Li-San Wang

43 papers A* 2A 2C 4Misc 3Journal 25Unranked 6
YearRankTypeTitle / Venue / Authors
2025 J jnl
BTS: a scalable Bayesian Tissue Score for prioritizing GWAS variants and their functional contexts across >1000s of omics datasets.
Bioinform.
Pavel P. Kuksa, Matei Ionita, Luke Carter, Jeffrey Cifello, Prabhakaran Gangadharan, Kaylyn Clark, Otto Valladares, Yuk Yee Leung, Li-San Wang
2023 J jnl
hipFG: high-throughput harmonization and integration pipeline for functional genomics data.
Bioinform.
Jeffrey Cifello, Pavel P. Kuksa, Naveensri Saravanan, Otto Valladares, Li-San Wang, Yuk Yee Leung
2022 J jnl
Omnibus and robust deconvolution scheme for bulk RNA sequencing data integrating multiple single-cell reference sets and prior biological knowledge.
Bioinform.
Chixiang Chen, Yuk Yee Leung, Matei Ionita, Li-San Wang, Mingyao Li
2020 J jnl
SparkINFERNO: a scalable high-throughput pipeline for inferring molecular mechanisms of non-coding genetic variants.
Bioinform.
Pavel P. Kuksa, Chien-Yueh Lee, Alexandre Amlie-Wolf, Prabhakaran Gangadharan, Elizabeth E. Mlynarski, Yi-Fan Chou, Han-Jen Lin, Heather Issen, Emily Greenfest-Allen, Otto Valladares, Yuk Yee Leung, Li-San Wang
2019 J jnl
DASHR 2.0: integrated database of human small non-coding RNA genes and mature products.
Bioinform.
Pavel P. Kuksa, Alexandre Amlie-Wolf, Zivadin Katanic, Otto Valladares, Li-San Wang, Yuk Yee Leung
2019 J jnl
VCPA: genomic variant calling pipeline and data management tool for Alzheimer's Disease Sequencing Project.
Bioinform.
Yuk Yee Leung, Otto Valladares, Yi-Fan Chou, Han-Jen Lin, Amanda Kuzma, Laura Cantwell, Liming Qu, Prabhakaran Gangadharan, William J. Salerno, Gerard D. Schellenberg, Li-San Wang
2019 J jnl
VCPA: genomic variant calling pipeline and data management tool for Alzheimer's Disease Sequencing Project.
Bioinform.
Yuk Yee Leung, Otto Valladares, Yi-Fan Chou, Han-Jen Lin, Amanda Kuzma, Laura Cantwell, Liming Qu, William J. Salerno, Gerard D. Schellenberg, Li-San Wang
2018 J jnl
Functional annotation of genomic variants in studies of late-onset Alzheimer's disease.
Bioinform.
Mariusz Butkiewicz, Elizabeth E. Blue, Yuk Yee Leung, Xueqiu Jian, Edoardo Marcora, Alan E. Renton, Amanda Kuzma, Li-San Wang, Daniel C. Koboldt, Jonathan L. Haines, William S. Bush
2018 J jnl
Integrative DNA copy number detection and genotyping from sequencing and array-based platforms.
Bioinform.
Zilu Zhou, Weixin Wang, Li-San Wang, Nancy Ruonan Zhang
2018 J jnl
SPAR: small RNA-seq portal for analysis of sequencing experiments.
Nucleic Acids Res.
Pavel P. Kuksa, Alexandre Amlie-Wolf, Zivadin Katanic, Otto Valladares, Li-San Wang, Yuk Yee Leung
2016 J jnl
A comprehensive database of high-throughput sequencing-based RNA secondary structure probing data (Structure Surfer).
BMC Bioinform.
Nathan D. Berkowitz, Ian M. Silverman, Daniel M. Childress, Hilal Kazan, Li-San Wang, Brian D. Gregory
2016 J jnl
DASHR: database of small human noncoding RNAs.
Nucleic Acids Res.
Yuk Yee Leung, Pavel P. Kuksa, Alexandre Amlie-Wolf, Otto Valladares, Lyle H. Ungar, Sampath Kannan, Brian D. Gregory, Li-San Wang
2015 J jnl
HIPPIE: a high-throughput identification pipeline for promoter interacting enhancer elements.
Bioinform.
Yih-Chii Hwang, Chiao-Feng Lin, Otto Valladares, John Malamon, Pavel P. Kuksa, Qi Zheng, Brian D. Gregory, Li-San Wang
2015 J jnl
PASTA: Ultra-Large Multiple Sequence Alignment for Nucleotide and Amino-Acid Sequences.
J. Comput. Biol.
Siavash Mirarab, Nam Nguyen, Sheng Guo, Li-San Wang, Junhyong Kim, Tandy J. Warnow
2013 J jnl
DRAW+SneakPeek: Analysis workflow and quality metric management for DNA-seq experiments.
Bioinform.
Chiao-Feng Lin, Otto Valladares, Daniel M. Childress, Egor Klevak, Evan T. Geller, Yih-Chii Hwang, Ellen A. Tsai, Gerard D. Schellenberg, Li-San Wang
2012 J jnl
DACTAL: divide-and-conquer trees (almost) without alignments.
Bioinform.
Serita M. Nelesen, Kevin Liu, Li-San Wang, C. Randal Linder, Tandy J. Warnow
2012 J jnl
SAVoR: a server for sequencing annotation and visualization of RNA structures.
Nucleic Acids Res.
Fan Li, Paul Ryvkin, Daniel M. Childress, Otto Valladares, Brian D. Gregory, Li-San Wang
2011 — conf
Invited: Multiclass RNA function classification using next-generation sequencing.
ICCABS
Paul Ryvkin, Yuk Yee Leung, Li-San Wang, Brian D. Gregory
2011 J jnl
The Impact of Multiple Protein Sequence Alignment on Phylogenetic Estimation.
IEEE ACM Trans. Comput. Biol. Bioinform.
Li-San Wang, James H. Leebens-Mack, P. Kerr Wall, Kevin Beckmann, Claude W. dePamphilis, Tandy J. Warnow
2010 J jnl
Correcting population stratification in genetic association studies using a phylogenetic approach.
Bioinform.
Mingyao Li, Muredach P. Reilly, Daniel J. Rader, Li-San Wang
2009 J jnl
A Bayesian approach to efficient differential allocation for resampling-based significance testing.
BMC Bioinform.
Shane T. Jensen, Sameer Soi, Li-San Wang
2007 — ch.
Distance-based genome rearrangement phylogeny.
Mathematics of Evolution and Phylogeny
Li-San Wang, Tandy J. Warnow
2006 — conf
Dense subgraph computation via stochastic search: application to detect transcriptional modules.
ISMB (Supplement of Bioinformatics)
Logan Everett, Li-San Wang, Sridhar Hannenhalli
2006 J jnl
Reconstructing Chromosomal Evolution.
SIAM J. Comput.
Li-San Wang, Tandy J. Warnow
2006 — conf
Transcriptional Target Prediction Using Qualitative Reasoning.
EMBC
Li-San Wang, Doris Wagner, Chang Seob Kwon, Yanhui Su, Junhyong Kim
2006 A* conf
Weighted isotonic regression under the
SODA
Stanislav Angelov, Boulos Harb, Sampath Kannan, Li-San Wang
2005 — conf
An Interaction-Dependent Model for Transcription Factor Binding.
Systems Biology and Regulatory Genomics
Li-San Wang, Shane T. Jensen, Sridhar Hannenhalli
2005 — conf
Enhanced position weight matrices using mixture models.
ISMB (Supplement of Bioinformatics)
Sridhar Hannenhalli, Li-San Wang
2005 C conf
Improving Genome Rearrangement Phylogeny Using Sequence-Style Parsimony.
BIBE
Jijun Tang, Li-San Wang
2005 Misc conf
Phylogenetic Networks, Trees, and Clusters.
International Conference on Computational Science (2)
Luay Nakhleh, Li-San Wang
2005 J jnl
Phylogenetic Networks: Properties and Relationship to Trees and Clusters.
Trans. Comp. Sys. Biology
Luay Nakhleh, Li-San Wang
2005 Misc conf
RIATA-HGT: A Fast and Accurate Heuristic for Reconstructing Horizontal Gene Transfer.
COCOON
Luay Nakhleh, Derek A. Ruths, Li-San Wang
2004 C conf
Genome Identification and Classification by Short Oligo Arrays.
WABI
Stanislav Angelov, Boulos Harb, Sampath Kannan, Sanjeev Khanna, Junhyong Kim, Li-San Wang
2003 J jnl
Analyzing the Order of Items in Manuscripts of
Comput. Humanit.
Matthew Spencer, Barbara Bordalejo, Li-San Wang, Adrian C. Barbrook, Linne R. Mooney, Peter Robinson, Tandy J. Warnow, Christopher J. Howe
2002 Misc conf
Fast Phylogenetic Methods for the Analysis of Genome Rearrangement Data: An Empirical Study.
Pacific Symposium on Biocomputing
Li-San Wang, Robert K. Jansen, Bernard M. E. Moret, Linda A. Raubeson, Tandy J. Warnow
2002 C conf
Genome Rearrangement Phylogeny Using Weighbor.
WABI
Li-San Wang
2002 A conf
Statistically based postprocessing of phylogenetic analysis by clustering.
ISMB
Cara Stockham, Li-San Wang, Tandy J. Warnow
2002 J jnl
Steps toward accurate reconstructions of phylogenies from gene-order data.
J. Comput. Syst. Sci.
Bernard M. E. Moret, Jijun Tang, Li-San Wang, Tandy J. Warnow
2002 J jnl
Toward New Software for Computational Phylogenetics.
Computer
Bernard M. E. Moret, Li-San Wang, Tandy J. Warnow
2001 A* conf
Estimating true evolutionary distances between genomes.
STOC
Li-San Wang, Tandy J. Warnow
2001 C conf
Exact-IEBP: A New Technique for Estimating Evolutionary Distances between Whole Genomes.
WABI
Li-San Wang
2001 — conf
New approaches for reconstructing phylogenies from gene order data.
ISMB (Supplement of Bioinformatics)
Bernard M. E. Moret, Li-San Wang, Tandy J. Warnow, Stacia K. Wyman
2000 A conf
A New Fast Heuristic for Computing the Breakpoint Phylogeny and Experimental Phylogenetic Analyses of Real and Synthetic Data.
ISMB
Mary E. Cosner, Robert K. Jansen, Bernard M. E. Moret, Linda A. Raubeson, Li-San Wang, Tandy J. Warnow, Stacia K. Wyman