Prof. SUN Yanni (孫燕妮)
Research Output
- 2025
- Published
MOSTPLAS: A Self-correction Multi-label Learning Model for Plasmid Host Range Prediction
Zou, W., Ji, Y., Guan, J. & Sun, Y., Mar 2025, In: Bioinformatics. 41, 3, btaf075.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
- Accepted/In press/Filed
RTTAP: 基於短讀長的全感染組分類分析流程
JIANG, W. (Inventor), LIAO, H. (Inventor), Shi, Mang (Inventor), Chen, Liangjun (Inventor) & SUN, Y. (Inventor), 12 Feb 2025, (Accepted/In press/Filed) Priority No. 2025101558418Research output: Patents, Agreements and Assignments › RGC 51 - Patents (CityUHK)
- Published
GOPhage: protein function annotation for bacteriophages by integrating the genomic context
Guan, J., Ji, Y., Peng, C., Zou, W., Tang, X., Shang, J. & Sun, Y., Jan 2025, In: Briefings in Bioinformatics. 26, 1, bbaf014.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
- 2024
- Published
ViraLM: empowering virus discovery through the genome foundation model
Peng, C. (Co-first Author), Shang, J. (Co-first Author), Guan, J., Wang, D. & Sun, Y., Dec 2024, In: Bioinformatics. 40, 12, btae704.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Scopus citations: 1 - Published
VirID: Beyond Virus Discovery — An Integrated Platform for Comprehensive RNA Virus Characterization
Yang, Z. (Co-first Author), Shan, Y. (Co-first Author), Liu, X., Chen, G., Pan, Y., Gou, Q. & Zou, J. & 13 others, , Oct 2024, In: Molecular Biology and Evolution. 41, 10, msae202.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
- Published
VirTAXA: Enhancing RNA virus taxonomic classification with remote homology search and tree-based validation
Zhu, Y., Chen, G. & Sun, Y., Oct 2024, In: Bioinformatics. 40, 10, btae575.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
- Published
Accurate and efficient protein embedding using multi-teacher distillation learning
Shang, J., Peng, C., Ji, Y., Guan, J., Cai, D., Tang, X. & Sun, Y., Sept 2024, In: Bioinformatics. 40, 9, btae567.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Scopus citations: 1 - Published
SegVir: Reconstruction of Complete Segmented RNA Viral Genomes from Metatranscriptomes
Tang, X., Shang, J., Chen, G., Chan, K. H. K., Shi, M. & Sun, Y., Aug 2024, In: Molecular Biology and Evolution. 41, 8, msae171.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Scopus citations: 1 - Published
Towards more accurate microbial source tracking via non-negative matrix factorization (NMF)
Huang, Z. (Co-first Author), Cai, D. (Co-first Author) & Sun, Y., Jul 2024, ISMB 2024 Proceedings. Oxford University Press, p. i68-i78 (Bioinformatics; vol. 40, no. Supplement_1).Research output: Chapters, Conference Papers, Creative and Literary Works › RGC 32 - Refereed conference paper (with host publication) › peer-review
Scopus citations: 2 - Published
Utilizing profile hidden Markov model databases for discovering viruses from metagenomic data: a comprehensive review
Yu, R., Huang, Z., Lam, T. Y. C. & Sun, Y., Jul 2024, In: Briefings in Bioinformatics. 25, 4, bbae292.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Scopus citations: 2 - Published
The clinical outcome of COVID-19 is strongly associated with microbiome dynamics in the upper respiratory tract
Xie, L. (Co-first Author), Luo, G. (Co-first Author), Yang, Z., Wu, W.-C., Chen, J., Ren, Y. & Zeng, Z. & 13 others, , Mar 2024, In: Journal of Infection. 88, 3, 106118.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Scopus citations: 2 - Published
Identifying ARG-carrying bacteriophages in a lake replenished by reclaimed water using deep learning techniques
Wang, D., Shang, J., Lin, H., Liang, J., Wang, C., Sun, Y. & Bai, Y. & 1 others, , 1 Jan 2024, In: Water Research. 248, 120859.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Scopus citations: 8 - Published
Accelerating de novo SINE annotation in plant and animal genomes
Liao, H., Sun, Y. & Ou, S., 2024, In: Mobile DNA. 15, 24.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
- Published
Consensus statement from the first RdRp Summit: advancing RNA virus discovery at scale across communities
Charon, J., Olendraite, I., Forgia, M., Chong, L. C., Hillary, L. S., Roux, S. & Kupczok, A. & 40 others, , 2024, In: Frontiers in Virology. 4, 1371958.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Scopus citations: 4 - Published
PlasGO: enhancing GO-based function prediction for plasmid-encoded proteins based on genetic structure
Ji, Y., Shang, J., Guan, J., Zou, W., Liao, H., Tang, X. & Sun, Y., 2024, In: GigaScience. 13, 17 p., giae104.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
- Presented
Quantum Modeling for Simulating Biological Stochastic Processes
Ho, L. Y. L., PAN, L., MENG, F., Ho, K. T. M., LIU, F., Wu, M.-T. & Lei, P. & 5 others, , 2024, (Presented).Research output: Conference Papers › Poster › peer-review
- Published
Quantum modeling simulates nutrient effect of bioplastic polyhydroxyalkanoate (PHA) production in Pseudomonas putida
Ho, L. Y. L., Pan, L., Meng, F., Ho, K. T. M., Liu, F., Wu, M.-T. & Lei, H. I. & 6 others, , 2024, In: Scientific Reports. 14, 18255.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Scopus citations: 1 - Published
RNAVirHost: a machine learning–based method for predicting hosts of RNA viruses through viral genomes
Chen, G., Jiang, J. & Sun, Y., 2024, In: GigaScience. 13, giae059.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
- 2023
- Published
GDmicro: classifying host disease status with GCN and deep adaptation network based on the human gut microbiome data
Liao, H., Shang, J. & Sun, Y., Dec 2023, In: Bioinformatics. 39, 12, btad747.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Scopus citations: 2 - Published
LncRNA-Top: Controlled Deep Learning Approaches for LncRNA Gene Regulatory Relationship Annotations across Different Platforms
Xie, W., Chen, X., Zheng, Z., Wang, F., Zhu, X., Lin, Q. & Sun, Y. & 1 others, , 17 Nov 2023, In: iScience. 26, 11, 108197.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review