Hieu, Nguyen T., Torok, Estee, Hien, Tranh Tinh, Dung, Nguyen Huy, Nhu, Nguyen T., Phan, Minh Duy, van Vinh Chau, Nguyen and Farrar, Jeremy (2008). The influence of host and bacterial genotype on the development of disseminated disease with Mycobacterium tuberculosis. PLoS Pathogens, 4 (3) e1000034, e1000034-1-e1000034-9. doi: 10.1371/journal.ppat.1000034

Thwaites, Guy, Caws, Maxine, Chau, Tran Thi, D'Sa, Anthony, Lan, Nguyen Thi Guoc, Huyen, Mai Nguyet Thu, Gagneux, Sebastian, Anh, Phan Thi Hoanh Anh, Tho, Dau Quang, Torok, Estee, Nhu, Nguyen Thi Qyunh, Duyen, Nguyen Thi Hong, Duy, Phan Minh, Richenberg, Jonathan, Simmons, Cameron, Hien, Tran Tinh and Farrar, Jeremy (2008). Relationship between Mycobacterium tuberculosis genotype and the clinical phenotype of pulmonary and meningeal tuberculosis. Journal of Clinical Microbiology, 46 (4), 1363-1368. doi: 10.1128/JCM.02180-07

Holt, Kathryn E., Thomson, Nicholas R., Wain, John, Phan, Minh Duy, Nair, Satheesh, Hasan, Rumina, Bhutta, Zulfiqar A., Quail, Michael A., Norbertczak, Halina, Walker, Danielle, Dougan, Gordon and Parkhill, Julian (2007). Multidrug-resistant Salmonella enterica serovar paratyphi A harbors IncHI1 plasmids similar to those found in serovar typhi. Journal of Bacteriology, 189 (11), 4257-4264. doi: 10.1128/JB.00232-07

Caws, Maxine, Tho, Dau Quang, Duy, Phan Minh, Lan, Nguyen Thi Ngoc, Hoa, Dai Viet, Torok, Mili Estee, Chau, Tran Thi Hong, Chau, Nguyen Van Vinh, Chinh, Nguyen Tran and Farrar, Jeremy (2007). PCR-restriction fragment length polymorphism for rapid, low-cost identification of isoniazid-resistant Mycobacterium tuberculosis. Journal of Clinical Microbiology, 45 (6), 1789-1793. doi: 10.1128/JCM.01960-06

Caws, M., Thwaites, G. E., Duy, P. M., Tho, D. Q., Lan, N. T., Hoa, D. V., Chau, T. T., Huyen, M. N., Anh, P. T., Chau, N. V., Chinh, T. N., Stepniewska, K. and Farrar, J. (2007). Molecular analysis of Mycobacterium tuberculosis causing multidrug-resistant tuberculosis meningitis. International Journal of Tuberculosis and Lung Disease, 11 (2), 202-208.

Caws, Maxine, Thwaites, Guy, Stepniewska, Kasia, Nguyen, Thi Ngoc Lan, Nguyen, Thi Hong Duyen, Nguyen, Thi Phuong, Mai, Nguyet Thu Huyen, Phan, Minh Duy, Tran, Huu Loc, Tran, Thi Hong Chau, van Soolingen, Dick, Kremer, Kristin, Nguyen, Van Vinh Chau, Nguyen, Tran Chinh and Farrar, Jeremy (2006). Beijing genotype of Mycobacterium tuberculosis is significantly associated with human immunodeficiency virus infection and multidrug resistance in cases of tuberculous meningitis. Journal of Clinical Microbiology, 44 (11), 3934-3939. doi: 10.1128/JCM.01181-06

Caws, M., Duy, Phan Minh, Tho, Dau Quang, Lan, Nguyen Thi Ngoc, Hoa, Dai Viet and Farrar, Jeremy (2006). Mutations prevalent among rifampin- and isoniazid-resistant Mycobacterium tuberculosis isolates from a hospital in Vietnam. Journal of Clinical Microbiology, 44 (7), 2333-2337. doi: 10.1128/JCM.00330-06

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

Doan, Nhu Nhat Tan, Nguyen, Trong Hieu, Tran, Trung Hieu, Nguyen, Thi Hue Hanh, Nguyen, Van Thien Chi, 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. ASCO Breakthrough 2024, Yokohama, Japan, 8-10 August 2024. Alexandria, VA United States: American Society of Clinical Oncology (ASCO). doi: 10.1200/jco.2024.42.23_suppl.224

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

Tran, Le Son, Nguyen, Thi Hue Hanh, Nguyen, Luu Hong Dang, Nguyen, Trong Hieu, Nguyen, Thanh Dat, Giang, Hoa, Phan, Minh Duy, Nguyen, Duy Sinh, Tang, Hung Sang and Nguyen, Hoai-Nghia (2024). Comprehensive validation of a cell-free DNA-based assay for multi-cancer detection: A Vietnamese longitudinal prospective cohort study of 9,024 participants. 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.102

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

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

Stocks, C. J., Kapetanovic, R., Bokil, N., Phan, M. -D, Lo, A., Schembri, M. and Sweet, M. J. (2016). The role of zinc in macrophage antimicrobial responses. International Congress of Immunology (ICI), Melbourne, VIC, Australia, 21-26 August 2016. Weinheim, Germany: Wiley - VCH. doi: 10.1002/eji.201670200

Tho, D. Q., Ha, D. M., Duy, P. M., Lan, N. T. N., Hoa, D. V., Chau, N. V. V., Farrar, J. J. and Caws, M. (2008). MAS-PCR: A Quick Cheap Detection Test for Isoniazid Resistance in Mycobacterium tuberculosis. OXFORD: ELSEVIER SCI LTD. doi: 10.1016/j.ijid.2008.05.854

White, Rhys T., Ashcroft, Melinda A., Bauer, Michelle J., Bell, Jan, Butkiewicz, Dominika, Álvarez-Fraga, Laura, Gibson, Justine S., Kidsley, Amanda K., Mollinger, Joanne L., Peters, Kate M., Phan, Duy, Roberts, Leah W., Rogers, Benjamin, Schembri, Mark, Trott, Darren J., Turnidge, John, Forde, Brian M. and Beatson, Scott A. (2024). The complete genome sequence of five pre-2013 Escherichia coli sequence type (ST)1193 strains reveals insights into an emerging pathogen.. doi: 10.1099/acmi.0.000894.v2

Ashcroft, Melinda M., Forde, Brian M., Phan, Minh-Duy, Peters, Kate M., Roberts, Leah W., Chan, Kok-Gan, Chong, Teik Min, Yin, Wai-Fong, Paterson, David L., Walsh, Timothy R., Schembri, Mark A. and Beatson, Scott A. (2020). Strain and lineage-level methylome heterogeneity in the multi-drug resistant pathogenic Escherichia coli ST101 clone. doi: 10.1101/2020.06.07.138552

Ashcroft, Melinda M., Forde, Brian M., Phan, Minh-Duy, Peters, Kate M., Henderson, Andrew, Hancock, Steven J., Roberts, Leah W., White, Rhys T., Chan, Kok-Gan, Chong, Teik Min, Yin, Wai-Fong, Paterson, David L., Walsh, Timothy R., Schembri, Mark A. and Beatson, Scott A. (2020). Genomic characterisation and context of the blaNDM-1 carbapenemase in Escherichia coli ST101. doi: 10.1101/860726

Dr Minh-Duy Phan

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