PhyNav: A Novel Approach to Reconstruct Large Phylogenies. - Le Sy Vinh; Heiko A. Schmidt; Arndt von Haeseler (GfKl, 2004)

pIQPNNI: parallel reconstruction of large maximum likelihood phylogenies. - Bui Quang Minh; Le Sy Vinh; Arndt von Haeseler; Heiko A. Schmidt (Bioinform., 2005)

Shortest triplet clustering: reconstructing large phylogenies using representative sets. - Le Sy Vinh; Arndt von Haeseler (BMC Bioinform., 2005)

Association-Based Dissimilarity Measures for Categorical Data: Limitation and Improvement. - Si Quang Le; Tu Bao Ho; Le Sy Vinh (PAKDD, 2006)

A Fast and Efficient Method for Estimating Amino Acid Substitution Models. - Van Dat Le; Cuong Cao Dang; Si Quang Le; Le Sy Vinh (KSE, 2011)

Protein Type Specific Amino Acid Substitution Models for Influenza Viruses. - Nguyen Van Sau; Cuong Cao Dang; Si Quang Le; Le Sy Vinh (KSE, 2011)

ReplacementMatrix: a web server for maximum-likelihood estimation of amino acid replacement rate matrices. - Cuong Cao Dang; Vincent Lefort; Le Sy Vinh; Si Quang Le; Olivier Gascuel (Bioinform., 2011)

Detecting Bad SNPs from Illumina BeadChips Using Jeffreys Distance. - Son Hoang Nguyen; Le Sy Vinh; Si Quang Le (KSE, 2012)

A Maximum Likelihood Method for Detecting Bad Samples from Illumina BeadChips Data. - Ha Anh Tuan Nguyen; Le Sy Vinh; Si Quang Le (KSE, 2012)

FastMG: a simple, fast, and accurate maximum likelihood procedure to estimate amino acid replacement rate matrices from large data sets. - Cuong Cao Dang; Le Sy Vinh; Olivier Gascuel; Bart Hazes; Si Quang Le (BMC Bioinform., 2014)

MVRM: A Hybrid Approach to Predict siRNA Efficacy. - Bui Ngoc Thang; Le Sy Vinh; Ho Tu Bao (KSE, 2015)

Building Population-Specific Reference Genomes: A Case Study of Vietnamese Reference Genome. - Nguyen Dai Thanh; Pham Thi Minh Trang; Dang Thanh Hai; Nguyen Ha Anh Tuan; Si Quang Le; Bui Quang Minh; Quang Minh Dao; Pham Bao Son; Le Sy Vinh (KSE, 2015)

A new phylogenetic tree sampling method for maximum parsimony bootstrapping and proof-of-concept implementation. - Diep Thi Hoang; Le Sy Vinh; Tomás Flouri; Alexandros Stamatakis; Arndt von Haeseler; Bui Quang Minh (KSE, 2016)

Preface KSE 2016. - Minh Le Nguyen 001; Le Sy Vinh; Yew-Soon Ong; Lam Thu Bui; Keiji Hirata 001 (KSE, 2016)

Genomedics: Whole exome analysis system for clinical studies. - Le Sy Vinh; Nguyen Duc Canh; Bui Ngoc Thang; Do Thi Thu Hang; Duong Quoc Chinh; Tran Cong Hoang; Le Ba Hong Minh; Pham Thi Dieu Linh (KSE, 2017)

Building Ancestral Recombination Graphs for Whole Genomes. - Thao Thi Phuong Nguyen; Le Sy Vinh; Ho Bich Hai; Si Quang Le (IEEE ACM Trans. Comput. Biol. Bioinform., 2017)

Building a Specific Amino Acid Substitution Model for Dengue Viruses. - Thu Le Kim; Cuong Cao Dang; Le Sy Vinh (KSE, 2018)

A Hybrid Approach to Optimize the Number of Recombinations in Ancestral Recombination Graphs. - Nguyen Thi Phuong Thao; Le Sy Vinh (ICBBB, 2019)

pQMaker: empirically estimating amino acid substitution models in a parallel environment. - Nguyen Duc Canh; Cuong Cao Dang; Le Sy Vinh; Bui Quang Minh; Diep Thi Hoang (KSE, 2020)

iK-means: an improvement of the iterative k-means partitioning algorithm. - Thu Kim Le; Le Sy Vinh; Dong Do Due; Bui Ngoc Thang; Thao Thi Phuong Nguyen (KSE, 2020)

A protein alignment partitioning method for protein phylogenetic inference. - Thu Le Kim; Le Sy Vinh (RIVF, 2020)

fastTIGER: A rapid method for estimating evolutionary rates of sites from large datasets. - Thu Kim Le; Le Sy Vinh (KSE, 2021)

A protein secondary structure-based algorithm for partitioning large protein alignments. - Thu Kim Le; Le Sy Vinh (KSE, 2022)

Welcome Message from the KSE 2023 General Committee. - Nguyen Le Minh 001; Le Sy Vinh; Bui Thu Lam (KSE, 2023)

Rooting Phylogenetic Trees from Protein Alignments. - Tinh H. Nguyen; Cuong Cao Dang; Le Sy Vinh (KSE, 2023)

QMix: An Efficient Program to Automatically Estimate Multi-Matrix Mixture Models for Amino Acid Substitution Process. - Nguyen Huy Tinh; Cuong Cao Dang; Le Sy Vinh (J. Comput. Biol., 2024)

Evolutionary multitasking algorithm based on a dynamic solution encoding strategy for the minimum s-club cover problem. - Pham Dinh Thanh; Nguyen Binh Long; Le Sy Vinh; Huynh Thi Thanh Binh (Evol. Intell., 2025)