Yufeng Wu - RankMe

46 papers B 6C 1Misc 2Journal 28Unranked 9

Year	Rank	Type	Title / Venue / Authors
2025	J	`jnl`	Bounding the number of reticulation events for displaying multiple trees in a phylogenetic network. J. Comput. Syst. Sci. Yufeng Wu, Louxin Zhang
2025	B	`conf`	ScisTree2: An Improved Method for Large-Scale Inference of Cell Lineage Trees and Genotype Calling from Noisy Single Cell Data. RECOMB Haotian Zhang, Yiming Zhang, Teng Gao, Yufeng Wu
2024	J	`jnl`	Computing the Bounds of the Number of Reticulations in a Tree-Child Network That Displays a Set of Trees. J. Comput. Biol. Yufeng Wu, Louxin Zhang
2023	—	`conf`	Bounding the Number of Reticulations in a Tree-Child Network that Displays a Set of Trees. RECOMB-CG Yufeng Wu, Louxin Zhang
2022	J	`jnl`	Detecting genomic deletions from high-throughput sequence data with unsupervised learning. BMC Bioinform. Xin Li, Yufeng Wu
2020	J	`jnl`	Accurate and efficient cell lineage tree inference from noisy single cell data: the maximum likelihood perfect phylogeny approach. Bioinform. Yufeng Wu
2020	J	`jnl`	Inference of population admixture network from local gene genealogies: a coalescent-based maximum likelihood approach. Bioinform. Yufeng Wu
2020	J	`jnl`	Inferring the ancestry of parents and grandparents from genetic data. PLoS Comput. Biol. Jingwen Pei, Yiming Zhang, Rasmus Nielsen, Yufeng Wu
2020	—	`conf`	scSNVIndel. accurate and efficient calling of SNVs and indels from single cell sequencing using integrated Bi-LSTM. BIBM Lei Cai, Yufeng Wu, Jingyang Gao
2019	J	`jnl`	DeepSV: accurate calling of genomic deletions from high-throughput sequencing data using deep convolutional neural network. BMC Bioinform. Lei Cai, Yufeng Wu, Jingyang Gao
2017	J	`jnl`	Concod: an effective integration framework of consensus-based calling deletions from next-generation sequencing data. Int. J. Data Min. Bioinform. Lei Cai, Chong Chu, Xiaodong Zhang, Yufeng Wu, Jingyang Gao
2017	—	`conf`	GAPPadder: A sensitive approach for closing gaps on draft genomes with short sequence reads. ICCABS Chong Chu, Xin Li, Yufeng Wu
2017	J	`jnl`	RENT+: an improved method for inferring local genealogical trees from haplotypes with recombination. Bioinform. Sajad Mirzaei, Yufeng Wu
2017	J	`jnl`	STELLS2: fast and accurate coalescent-based maximum likelihood inference of species trees from gene tree topologies. Bioinform. Jingwen Pei, Yufeng Wu
2016	J	`jnl`	An algorithm for computing the gene tree probability under the multispecies coalescent and its application in the inference of population tree. Bioinform. Yufeng Wu
2016	—	`conf`	Concod: Accurate consensus-based approach of calling deletions from high-throughput sequencing data. BIBM Xiaodong Zhang, Chong Chu, Yao Zhang, Yufeng Wu, Jingyang Gao
2016	J	`jnl`	Fast Construction of Near Parsimonious Hybridization Networks for Multiple Phylogenetic Trees. IEEE ACM Trans. Comput. Biol. Bioinform. Sajad Mirzaei, Yufeng Wu
2015	J	`jnl`	A coalescent-based method for population tree inference with haplotypes. Bioinform. Yufeng Wu
2015	J	`jnl`	SpliceJumper: a classification-based approach for calling splicing junctions from RNA-seq data. BMC Bioinform. Chong Chu, Xin Li, Yufeng Wu
2014	—	`conf`	An SVM-based approach for discovering splicing junctions with RNA-Seq. ICCABS Chong Chu, Yufeng Wu
2013	B	`conf`	An Algorithm for Constructing Parsimonious Hybridization Networks with Multiple Phylogenetic Trees. RECOMB Yufeng Wu
2013	J	`jnl`	An Algorithm for Constructing Parsimonious Hybridization Networks with Multiple Phylogenetic Trees. J. Comput. Biol. Yufeng Wu
2013	—	`conf`	An SVM-based approach for genotyping deletions and insertions with population sequence reads. ICCABS Chong Chu, Jin Zhang, Yufeng Wu
2012	J	`jnl`	An improved approach for accurate and efficient calling of structural variations with low-coverage sequence data. BMC Bioinform. Jin Zhang, Jiayin Wang, Yufeng Wu
2011	Misc	`conf`	Haplotype Inference from Single Short Sequence Reads Using a Population Genealogical History Model. Pacific Symposium on Biocomputing Jin Zhang, Yufeng Wu
2011	—	`conf`	Identifying interacting SNPs with parallel fish-agent based logic regression. ICCABS Jiayin Wang, Jin Zhang, Yufeng Wu
2011	J	`jnl`	Linkage disequilibrium based genotype calling from low-coverage shotgun sequencing reads. BMC Bioinform. Jorge Duitama, Justin Kennedy, Sanjiv Dinakar, Yözen Hernández, Yufeng Wu, Ion I. Mandoiu
2011	J	`jnl`	New Methods for Inference of Local Tree Topologies with Recombinant SNP Sequences in Populations. IEEE ACM Trans. Comput. Biol. Bioinform. Yufeng Wu
2011	J	`jnl`	SVseq: an approach for detecting exact breakpoints of deletions with low-coverage sequence data. Bioinform. Jin Zhang, Yufeng Wu
2010	B	`conf`	Bounds on the Minimum Mosaic of Population Sequences under Recombination. CPM Yufeng Wu
2010	J	`jnl`	Close lower and upper bounds for the minimum reticulate network of multiple phylogenetic trees. Bioinform. Yufeng Wu
2010	J	`jnl`	Exact Computation of Coalescent Likelihood for Panmictic and Subdivided Populations under the Infinite Sites Model. IEEE ACM Trans. Comput. Biol. Bioinform. Yufeng Wu
2010	—	`conf`	Fast Computation of the Exact Hybridization Number of Two Phylogenetic Trees. ISBRA Yufeng Wu, Jiayin Wang
2009	J	`jnl`	A practical method for exact computation of subtree prune and regraft distance. Bioinform. Yufeng Wu
2009	J	`jnl`	An analytical upper bound on the minimum number of recombinations in the history of SNP sequences in populations. Inf. Process. Lett. Yufeng Wu
2009	J	`jnl`	The Three-state Perfect Phylogeny Problem Reduces to 2-SAT. Commun. Inf. Syst. Dan Gusfield, Yufeng Wu
2008	J	`jnl`	A new recombination lower bound and the minimum perfect phylogenetic forest problem. J. Comb. Optim. Yufeng Wu, Dan Gusfield
2008	J	`jnl`	Association Mapping of Complex Diseases with Ancestral Recombination Graphs: Models and Efficient Algorithms. J. Comput. Biol. Yufeng Wu
2007	Misc	`conf`	A New Recombination Lower Bound and the Minimum Perfect Phylogenetic Forest Problem. COCOON Yufeng Wu, Dan Gusfield
2007	J	`jnl`	Algorithms to Distinguish the Role of Gene-Conversion from Single-Crossover Recombination in the Derivation of SNP Sequences in Populations. J. Comput. Biol. Yun S. Song, Zhihong Ding, Dan Gusfield, Charles H. Langley, Yufeng Wu
2007	B	`conf`	Association Mapping of Complex Diseases with Ancestral Recombination Graphs: Models and Efficient Algorithms. RECOMB Yufeng Wu
2007	J	`jnl`	Efficient Computation of Minimum Recombination with genotypes (not Haplotypes). J. Bioinform. Comput. Biol. Yufeng Wu, Dan Gusfield
2007	B	`conf`	Improved Algorithms for Inferring the Minimum Mosaic of a Set of Recombinants. CPM Yufeng Wu, Dan Gusfield
2006	B	`conf`	Algorithms to Distinguish the Role of Gene-Conversion from Single-Crossover Recombination in the Derivation of SNP Sequences in Populations. RECOMB Yun S. Song, Zhihong Ding, Dan Gusfield, Charles H. Langley, Yufeng Wu
2005	C	`conf`	Algorithms for Imperfect Phylogeny Haplotyping (IPPH) with a Single Homoplasy or Recombination Event. WABI Yun S. Song, Yufeng Wu, Dan Gusfield
2005	—	`conf`	Efficient computation of close lower and upper bounds on the minimum number of recombinations in biological sequence evolution. ISMB (Supplement of Bioinformatics) Yun S. Song, Yufeng Wu, Dan Gusfield