Dr. SUN Yanni (孫燕妮)
Research Output
- 2023
- Accepted/In press/Filed
PhaVIP: Phage VIrion Protein classification based on chaos game representation and Vision Transformer
Shang, J., Peng, C., Tang, X. & Sun, Y., Jul 2023, (Accepted/In press/Filed) ISMB/ECCB 2023 Proceedings.Research output: Chapters, Conference Papers, Creative and Literary Works (RGC: 12, 32, 41, 45) › 32_Refereed conference paper (with ISBN/ISSN) › peer-review
- Published
Global prevalence of SARS-CoV-2 3CL protease mutations associated with nirmatrelvir or ensitrelvir resistance
Ip, J. D., Chu, A. W., Chan, W., Leung, R. C., Abdullah, S. M. U., Sun, Y. & To, K. K., May 2023, In: eBioMedicine. 91, 104559.Research output: Journal Publications and Reviews (RGC: 21, 22, 62) › 21_Publication in refereed journal › peer-review
- Published
HOTSPOT: hierarchical host prediction for assembled plasmid contigs with transformer
Ji, Y., Shang, J., Tang, X. & Sun, Y., May 2023, In: Bioinformatics. 39, 5, btad283.Research output: Journal Publications and Reviews (RGC: 21, 22, 62) › 21_Publication in refereed journal › peer-review
- Published
VirBot: an RNA viral contig detector for metagenomic data
Chen, G., Tang, X., Shi, M. & Sun, Y., Mar 2023, In: Bioinformatics. 39, 3, btad093.Research output: Journal Publications and Reviews (RGC: 21, 22, 62) › 21_Publication in refereed journal › peer-review
- Published
AccuVIR: an ACCUrate VIRal genome assembly tool for third-generation sequencing data
Yu, R., Cai, D. & Sun, Y., Jan 2023, In: Bioinformatics. 39, 1, 8 p., btac827.Research output: Journal Publications and Reviews (RGC: 21, 22, 62) › 21_Publication in refereed journal › peer-review
- Published
Critical Assessment of Whole Genome and Viral Enrichment Shotgun Metagenome on the Characterization of Stool Total Virome in Hepatocellular Carcinoma Patients
Zhang, F., Gia, A., Chen, G., Gong, L., Behary, J., Hold, G. L., Zekry, A., & 4 others , Jan 2023, In: Viruses. 15, 1, 13 p.Research output: Journal Publications and Reviews (RGC: 21, 22, 62) › 21_Publication in refereed journal › peer-review
- Published
PhaTYP: predicting the lifestyle for bacteriophages using BERT
Shang, J., Tang, X. & Sun, Y., Jan 2023, In: Briefings in Bioinformatics. 24, 1, bbac487.Research output: Journal Publications and Reviews (RGC: 21, 22, 62) › 21_Publication in refereed journal › peer-review
Scopus citations: 2 - Published
Virus classification for viral genomic fragments using PhaGCN2
Jiang, J., Yuan, W., Shang, J., Shi, Y., Yang, L., Liu, M., Zhu, P., & 3 others , Jan 2023, In: Briefings in Bioinformatics. 24, 1, bbac505.Research output: Journal Publications and Reviews (RGC: 21, 22, 62) › 21_Publication in refereed journal › peer-review
- 2022
- Published
HaploDMF: viral Haplotype reconstruction from long reads via Deep Matrix Factorization
Cai, D., Shang, J. & Sun, Y., 15 Dec 2022, In: Bioinformatics. 38, 24, p. 5360–5367Research output: Journal Publications and Reviews (RGC: 21, 22, 62) › 21_Publication in refereed journal › peer-review
- Published
SEISMIC HAZARD DETERMINATION METHOD AND SYSTEM
ZUKERMAN, M., Wang, Gang, WANG, Z., MORAN, W., SUN, Y., WANG, Q., WANG, X., & 1 others , 15 Nov 2022, Patent No. US11,500,125, Priority No. 16/889,663Research output: Patents, Agreements and Assignments (RGC: 51, 52, 53) › 51_Patents granted (CityU only, data source from KTO)
- Published
Artificial Intelligence in Meta-optics
Chen, M. K., Liu, X., Sun, Y. & Tsai, D. P., 12 Oct 2022, In: Chemical Reviews. 122, 19, p. 15356–15413 58 p.Research output: Journal Publications and Reviews (RGC: 21, 22, 62) › 21_Publication in refereed journal › peer-review
Scopus citations: 20 - Published
Distinct composition and amplification dynamics of transposable elements in sacred lotus (Nelumbo nucifera Gaertn.)
Cerbin, S., Ou, S., Li, Y., Sun, Y. & Jiang, N., Oct 2022, In: Plant Journal. 112, 1, p. 172-192Research output: Journal Publications and Reviews (RGC: 21, 22, 62) › 21_Publication in refereed journal › peer-review
- Published
CHERRY: a Computational metHod for accuratE pRediction of virus–pRokarYotic interactions using a graph encoder–decoder model
Shang, J. & Sun, Y., Sep 2022, In: Briefings in Bioinformatics. 23, 5, bbac182.Research output: Journal Publications and Reviews (RGC: 21, 22, 62) › 21_Publication in refereed journal › peer-review
Scopus citations: 3 - Published
Accurate identification of bacteriophages from metagenomic data using Transformer
Shang, J., Tang, X., Guo, R. & Sun, Y., Jul 2022, In: Briefings in Bioinformatics. 23, 4, bbac258.Research output: Journal Publications and Reviews (RGC: 21, 22, 62) › 21_Publication in refereed journal › peer-review
Scopus citations: 3 - Published
Reconstructing viral haplotypes using long reads
Cai, D. & Sun, Y., 15 Apr 2022, In: Bioinformatics. 38, 8, p. 2127–2134 8 p.Research output: Journal Publications and Reviews (RGC: 21, 22, 62) › 21_Publication in refereed journal › peer-review
Scopus citations: 1 - Published
RdRp-based sensitive taxonomic classification of RNA viruses for metagenomic data
Tang, X., Shang, J. & Sun, Y., Mar 2022, In: Briefings in Bioinformatics. 23, 2, bbac011.Research output: Journal Publications and Reviews (RGC: 21, 22, 62) › 21_Publication in refereed journal › peer-review
Scopus citations: 1 - Published
AnnoSINE: a short interspersed nuclear elements annotation tool for plant genomes
Li, Y., Jiang, N. & Sun, Y., Feb 2022, In: Plant Physiology. 188, 2, p. 955-970Research output: Journal Publications and Reviews (RGC: 21, 22, 62) › 21_Publication in refereed journal › peer-review
Scopus citations: 1 - Published
Phage family classification under Caudoviricetes: A review of current tools using the latest ICTV classification framework
Zhu, Y., Shang, J., Peng, C. & Sun, Y., 2022, In: Frontiers in Microbiology. 13, 1032186.Research output: Journal Publications and Reviews (RGC: 21, 22, 62) › 21_Publication in refereed journal › peer-review
Scopus citations: 1 - Published
VirStrain: a strain identification tool for RNA viruses
Liao, H., Cai, D. & Sun, Y., 2022, In: Genome Biology. 23, 1, 38.Research output: Journal Publications and Reviews (RGC: 21, 22, 62) › 21_Publication in refereed journal › peer-review
Scopus citations: 3 - 2021
- Published
Bacteriophage classification for assembled contigs using Graph Convolutional Network
Shang, J., Jiang, J. & Sun, Y., Jul 2021, ISMB/ECCB 2021 Proceedings. Oxford University Press, p. i25-i33 9 p. (Bioinformatics; vol. 37, no. Suppl. 1).Research output: Chapters, Conference Papers, Creative and Literary Works (RGC: 12, 32, 41, 45) › 32_Refereed conference paper (with ISBN/ISSN) › peer-review
Scopus citations: 13