Shuai Cheng Li

Publication Activity (10 Years)

Years Active: 2004-2024
Publications (10 Years): 20

Top Topics

Specific Features

Protein Structure

Physicochemical Properties

Top Venues

IEEE ACM Trans. Comput. Biol. Bioinform.

Publications

Miaozhe Huo, Yuepeng Jiang, Shuai Cheng Li
Unlocking T-cell receptor-epitope insights with structural analysis. Nat. Comput. Sci. 4 (7) (2024)
Ruohan Wang, Xiang-Li-Lan Zhang, Jianping Wang, Shuai Cheng Li
DeepHost: phage host prediction with convolutional neural network. Briefings Bioinform. 23 (1) (2022)
Shuai Wang, Yiqi Jiang, Shuai Cheng Li
PStrain: an iterative microbial strains profiling algorithm for shotgun metagenomic sequencing data. Bioinform. 36 (22-23) (2021)
Wenlong Jia, Chang Xu, Shuai Cheng Li
Resolving complex structures at oncovirus integration loci with conjugate graph. Briefings Bioinform. 22 (6) (2021)
Wenlong Jia, Hechen Li, Shiying Li, Lingxi Chen, Shuai Cheng Li
Oviz-Bio: a web-based platform for interactive cancer genomics data visualization. Nucleic Acids Res. 48 (Webserver-Issue) (2020)
Xikang Feng, Lingxi Chen, Zishuai Wang, Shuai Cheng Li
I-Impute: a self-consistent method to impute single cell RNA sequencing data. BMC Genom. 21 (S-10) (2020)
Zicheng Zhao, Yingxiao Zhou, Shuai Wang, Xiuqing Zhang, Changfa Wang, Shuai Cheng Li
LDscaff: LD-based scaffolding of de novo genome assemblies. BMC Bioinform. (21) (2020)
Yilin Liu, Jiao Xu, Miaoxia Chen, Changfa Wang, Shuai Cheng Li
A unified STR profiling system across multiple species with whole genome sequencing data. BMC Bioinform. (24) (2019)
Xikang Feng, Zishuai Wang, Hechen Li, Shuai Cheng Li
MIRIA: a webserver for statistical, visual and meta-analysis of RNA editing data in mammals. BMC Bioinform. (24) (2019)
Lingxi Chen, Jiao Xu, Shuai Cheng Li
DeepMF: deciphering the latent patterns in omics profiles with a deep learning method. BMC Bioinform. (23) (2019)
Qi Niu, Shaoliang Peng, Xiang-Li-Lan Zhang, Shuai Cheng Li, Ying Xu, Xiang-Cheng Xie, Yi-Gang Tong
LysoPhD: predicting functional prophages in bacterial genomes from high-throughput sequencing. BIBM (2019)
Lusheng Wang, Shuai Cheng Li, Yi-Ping Phoebe Chen
Guest Editorial for the 15th Asia Pacific Bioinformatics Conference. IEEE ACM Trans. Comput. Biol. Bioinform. 15 (5) (2018)
Joshua Chan Mun Wei, Zicheng Zhao, Shuai Cheng Li, Yen Kaow Ng
NGS-based likelihood ratio for identifying contributors in two- and three-person DNA mixtures. Comput. Biol. Chem. 74 (2018)
Yen Kaow Ng, Wenlong Jia, Shuai Cheng Li
Placing Segments on Parallel Arcs. IWOCA (2018)
Mengxuan Lyu, Jiaxing Chen, Yiqi Jiang, Wei Dong, Zhou Fang, Shuai Cheng Li
KDiamend: a package for detecting key drivers in a molecular ecological network of disease. BMC Syst. Biol. 12 (1) (2018)
Jianwei Zhu, Haicang Zhang, Shuai Cheng Li, Chao Wang, Lupeng Kong, Shiwei Sun, Wei-Mou Zheng, Dongbo Bu
Improving protein fold recognition by extracting fold-specific features from predicted residue-residue contacts. Bioinform. 33 (23) (2017)
Chao Wang, Haicang Zhang, Wei-Mou Zheng, Dong Xu, Jianwei Zhu, Bing Wang, Kang Ning, Shiwei Sun, Shuai Cheng Li, Dongbo Bu
FALCON@home: a high-throughput protein structure prediction server based on remote homologue recognition. Bioinform. 32 (3) (2016)
Bowen Tan, Zhe Zhang, Zicheng Zhao, Shengbin Li, Shuai Cheng Li
Finding more effective microsatellite markers for forensics. BIBM (2016)
Lu Zhang, Jiaxing Chen, Shuai Cheng Li
More accurate models for detecting gene-gene interactions from public expression compendia. BIBM (2016)
Fei Guo, Yijie Ding, Shuai Cheng Li, Chao Shen, Lusheng Wang
Protein-protein interface prediction based on hexagon structure similarity. Comput. Biol. Chem. 63 (2016)
Jin Li, Yen Kaow Ng, Xingwu Liu, Shuai Cheng Li
On the Near-Linear Correlation of the Eigenvalues Across BLOSUM Matrices. ISBRA (2015)
Dandan Song, Jiaxing Chen, Guang Chen, Ning Li, Jin Li, Jun Fan, Dongbo Bu, Shuai Cheng Li
Parameterized BLOSUM Matrices for Protein Alignment. IEEE ACM Trans. Comput. Biol. Bioinform. 12 (3) (2015)
Yen Kaow Ng, Linzhi Yin, Hirotaka Ono, Shuai Cheng Li
Finding All Longest Common Segments in Protein Structures Efficiently. IEEE ACM Trans. Comput. Biol. Bioinform. 12 (3) (2015)
Xuefeng Cui, Hiroyuki Kuwahara, Shuai Cheng Li, Xin Gao
Compare local pocket and global protein structure models by small structure patterns. BCB (2015)
Fei Guo, Shuai Cheng Li, Pufeng Du, Lusheng Wang
Probabilistic Models for Capturing More Physicochemical Properties on Protein-Protein Interface. J. Chem. Inf. Model. 54 (6) (2014)
Laleh Soltan Ghoraie, Forbes J. Burkowski, Shuai Cheng Li, Mu Zhu
Residue-Specific Side-Chain Polymorphismsvia Particle Belief Propagation. IEEE ACM Trans. Comput. Biol. Bioinform. 11 (1) (2014)
Xiaowen Liu, Matthew W. Segar, Shuai Cheng Li, Sangtae Kim
Spectral probabilities of top-down tandem mass spectra. BMC Genom. 15 (S-1) (2014)
Xuefeng Cui, Shuai Cheng Li, Lin He, Ming Li
Fingerprinting protein structures effectively and efficiently. Bioinform. 30 (7) (2014)
Ying Fan, Ruoshui Lu, Lusheng Wang, Massimo Andreatta, Shuai Cheng Li
Quantifying Significance of MHC II Residues. IEEE ACM Trans. Comput. Biol. Bioinform. 11 (1) (2014)
Fei Guo, Shuai Cheng Li, Wenji Ma, Lusheng Wang
Detecting Protein Conformational Changes in Interactions via Scaling Known Structures. RECOMB (2013)
Xuefeng Cui, Shuai Cheng Li, Dongbo Bu, Babak Alipanahi, Ming Li
Protein Structure Idealization: How accurately is it possible to model protein structures with dihedral angles? Algorithms Mol. Biol. 8 (2013)
Fei Guo, Shuai Cheng Li, Wenji Ma, Lusheng Wang
Detecting Protein Conformational Changes in Interactions via Scaling Known Structures. J. Comput. Biol. 20 (10) (2013)
Daniel Holtby, Shuai Cheng Li, Ming Li
LoopWeaver: Loop Modeling by the Weighted Scaling of Verified Proteins. J. Comput. Biol. 20 (3) (2013)
Xuefeng Cui, Shuai Cheng Li, Dongbo Bu, Ming Li
Towards Reliable Automatic Protein Structure Alignment. WABI (2013)
Shuai Cheng Li
The Difficulty Of Protein Structure Alignment Under The RMSD. Algorithms Mol. Biol. 8 (2013)
Yen Kaow Ng, Hirotaka Ono, Ling Ge, Shuai Cheng Li
Finding Longest Common Segments in Protein Structures in Nearly Linear Time. CPM (2012)
Shuai Cheng Li, Dongbo Bu, Ming Li
Residues with Similar Hexagon Neighborhoods Share Similar Side-Chain Conformations. IEEE ACM Trans. Comput. Biol. Bioinform. 9 (1) (2012)
Daniel Holtby, Shuai Cheng Li, Ming Li
LoopWeaver - Loop Modeling by the Weighted Scaling of Verified Proteins. RECOMB (2012)
Fei Guo, Shuai Cheng Li, Lusheng Wang, Daming Zhu
Protein-protein binding site identification by enumerating the configurations. BMC Bioinform. 13 (2012)
Fei Guo, Shuai Cheng Li, Lusheng Wang
P-Binder: A System for the Protein-Protein Binding Sites Identification. ISBRA (2012)
Xuefeng Cui, Shuai Cheng Li, Dongbo Bu, Babak Alipanahi Ramandi, Ming Li
How Accurately Can We Model Protein Structures with Dihedral Angles? WABI (2012)
Shuai Cheng Li, Dongbo Bu, Ming Li
Clustering 100, 000 Protein Structure Decoys in Minutes. IEEE ACM Trans. Comput. Biol. Bioinform. 9 (3) (2012)
Bonnie Kirkpatrick, Shuai Cheng Li, Richard M. Karp, Eran Halperin
Pedigree Reconstruction Using Identity by Descent. RECOMB (2011)
Babak Alipanahi, Xin Gao, Emre Karakoç, Shuai Cheng Li, Frank J. Balbach, Guangyu Feng, Logan Donaldson, Ming Li
Error Tolerant NMR Backbone Resonance Assignment and Automated Structure Generation. J. Bioinform. Comput. Biol. 9 (1) (2011)
Shuai Cheng Li, Dongbo Bu, Jinbo Xu, Ming Li
Finding Nearly Optimal GDT Scores. J. Comput. Biol. 18 (5) (2011)
Bonnie Kirkpatrick, Shuai Cheng Li, Richard M. Karp, Eran Halperin
Pedigree Reconstruction Using Identity by Descent. J. Comput. Biol. 18 (11) (2011)
Shuai Cheng Li, Yen Kaow Ng
On protein structure alignment under distance constraint. Theor. Comput. Sci. 412 (32) (2011)
Fei Guo, Shuai Cheng Li, Lusheng Wang
Protein-Protein Binding Sites Prediction by 3D Structural Similarities. J. Chem. Inf. Model. 51 (12) (2011)
Shuai Cheng Li, Yen Kaow Ng
Calibur: a tool for clustering large numbers of protein decoys. BMC Bioinform. 11 (2010)
Yuzhong Zhao, Babak Alipanahi, Shuai Cheng Li, Ming Li
Protein Secondary Structure Prediction Using NMR Chemical Shift Data. J. Bioinform. Comput. Biol. 8 (5) (2010)
Shuai Cheng Li, Yen Kaow Ng
On Protein Structure Alignment under Distance Constraint. ISAAC (2009)
Shuai Cheng Li, Ming Li
On two open problems of 2-interval patterns. Theor. Comput. Sci. 410 (24-25) (2009)
Dongbo Bu, Ming Li, Shuai Cheng Li, Jianbo Qian, Jinbo Xu
Finding compact structural motifs. Theor. Comput. Sci. 410 (30-32) (2009)
Xin Gao, Jinbo Xu, Shuai Cheng Li, Ming Li
Predicting Local Quality of a Sequence-Structure Alignment. J. Bioinform. Comput. Biol. 7 (5) (2009)
Shuai Cheng Li, Yen Kaow Ng, Louxin Zhang
A PTAS for the k-Consensus Structures Problem Under Euclidean Squared Distance. FAW (2008)
Shuai Cheng Li, Dongbo Bu, Jinbo Xu, Ming Li
Finding Largest Well-Predicted Subset of Protein Structure Models. CPM (2008)
Shuai Cheng Li, Yen Kaow Ng, Louxin Zhang
-Consensus Structures Problem Under Squared Euclidean Distance. Algorithms 1 (2) (2008)
Shuai Cheng Li, Dongbo Bu, Xin Gao, Jinbo Xu, Ming Li
Designing succinct structural alphabets. ISMB (2008)
Jianbo Qian, Shuai Cheng Li, Dongbo Bu, Ming Li, Jinbo Xu
Finding Compact Structural Motifs. CPM (2007)
Shuai Cheng Li, Ming Li
On the Complexity of the Crossing Contact Map Pattern Matching Problem. WABI (2006)
Shuai Cheng Li
Faster Algorithms for Finding Missing Patterns. CATS (2006)
Xia Cao, Shuai Cheng Li, Anthony K. H. Tung
Indexing DNA Sequences Using q-Grams. DASFAA (2005)
Xia Cao, Shuai Cheng Li, Beng Chin Ooi, Anthony K. H. Tung
Piers: An Efficient Model for Similarity Search in DNA Sequence Databases. SIGMOD Rec. 33 (2) (2004)
Xia Cao, Anthony K. H. Tung, Beng Chin Ooi, Kian-Lee Tan, Shuai Cheng Li
String Join Using Precedence Count Matrix. SSDBM (2004)
Shuai Cheng Li, Hon Wai Leong, Steven K. Quek
New Approximation Algorithms for Some Dynamic Storage Allocation Problems. COCOON (2004)