| . "Tximeta: Reference sequence checksums for provenance identification in RNA-seq.." PLoS Comput Biol. 2020;16(2):e1007664. Pub Med |
| . "Biclustering with heterogeneous variance.." Proc Natl Acad Sci U S A. 2013;110(30):12253-8. Pub Med |
| . "Block-diagonal discriminant analysis and its bias-corrected rules.." Stat Appl Genet Mol Biol. 2013;12(3):347-59. Pub Med |
| . "Exploiting expression patterns across multiple tissues to map expression quantitative trait loci.." BMC Bioinformatics. 2016;17():257. Pub Med |
| . "Mapping eQTL by leveraging multiple tissues and DNA methylation.." BMC Bioinformatics. 2017;18(1):455. Pub Med |
| . "Confident difference criterion: a new Bayesian differentially expressed gene selection algorithm with applications.." BMC Bioinformatics. 2015;16():245. Pub Med |
| . "Swimming downstream: Statistical analysis of differential transcript usage following Salmon quantification.." F1000Res. 2018;7():952. Pub Med |
| . "Effective SNP ranking improves the performance of eQTL mapping.." Genet Epidemiol. 2020;44(6):611-619. Pub Med |
| . "Static and dynamic DNA loops form AP-1-bound activation hubs during macrophage development.." Mol Cell. 2017;67(6):1037-1048.e6. Pub Med |
| . "Genome-wide association study identifies five new schizophrenia loci.." Nat Genet. 2011;43(10):969-76. Pub Med |
| . "Partial correlation matrix estimation using ridge penalty followed by thresholding and re-estimation.." Biometrics. 2014;70(3):765-73. Pub Med |
| . "Statistical considerations for analysis of microarray experiments.." Clin Transl Sci. 2011;4(6):466-77. Pub Med |
| . "Whole-genome and epigenomic landscapes of etiologically distinct subtypes of cholangiocarcinoma.." Cancer Discov. 2017;7(10):1116-1135. Pub Med |
| . "Purity independent subtyping of tumors (PurIST), a clinically robust, single-sample classifier for tumor subtyping in pancreatic cancer.." Clin Cancer Res. 2020;26(1):82-92. Pub Med |
| . "Statistical considerations for analysis of microarray experiments.." Clin Transl Sci. 2011;4(6):466-77. Pub Med |
| . "I-Boost: An integrative boosting approach for predicting survival time with multiple genomics platforms.." Genome Biol. 2019;20(1):52. Pub Med |
| . "Single cell analysis reveals distinct immune landscapes in transplant and primary sarcomas that determine response or resistance to immunotherapy.." Nat Commun. 2020;11(1):6410. Pub Med |
| . "The association between copy number aberration, DNA methylation and gene expression in tumor samples.." Nucleic Acids Res. 2018;46(6):3009-3018. Pub Med |
| . "PIK3CA mutations enable targeting of a breast tumor dependency through mTOR-mediated MCL-1 translation.." Sci Transl Med. 2016;8(369):369ra175. Pub Med |
| . "A general framework for detecting disease associations with rare variants in sequencing studies.." Am J Hum Genet. 2011;89(3):354-67. Pub Med |
| . "Meta-analysis of gene-level associations for rare variants based on single-variant statistics.." Am J Hum Genet. 2013;93(2):236-48. Pub Med |
| . "Global copy number profiling of cancer genomes.." Bioinformatics. 2016;32(6):926-8. Pub Med |
| . "Efficient estimation of grouped survival models.." BMC Bioinformatics. 2019;20(1):269. Pub Med |
| . "Assessing gene-environment interactions for common and rare variants with binary traits using gene-trait similarity regression.." Genetics. 2015;199(3):695-710. Pub Med |
| . "Rare variants association analysis in large-scale sequencing studies at the single locus level.." PLoS Comput Biol. 2016;12(6):e1004993. Pub Med |
| . "bcSeq: an R package for fast sequence mapping in high-throughput shRNA and CRISPR screens.." Bioinformatics. 2018;34(20):3581-3583. Pub Med |
| . "Empirical pathway analysis, without permutation.." Biostatistics. 2013;14(3):573-85. Pub Med |
| . "Confident difference criterion: a new Bayesian differentially expressed gene selection algorithm with applications.." BMC Bioinformatics. 2015;16():245. Pub Med |
| . "Whole-genome and epigenomic landscapes of etiologically distinct subtypes of cholangiocarcinoma.." Cancer Discov. 2017;7(10):1116-1135. Pub Med |
| . "I-Boost: An integrative boosting approach for predicting survival time with multiple genomics platforms.." Genome Biol. 2019;20(1):52. Pub Med |
| . "Module-based association analysis for omics data with network structure.." PLoS One. 2015;10(3):e0122309. Pub Med |
| . "Block-diagonal discriminant analysis and its bias-corrected rules.." Stat Appl Genet Mol Biol. 2013;12(3):347-59. Pub Med |
| . "Independence screening for high dimensional nonlinear additive ODE models with applications to dynamic gene regulatory networks.." Stat Med. 2018;37(17):2630-2644. Pub Med |
| . "A fast multiple-kernel method with applications to detect gene-environment interaction.." Genet Epidemiol. 2015;39(6):456-68. Pub Med |
| . "Complete effect-profile assessment in association studies with multiple genetic and multiple environmental factors.." Genet Epidemiol. 2015;39(2):122-33. Pub Med |
| . "Assessing gene-environment interactions for common and rare variants with binary traits using gene-trait similarity regression.." Genetics. 2015;199(3):695-710. Pub Med |
| . "Studying gene and gene-environment effects of uncommon and common variants on continuous traits: a marker-set approach using gene-trait similarity regression.." Am J Hum Genet. 2011;89(2):277-88. Pub Med |
| . "Integrative gene set analysis of multi-platform data with sample heterogeneity.." Bioinformatics. 2014;30(11):1501-7. Pub Med |
| . "A junction coverage compatibility score to quantify the reliability of transcript abundance estimates and annotation catalogs.." Life Sci Alliance. 2019;2(1):. Pub Med |
| . "A penalized likelihood approach for investigating gene-drug interactions in pharmacogenetic studies.." Biometrics. 2015;71(2):529-37. Pub Med |
| . "Evaluating haplotype effects in case-control studies via penalized-likelihood approaches: Prospective or retrospective analysis?." Genet Epidemiol. 2010;34(8):892-911. Pub Med |
| . "Joint skeleton estimation of multiple directed acyclic graphs for heterogeneous population.." Biometrics. 2019;75(1):36-47. Pub Med |
| . "Empirical pathway analysis, without permutation.." Biostatistics. 2013;14(3):573-85. Pub Med |
| . "Quantifying the average of the time-varying hazard ratio via a class of transformations.." Lifetime Data Anal. 2015;21(2):259-79. Pub Med |
| . "Evaluating haplotype effects in case-control studies via penalized-likelihood approaches: Prospective or retrospective analysis?." Genet Epidemiol. 2010;34(8):892-911. Pub Med |
| . "Genetic association analysis under complex survey sampling: the Hispanic Community Health Study/Study of Latinos.." Am J Hum Genet. 2014;95(6):675-88. Pub Med |
| . "Meta-analysis for discovering rare-variant associations: Statistical methods and software programs.." Am J Hum Genet. 2015;97(1):35-53. Pub Med |
| . "Analysis of secondary phenotypes in multigroup association studies.." Biometrics. 2020;76(2):606-618. Pub Med |
| . "Testing and estimation in marker-set association study using semiparametric quantile regression kernel machine.." Biometrics. 2016;72(2):364-71. Pub Med |
| . "A general framework for studying genetic effects and gene-environment interactions with missing data.." Biostatistics. 2010;11(4):583-98. Pub Med |
