|
2022 Journal Article Plasmid-mediated ciprofloxacin resistance imparts a selective advantage on Escherichia coli ST131Phan, 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 |
|
2021 Journal Article Characterisation of DtrJ as an IncC plasmid conjugative DNA transfer componentHancock, 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 |
|
2020 Journal Article Comprehensive analysis of IncC plasmid conjugation identifies a crucial role for the transcriptional regulator AcaBHancock, 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 |
|
2020 Journal Article Uncovering novel susceptibility targets to enhance the efficacy of third-generation cephalosporins against ESBL-producing uropathogenic Escherichia coliPhan, 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 |
|
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 networksNguyen, 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. doi: 10.1186/s12967-024-05416-z |
|
2024 Journal Article High-risk Escherichia coli clones that cause neonatal meningitis and association with recrudescent infectionNhu, 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 ARTN RP91853. doi: 10.7554/elife.91853.3 |
|
2024 Journal Article The genetic landscape of chromosomal aberrations in 3776 Vietnamese fetuses with clinical anomalies during pregnancyTran, 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, 1-9. doi: 10.2217/pme-2023-0113 |
|
2024 Journal Article A convergent evolutionary pathway attenuating cellulose production drives enhanced virulence of some bacteriaNhu, 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 22Q11.2Nguyễn, 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). 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 <i>Escherichia coli</i> ST131Phan, 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. doi: 10.1128/mbio.03388-23 |
|
2023 Journal Article <i>De novo</i> variants of dominant monogenic disorders in Vietnam detected by a noninvasive prenatal test: a case seriesTran, 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 Characteristics and diversity of Vibrio parahaemolyticus causing acute hepatopancreatic necrosis disease in VietnamHuynh, Tuan-Binh, Mai-Hoang, Thuy-Dung, Bui-Nguyen, Tram-Anh, Ha, Trinh Thi Phuong, Phan, Minh-Duy and Tran-Van, Hieu (2023). Characteristics and diversity of Vibrio parahaemolyticus causing acute hepatopancreatic necrosis disease in Vietnam. Aquaculture and Fisheries. doi: 10.1016/j.aaf.2023.10.004 |
|
2023 Journal Article Effects of Ocimum basilicum mucilage on hyperlipidemia and gut microbiota on mice fed a high-fat dietNguyen-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 localizationNguyen, 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 Multimodal analysis of methylomics and fragmentomics in plasma cell-free DNA for multi-cancer early detection and localizationNguyen, 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 Improvement in neoantigen prediction via integration of RNA sequencing data for variant callingNguyen, 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 VietnamNguyen, 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 Journal Article Genetic basis of I-complex plasmid stability and conjugationLian, 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 cancerPham, 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 bindingPham, 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 |
