^† Equal contribution; ^$ Corresponding authors. Google Scholar

2025

• Wang C^†$, Leong MM^†, Ding W^†, Narita Y^†, …, Hammerschmidt W, Teng M^$, Zhao B^$. (2025)
  Viral oncogene EBNALP regulates YY1 DNA binding and alters host 3D genome organization.
  PubMed | EMBO Rep

2024

• Davis JT, Obermayer AN, Soupir AC, …, Teng M, Wang X, Shaw TI. (2024)
  BatchFLEX: feature-level equalization of X-batch.
  PubMed | Bioinformatics

• Gillis N, Dickey BL, Colin-Leitzinger C, …, Teng M, Kresovich J, Berglund A, Coghill AE. (2024)
  Clonal Hematopoiesis in Patients With Human Immunodeficiency Virus and Cancer.
  PubMed | J Infect Dis

• Murray-Nerger LA, Maestri D^†, Liu X^†, Li Z^†, …, Tempera I, Teng M, Gewurz BE. (2024)
  The DNA loop release factor WAPL suppresses Epstein-Barr virus latent membrane protein expression to maintain the highly restricted latency I program.
  PubMed | PLoS Pathog

• Liu X, Gillis N, Jiang C, …, Wan L, Duckett DR, Teng M. (2024)
  An epigenomic fingerprint of human cancers by landscape interrogation of super enhancers at the constituent level.
  PubMed | PLoS Comput Biol

2023

• Dickey BL, Putney RM, Suneja G, …, Teng M, …, Gillis N, Berglund A, Coghill AE. (2023)
  Differences in epigenetic age by HIV status among patients with a non-AIDS defining cancer.
  PubMed | AIDS

• Gillis N, Padron E, Wang T, …, Teng M, …, Druley TE, Pidala JA, Lazaryan A. (2023)
  Pilot Study of Donor-Engrafted Clonal Hematopoiesis Evolution and Clinical Outcomes in Allogeneic Hematopoietic Cell Transplantation Recipients Using a National Registry.
  PubMed | Transplant Cell Ther

• Mammadova J, Colin-Leitzinger C, Nguyen D, …, Teng M, Ismail-Khan R, Gillis N. (2023)
  Clonal Hematopoiesis as a Molecular Risk Factor for Doxorubicin-Induced Cardiotoxicity: A Proof-of-Concept Study.
  PubMed | JCO Precis Oncol

• Obermayer AN, Chang D, Nobles G, Teng M, …, Tarhini A, Chen DT, Shaw TI. (2023)
  PATH-SURVEYOR: pathway level survival enquiry for immuno-oncology and drug repurposing.
  PubMed | BMC Bioinformatics

• Wang C^†, Liu X^†, Liang J^†, Narita Y^†, Ding W^†, …, Jiang S^$, Teng M^$, Zhao B^$. (2023)
  A DNA tumor virus globally reprograms host 3D genome architecture to achieve immortal growth.
  PubMed | Nat Commun |

• Teng M. (2023)
  Statistical analysis in ChIP-seq-related applications.
  PubMed | Methods Mol Biol (Book Chapter)

2022

• Ding W, Wang C, Narita Y, …, Teng M, Jin S, Sato Y, Zhao B. (2022)
  The Epstein-Barr virus enhancer interaction landscapes in virus-associated cancer cell lines.
  PubMed | J Virol

• Jiang C, Ward NP, Prieto-Farigua N, Kang YP, Thalakola A, Teng M, DeNicola GM. (2022)
  A CRISPR screen identifies redox vulnerabilities for KEAP1/NRF2 mutant non-small cell lung cancer.
  PubMed | Redox Biol

• Peres LC, Colin-Leitzinger C, Teng M, …, Nishihori T, Shain KH, Gillis N. (2022)
  Racial and ethnic differences in clonal hematopoiesis, tumor markers, and outcomes of patients with multiple myeloma.
  PubMed | Blood Adv

• Liu X, Zhao B, Shaw TI, Fridley BL, Duckett DR, Tan AC, Teng M. (2022)
  Summarizing internal dynamics boosts differential analysis and functional interpretation of super enhancers.
  PubMed | Nucleic Acids Res

• Wei G, Teng M, Rosa M, Wang X. (2022)
  Unique ER PR expression pattern in breast cancers with CHEK2 mutation: a hormone receptor and HER2 analysis based on germline cancer predisposition genes.
  PubMed | Breast Cancer Res

• Obermayer A, Dong L, Hu Q, …, Teng M, Tan AC, Shaw TI. (2022)
  DRPPM-EASY: a web-based framework for integrative analysis of multi-omics cancer datasets.
  PubMed | Biology

2021

• Huang J, Soupir AC, Schlick BD, Teng M, …, Manley BJ, Pellini B, Wang L. (2021)
  Cancer detection and classification by CpG island hypermethylation signatures in plasma cell-free DNA.
  PubMed | Cancers

• Teng M^$, Du D<, Chen D, Irizarry RA. (2021)
  Characterizing batch effects and binding site-specific variability in ChIP-seq data.
  PubMed | NAR Genom Bioinform

• Wang Z, Guo R, Trudeau SJ, Wolinsky E, …, Teng M, Mootha VK, Gewurz BE. (2021)
  CYB561A3 is the key lysosomal iron reductase required for Burkitt B-cell growth and survival.
  PubMed | Blood

• Xie M, Lee K, Lockhart JH, …, Teng M, Chung CH, Tan AC. (2021)
  TIMEx: tumor-immune microenvironment deconvolution web-portal for bulk transcriptomics using pan-cancer scRNA-seq signatures.
  PubMed | Bioinformatics

2020

• Wang C, Zhang L, Ke L, …, Kaye KM, Teng M^$, Zhao B^$. (2020)
  Primary effusion lymphoma enhancer connectome links super-enhancers to dependency factors.
  PubMed | Nat Commun

• Zhang Y, Jiang C, Trudeau SJ, …, Teng M, Guo R, Gewurz BE. (2020)
  Histone Loaders CAF1 and HIRA Restrict Epstein-Barr Virus B-Cell Lytic Reactivation.
  PubMed | mBio

• Guo R, Zhang Y, Teng M, …, Cesarman E, Giulino-Roth L, Gewurz BE. (2020)
  DNA methylation enzymes and PRC1 restrict B-cell Epstein–Barr virus oncoprotein expression.
  PubMed | Nat Microbiol

• Vena F, Bayle S, Nieto A, …, Roush WR, Teng M, Duckett D. (2020)
  Targeting casein kinase 1 delta sensitizes pancreatic and bladder cancer cells to gemcitabine treatment by upregulating deoxycytidine kinase.
  PubMed | Mol Cancer Ther

• The ENCODE Project Consortium. (2020)
  Expanded encyclopaedias of DNA elements in the human and mouse genomes.
  PubMed | Nature

• Guo R^†, Jiang C^†, Zhang Y, …, Doench JG, Teng M^$, Gewurz BE^$. (2020)
  MYC controls the Epstein-Barr Virus lytic switch.
  PubMed | Mol Cell
  

• Vander Velde R, Yoon N, Marusyk V, …, Teng M, …, Haura E, Scott J, Marusyk A. (2020)
  Resistance to targeted therapies as a multifactorial, gradual adaptation to inhibitor specific selective pressures.
  PubMed | Nat Commun

2019

• Jiang C, Trudeau SJ, Cheong TC, …, Teng M, …, Doench JG, Chiarle R, Gewurz BE. (2019)
  CRISPR/Cas9 Screens Reveal Multiple Layers of B cell CD40 Regulation.
  PubMed | Cell Rep

• Korthauer K, Kimes PK, Duvallet C, …, Teng M, …, Shukla C, Alm EJ, Hicks SC. (2019)
  A practical guide to methods controlling false discoveries in computational biology.
  PubMed | Genome Biol

• Wang C, Jiang S, Zhang L, …, Gewurz BE, Teng M^$, Zhao B^$. (2019)
  TAF family proteins and MEF2C are essential for Epstein-Barr virus MYC super-enhancer activity.
  PubMed | J Virol

• Wang C, Li D, Zhang L, …, Gewurz BE, Teng M^$, Zhao B^$. (2019)
  RNA sequencing analyses of gene expression during Epstein-Barr virus infection of primary B lymphocytes.
  PubMed | J Virol

• Wang C, Jiang S, Ke L, …, Teng M, …, Gewurz BE, Zeng MS, Zhao B. (2019)
  Genome-wide CRISPR-based gene knockout screens reveal cellular factors and pathways essential for nasopharyngeal carcinoma.
  PubMed | J Biol Chem

Earlier

• Hicks SC, Townes FW, Teng M, Irizarry RA. (2018)
  Missing data and technical variability in single-cell RNA-sequencing experiments.
  PubMed | Biostatistics

• Chu Y^†, Teng M^†, Wang Y. (2018)
  Modeling and correct the GC bias of tumor and normal WGS data for SCNA based tumor subclonal population inferring.
  PubMed | BMC Bioinformatics

• Teng M, Irizarry RA. (2017)
  Accounting for GC-content bias reduces systematic errors and batch effects in ChIP-seq data.
  PubMed | Genome Res

• Nakayama RT, Pulice JL, Valencia AM, …, Teng M, …, Zhao K, Ranish JA, Kadoch C. (2017)
  SMARCB1 is required for widespread BAF complex-mediated activation of enhancers and bivalent promoters.
  PubMed | Nat Genet

• Chu Y, Wang Z, Wang R, …, Hu Y, Teng M, Wang Y. (2017)
  WDNfinder: a method for minimum driver node set detection and analysis in directed and weighted biological network.
  PubMed | J Bioinform Comput Biol

• Teng M, Love MI, …, Irizarry RA. (2016)
  A benchmark for RNA-seq quantification pipelines.
  PubMed | Genome Biol
  

• Liu B, Guan D, Teng M, Wang Y. (2016)
  rHAT: fast alignment of noisy long reads with regional hashing.
  PubMed | Bioinformatics

• Juan L, Liu Y, Wang Y, Teng M, Zang T, Wang Y. (2015)
  Family genome browser: visualizing genomes with pedigree information.
  PubMed | Bioinformatics

• Juan L, Teng M, Zang T, …, Li J, Zhang T, Wang Y. (2014)
  The personal genome browser: visualizing functions of genetic variants.
  PubMed | Nucleic Acids Res

• Wang G, Qi K, Zhao Y, …, Teng M, Li L, Liu Y, Wang Y. (2013)
  Identification of regulatory regions of bidirectional genes in cervical cancer.
  PubMed | BMC Med Genomics

• Teng M, Wang Y, Kim S, …, Huang THM, Nephew KP, Balch C. (2012)
  Empirical bayes model comparisons for differential methylation analysis.
  PubMed | Comp Funct Genomics

• Teng M^†, Ichikawa S^†, Padgett LR, …, Edenberg HJ, Econs MJ, Liu Y. (2012)
  regSNPs: a strategy for prioritizing regulatory single nucleotide substitutions.
  PubMed | Bioinformatics

• Teng M^†, Balch C^†, Liu Y, …, Wang Y^$, Nephew KP^$, Li L^$. (2012)
  The influence of cis-regulatory elements on DNA methylation fidelity.
  PubMed | PLoS ONE

• Zhu S, Jiang Q, Wang G, Liu B, Teng M, Wang Y. (2011)
  Chromatin structure characteristics of pre-miRNA genomic sequences.
  PubMed | BMC Genomics

• Teng M, Wang Y, Wang G, …, Edenberg HJ, Sanford JR, Liu Y. (2011)
  Prioritizing single-nucleotide variations that potentially regulate alternative splicing.
  PubMed | BMC Proc

• Shen C, Huang Y, Liu Y, …, Teng M, …, Nephew KP, Huang THM, Li L. (2011)
  A modulated empirical Bayes model for identifying topological and temporal estrogen receptor α regulatory networks in breast cancer.
  PubMed | BMC Syst Biol

• Zhou FC, Balaraman Y, Teng M, Liu Y, Singh RP, Nephew KP. (2011)
  Alcohol alters DNA methylation patterns and inhibits neural stem cell differentiation.
  PubMed | Alcohol Clin Exp Res

• Wang G, Wang Y, Teng M, Zhang D, Li L, Liu Y. (2010)
  Signal transducers and activators of transcription-1 (STAT1) regulates microRNA transcription in interferon γ-stimulated HeLa cells.
  PubMed | PLoS ONE

• Jiang Q, Hao Y, Wang G, …, Teng M, Liu Y, Wang Y. (2010)
  Prioritization of disease microRNAs through a human phenome-microRNAome network.
  PubMed | BMC Syst Biol

• Jiang Q, Wang Y, Hao Y, …, Teng M, …, Li M, Wang G, Liu Y. (2009)
  miR2Disease: a manually curated database for microRNA deregulation in human disease.
  PubMed | Nucleic Acids Res