Chen M, Zhou X. VIPER: variability-preserving imputation for accurate gene expression recovery in single-cell RNA sequencing studies. Genome Biol. 2018 11 12; 19(1):196. View in: PubMed
Chen M, Zhou X. Controlling for Confounding Effects in Single Cell RNA Sequencing Studies Using both Control and Target Genes. Sci Rep. 2017 10 19; 7(1):13587. View in: PubMed
Chang J, Tan W, Ling Z, Xi R, Shao M, Chen M, Luo Y, Zhao Y, Liu Y, Huang X, Xia Y, Hu J, Parker JS, Marron D, Cui Q, Peng L, Chu J, Li H, Du Z, Han Y, Tan W, Liu Z, Zhan Q, Li Y, Mao W, Wu C, Lin D. Genomic analysis of oesophageal squamous-cell carcinoma identifies alcohol drinking-related mutation signature and genomic alterations. Nat Commun. 2017 05 26; 8:15290. View in: PubMed
Silva GO, Siegel MB, Mose LE, Parker JS, Sun W, Perou CM, Chen M. SynthEx: a synthetic-normal-based DNA sequencing tool for copy number alteration detection and tumor heterogeneity profiling. Genome Biol. 2017 04 08; 18(1):66. View in: PubMed
Dinh TA, Vitucci EC, Wauthier E, Graham RP, Pitman WA, Oikawa T, Chen M, Silva GO, Greene KG, Torbenson MS, Reid LM, Sethupathy P. Comprehensive analysis of The Cancer Genome Atlas reveals a unique gene and non-coding RNA signature of fibrolamellar carcinoma. Sci Rep. 2017 03 17; 7:44653. View in: PubMed
Chen M, Ren Z, Zhao H, Zhou H. Asymptotically Normal and Efficient Estimation of Covariate-Adjusted Gaussian Graphical Model. J Am Stat Assoc. 2016 Mar; 111(513):394-406. View in: PubMed
Allott EH, Geradts J, Sun X, Cohen SM, Zirpoli GR, Khoury T, Bshara W, Chen M, Sherman ME, Palmer JR, Ambrosone CB, Olshan AF, Troester MA. Intratumoral heterogeneity as a source of discordance in breast cancer biomarker classification. Breast Cancer Res. 2016 06 28; 18(1):68. View in: PubMed
Chen M, Lin H, Zhao H. CHANGE POINT ANALYSIS OF HISTONE MODIFICATIONS REVEALS EPIGENETIC BLOCKS LINKING TO PHYSICAL DOMAINS. Ann Appl Stat. 2016 Mar; 10(1):506-526. View in: PubMed
Chen M, Gao C, Zhao H. Posterior Contraction Rates of the Phylogenetic Indian Buffet Processes. Bayesian Anal. 2016 Jun; 11(2):477-497. View in: PubMed
Wang X, Chen M, Yu X, Pornputtapong N, Chen H, Zhang NR, Powers RS, Krauthammer M. Global copy number profiling of cancer genomes. Bioinformatics. 2016 03 15; 32(6):926-8. View in: PubMed
Xu Z, Zhang G, Jin F, Chen M, Furey TS, Sullivan PF, Qin Z, Hu M, Li Y. A hidden Markov random field-based Bayesian method for the detection of long-range chromosomal interactions in Hi-C data. Bioinformatics. 2016 03 01; 32(5):650-6. View in: PubMed
Wang T, Chen M, Zhao H. Estimating DNA methylation levels by joint modeling of multiple methylation profiles from microarray data. Biometrics. 2016 06; 72(2):354-63. View in: PubMed
Lin H, Chen M, Kundaje A, Valouev A, Yin H, Liu N, Neuenkirchen N, Zhong M, Snyder M. Reassessment of Piwi binding to the genome and Piwi impact on RNA polymerase II distribution. Dev Cell. 2015 Mar 23; 32(6):772-4. View in: PubMed
Yang C, Li C, Chen M, Chen X, Hou L, Zhao H. A penalized linear mixed model for genomic prediction using pedigree structures. BMC Proc. 2014; 8(Suppl 1 Genetic Analysis Workshop 18Vanessa Olmo):S67. View in: PubMed
Li C, Yang C, Chen M, Chen X, Hou L, Zhao H. Adjustment of familial relatedness in association test for rare variants. BMC Proc. 2014; 8(Suppl 1 Genetic Analysis Workshop 18Vanessa Olmo):S39. View in: PubMed
Chen M, Yang C, Li C, Hou L, Chen X, Zhao H. Admixture mapping analysis in the context of GWAS with GAW18 data. BMC Proc. 2014; 8(Suppl 1):S3. View in: PubMed
Huang KC, Sun W, Wu Y, Chen M, Mohlke KL, Lange LA, Li Y. Association studies with imputed variants using expectation-maximization likelihood-ratio tests. PLoS One. 2014; 9(11):e110679. View in: PubMed
Zhu Y, Watson J, Chen M, Shen DR, Yarde M, Agler M, Burford N, Alt A, Jayachandra S, Cvijic ME, Zhang L, Dyckman A, Xie J, O'Connell J, Banks M, Weston A. Integrating High-Content Analysis into a Multiplexed Screening Approach to Identify and Characterize GPCR Agonists. J Biomol Screen. 2014 Aug; 19(7):1079-89. View in: PubMed
Chen M, Gunel M, Zhao H. SomatiCA: identifying, characterizing and quantifying somatic copy number aberrations from cancer genome sequencing data. PLoS One. 2013; 8(11):e78143. View in: PubMed
Saxe JP, Chen M, Zhao H, Lin H. Tdrkh is essential for spermatogenesis and participates in primary piRNA biogenesis in the germline. EMBO J. 2013 Jul 03; 32(13):1869-85. View in: PubMed
Chen M, Svicher V, Artese A, Costa G, Alteri C, Ortuso F, Parrotta L, Liu Y, Liu C, Perno CF, Alcaro S, Zhang J. Detecting and understanding genetic and structural features in HIV-1 B subtype V3 underlying HIV-1 co-receptor usage. Bioinformatics. 2013 Feb 15; 29(4):451-60. View in: PubMed