2018 - 2019


  • Campbell PT, Ambrosone CB, Nishihara R, Aerts HJWL, Bondy M, Chatterjee N, Garcia-Closas M, Giannakis M, Golden JA, Heng YJ, Kip NS, Koshiol J, Liu XS, Lopes-Ramos CM, Mucci LA, Nowak JA, Phipps AI, Quackenbush J, Schoen RE, Sholl LM, Tamimi RM, Wang M, Weijenberg MP, Wu CJ, Wu K, Yao S, Yu KH, Zhang X, Rebbeck TR, Ogino S. Proceedings of the fourth international molecular pathological epidemiology (MPE) meeting. Cancer Causes Control. 2019. Review. PubMed PMID: 31069578
    [Abstract] [Full Paper]
  • Li S, Wan C, Zheng R, Fan J, Dong X, Meyer CA, Liu XS. Cistrome-GO: a web server for functional enrichment analysis of transcription factor ChIP-seq peaks. Nucleic Acids Res. 2019. [Epub ahead of print] PubMed PMID: 31053864
    [Abstract]
    [Full Paper]
  • Cato L, de Tribolet-Hardy J, Lee I, Rottenberg JT, Coleman I, Melchers D, Houtman R, Xiao T, Li W, Uo T, Sun S, Kuznik NC, Göppert B, Ozgun F, van Royen ME, Houtsmuller AB, Vadhi R, Rao PK, Li L, Balk SP, Den RB, Trock BJ, Karnes RJ, Jenkins RB, Klein EA, Davicioni E, Gruhl FJ, Long HW, Liu XS, Cato ACB, Lack NA, Nelson PS, Plymate SR, Groner AC, Brown M. ARv7 Represses Tumor-Suppressor Genes in Castration-Resistant Prostate Cancer. Cancer Cell. 2019. PubMed PMID:30773341
    [Abstract] [Full Paper]
  • Köster J, Brown M, Liu, XS. (2018). A Bayesian model for single cell transcript expression analysis on MERFISH data. Bioinformatics, Volume 35, Issue 6, 15. 2019, Pages 995–1001. PubMed PMID: 30875429
    [Abstract] [Full Paper]
  • Wang B, Wang M, Zhang W, Xiao T, Chen CH, Wu A, Wu F, Traugh N, Wang X, Li Z, Mei S, Cui Y, Shi S, Lipp JJ, Hinterndorfer M, Zuber J, Brown M, Li W, Liu XS. Integrative analysis of pooled CRISPR genetic screens using MAGeCKFlute. Nat Protoc. 2019. PubMed PMID: 30710114
    [Abstract] [Full Paper]
  • Hu X, Zhang J, Wang J, Fu J, Li T, Zheng X, Wang B, Gu S, Jiang P, Fan J, Ying X, Zhang J, Carroll MC, Wucherpfennig KW, Hacohen N, Zhang F, Zhang P, Liu JS, Li B, Liu XS. Landscape of B cell immunity and related immune evasion in human cancers. Nat Genet. 2019 Mar;51(3):560-567. 2019. PubMed PMID: 30742113
    [Abstract]
    [Full Paper] [Supplemental Data]
  • Zheng R, Wan C, Mei S, Qin Q, Wu Q, Sun H, Chen CH, Brown M, Zhang X, Meyer CA, Liu XS. Cistrome Data Browser: expanded datasets and new tools for gene regulatory analysis. Nucleic Acids Res. 2018. (epub) PubMed PMID: 30462313
    [Abstract] [Full Paper]
  • Rafiei S, Gui B, Wu J, Liu XS, Kibel AS, Jia L. Targeting the MIF/CXCR7/AKT Signaling Pathway in Castration-Resistant Prostate Cancer. Mol Cancer Res. 2019 (1):263-276. PubMed PMID: 30224544
    [Abstract]
    [Full Paper]
  • Chen CH, Xiao T, Xu H, Jiang P, Meyer CA, Li W, Brown M*, Liu XS*. Improved design and analysis of CRISPR knockout screens. Bioinformatics 2018; PubMed PMID: 29868757 
    [Abstract] [Full Paper]
  • Hu X, Zhang J, Liu JS, Li B, Liu XS.Evaluation of immune repertoire inference methods from RNA-seq data. Nat Biotechnol. 2018. 9;36(11):1034. PubMed PMID: 30412202
    [Abstract] [Full Paper]
  • Jiang P, Gu S, Pan D, Fu J, Sahu A, Hu X, Li Z, Traugh N, Bu X, Li B, Liu J, Freeman GJ, Brown MA, Wucherpfennig KW, Liu XS. Signatures of T cell dysfunction and exclusion predict cancer immunotherapy response Nat Med. 2018; PubMed PMID: 30127393 
    [Abstract] [Full Paper]
  • Cader FZ, Schackmann RCJ, Hu X, Wienand K, Redd R, Chapuy B, Quyang J, Paul N, Gjini E, Lipshitz M, Armand P, Wu D, Fromm JR, Neuberg D, Liu XS, Rodig SJ, Shipp MA. Mass cytometry of Hodgkin lymphoma reveals a CD4+ exhausted T-effector and T-regulatory cell rich microenvironment. Blood 2018; PubMed PMID: 29880615
    [Abstract] [Full Paper]
  • Xiao T, Li W, Wang X, Xu H, Yang J, Wu Q, Huang Y, Geradts J, Jiang P, Fei T, Chi D, Zang C, Liao Q, Rennhack J, Andrechek E, Li N, Detre S, Dowsett M, Jeselsohn RM, Liu XS, Brown M. Estrogen-regulated feedback loop limits the efficacy of estrogen receptor-targeted breast cancer therapy. Proc Natl Acad Sci U S A. 2018.  31;115(31):7869-7878. PubMed PMID: 29987050
    [Abstract] [Full Paper]
  • Jiang P, Sellers W, Liu, XS. Big Data Approaches for Modeling Response and Resistance to Cancer Drugs. Annual Review of Biomedical Data Science, 2018 1:1, 1-27
    [Abstract] [Full Paper] [Supplemental Data]
  • Cornwell M*, Vangala M*, Taing L*, Herbert Z, Koster J, Li B, Sun H, Li T, Zhang J, Qiu X, Pun M, Jeselsohn R, Brown M, Liu XS, Long HW#. VIPER: Visualization pipeline for RNA-seq, a Snakemake workflow for efficient and complete RNA-seq analysis. BMC Bioinformatics 2018;19(1):135. PubMed PMID: 29649993 
    [Abstract] [Full Paper]
  • Zhang X, Xiao W, Hu X. Predicting essential proteins by integrating orthology, gene expressions, and PPI networks. PLoS One. 2018 10;13(4):e0195410. PubMed PMID: 29634727
    [Abstract] [Full Paper]
  • Jiang P, Lee W, Li X, Johnson C, Liu JS, Brown M, Aster JC*, Liu XS*. Genome-scale signatures of gene interaction from compound screens predict clinical efficacy of targeted cancer therapies. Cell Syst 2018;6(3):343-354. PubMed PMID: 29428415
    [Abstract] [Full Paper]
  • Sun T, Du SY, Armenia J, Qu F, Fan J, Wang X, Fei T, Komura K. Liu XS, Lee GSM, Kantoff PW. Expression of IncRNA MIR222HG co-transcribed from the miR-221/222 gene promoter facilitates the development of castration-resistant prostate cancer. Oncogenesis 2018; 7(3):30. PubMed PMID: 29540675 
    [Abstract] [Full Paper]
  • Pan D*, Kobayashi A*, Jiang P*, Ferrari de Andrade L, Tay RE, Luoma A, Tsoucas D, Qiu X, Lim K, Rao P, Long HW, Yuan GC, Doench J, Brown M, Liu XS#, Wucherpfennig KW#. A major chromatin regulator determines resistance of tumor cells to T cell-mediated killing. Science 2018; 359(6377):770-5. PubMed PMID: 29301958
    [Abstract] [Full Paper]
  • Jeselsohn R, Bergholz JS, Pun M, Cornwell M, Liu W, Nardone A, Xiao T, Li W, Qiu X, Buchwalter G, Feiglin A, Abell-Hart K, Fei T, Rao P, Long H, Kwiatkowski N, Zhang T, Gray N, Melchers D, Houtman R, Liu XS, Cohen O, Wagle N, WIner EP, Zhao J, Brown M. Allele-specific chromatin recruitment and therapeutic vulnerabilities of ESR1 activating mutations. Cancer Cell 2018;33(2):173-186. PubMed PMID: 29438694
    [Abstract] [Full Paper]
  • Chen D, Fang L, Mei S, Li H, Xu X, Des Marais TL, Lu K, Liu XS, Jin C. Erratum: Regulation of chromatin assembly and cell transformation by formaldehyde exposure in human cells. Environ Health Perspect 2018;126(1):019001. PubMed PMID: 29326091
    [Abstract] [Full Paper]


Previous Years


2017

  • Chen D, Fang L, Mei S, Li H, Xu X, Des Marais TL, Lu K, Liu XS, Jin C. Regulation of chromatin assembly and cell transformation by formaldehyde exposure in human cells. Environ Health Perspect. 2017; 125(9):097019. 
    [Abstract] [Full Paper]
  • Gao W, Li W, Xiao T, Liu XS, Kaelin WG Jr. Inactivation of the PBRM1 tumor suppressor gene amplifies the HIF-response in VHL-/- clear cell renal carcinoma.Proc Natl Acad Sci U S A. 2017; 114(5):1027-1032. 
    [Abstract] [Full Paper]
  • Li T, Fan J, Wang B, Traugh N, Chen Q, Liu S, Li B*, Liu XS*. TIMER: A web server for comprehensive analysis of tumor-infiltrating immune cells. Cancer Res2017; 77(21):e108-110. 
    [Abstract] [Full Paper]
  • Mei S#, Meyer CA#, Zheng R, Qin Q, Wu Q, Jiang P, Li B, Shi X, Wang B, Fan J, Brown M, Zang C*, Liu XS*. Cistrome Cancer: a web resource for integrative gene regulation modeling in cancer. Cancer Res 2017; 77(21):e19-22. 
    [Abstract] [Full Paper]
  • Choi SH, Severson E, Pear WS, Liu XS, Aster JC, Blacklow SC. The common oncogenomic program of NOTCH1 and NOTCH3 signaling in T-cell acute lymphoblastic leukemia. PLoSOne 2017; 12(10):e0185762.
    [Abstract] [Full Paper]
  • Severson E, Arnett KL, Wang H, Zang C Taing L, Liu H, Pear WS, Liu XS Blacklow SC, Aster JC. Genome-wide identification and characterization of Notch transcription complex-binding sequence-paired sites in leukemia cells. SciSignal 2017; 10:eaag1598.
    [Abstract] [Full Paper]
  • Carey CD, Gusenleitner D, Lipschitz M, Roemer MGM, Stack EC, Gjini E, Hu X, Redd R, Freeman GJ, Neuberg D, Hodi FS, Liu XS, Shipp MA, Rodig SJ. Topological analysis reveals a PD-L1 associated microenvironmental niche for Reed-Sternberg cells in Hodgkin Lymphoma. Blood 2017; Sept 11, epub 
    [Abstract] [Full Paper]
  • Cao Q, Ma J, Chen C-H, Xu H, Chen Z*, Li W*, Liu XS*. CRISPR-FOCUS: a web server for designing focused CRISPR screening experiments. PLoS One 2017; 12(9):e0184281.
    [Abstract] [Full Paper]
  • Li B, Liu JS*, Liu XS*. Revisit linear regression-based deconvolution methods for tumor gene expression data. Genome Biology 2017; 18:127.
    [Abstract] [Full Paper]
  • Fei T, Chen Y, Xiao T, Li W, Cato L, Zhang P, Cotter MB, Bowden M, Lis RT, Zhao SG, Wu Q, Feng FY, Loda M, He HH, Liu XS Brown M. Genome-wide CRISPR screen idetifies HNRNPL as a prostate cancer dependecy regulating RNA splicing. PNAS 2017; E5207-E5215.
    [Abstract] [Full Paper]
  • Huang T#, Zhang P#, Li W#, Zhao T, Zhang Z, Chen S, Yang Y, Feng Y, Li F, Liu XS, Jiang G, Zhang F*. G91 promotes tumor cell growth and invasion by silencing CASP1 in non-small-cell lung cancer cells. Cell Death Dis 2017; 8(4):e2726.
    [Abstract] [Full Paper]
  • Li MJ, Zhang J, Liang Q, Xuan C, Wu J, Jiang P, Li W, Zhu Y, Wang P, Fernandez D, Shen Y, Chen Y, Kocher JA, Yu Y, Sham PC, Wang J*, Wang Liu JS*, Liu XS*. Exploring genetic associations with ceRNA regulation in the human genome. Nucleic Acids Res 2017; May 2. doi 10.1093/nar/gkx331.
    [Abstract] [Full Paper]
  • Liu Y#, Chen S#, Wang S, Soares F, Fischer M, Meng F, Du Z, Lin C, Meyer C, DeCaprio JA, Brown M*, Liu XS*, He HH. Transcriptional landscape of the human cell cycle. PNAS USA 2017; Mar13
    [Abstract] [Full Paper]
  • Liu XS*, Mardis ER*. Applications of immunogenomics to cancer. Cell 2017; 168(4): 600-612 
    [Abstract] [Full Paper]
  • Li B*, Li T, Wang B, Dou R, Zhang J, Liu JS, Liu XS*. Ultrasensitive detection of TCR hypervariable-region sequences in solid-tissue RNA-seq data. Nat Genet2017; 49(4):482-3.
    [Abstract] [Full Paper]

2016

  • Lu T, Aron L, Zullo J, Pan Y, Kim H, Chen Y, Yang TH, Kim HM, Drake D, Liu XS, Bennett DA, Colaiacovo MP, Yankner BA*.Addendum: REST and stress resistance in ageing and Alzheimer’s disease. Nature 2016; November 16. 
    [Abstract] [Supplement Update] [Corrections and Amendments]
  • Mei S#, Qin Q#, Wu Q#, Sun H, Zhen R, Zang C, Zhu M, Wu J, Shi X, Taing L, Liu T, Brown M, Meyer CA*, Liu XS*. Cistrome data browser: a data portal for ChIP-Seq and chromatin accessibility data in human and mouse. Nucleic Acids Res 2016; Oct 26. Pii:gkw983 epub [Abstract] [Full Paper]
  • Wang S#, Zang C#, Xiao T, Fan J, Mei S, Qin Q, Wu Q , Li XJ, Xu K, He HH, Brown M, Meyer CA*, Liu XS*. Modeling cis-regulation with a compendium of genome-wide histone H3K27ac profiles. Genome Res 2016; Jul 27. 
    [Abstract] [Full Paper]
  • Ni T#, Li XY#, Lu N#, An T, Liu Zp, Fu R, Zhang YW, Xu XJ, Grant Rowe R, Lin YS, Scherer A, Feinberg T, Zhen XQ, Chen BA, Liu XS, Guo QL, Wu ZQ*, Weiss SJ*. Snail1-dependent p53 repression regulates expansion and activity of tumour-initiating cells in breast cancer. Nat Cell Biol 2016; 18(11):1221-32.
    [Abstract] [Full Paper]
  • Ma J, Koster J, Qin Q, Hu S, Li W, Chen C, Cao Q, Wang J, Mei S, Liu Q*, Xu H*, Liu XS* . CRISPR-DO for genome-wide CRISPR design and optimization.Bioinformatics 2016; 32(21):3336-38. 
    [Abstract] [Full Paper] [Supplementary]
  • Zhu S#, Li W#, Liu J, Chen CH Liao Q, Xu P, Xu H, Xiao T, Cao Z, Peng J, Yuan P, Brown M, Liu XS*, Wei W*. Genome-scale deletion screening of human long non-coding RNAs using a paired-guide RNA CRISPR-Cas9 library. Nature Biotech 2016; 34(12):1279-86. 
    [Abstract] [Full Paper]
  • Qin Q#, Mei S#, Wu Q#, Sun H, Li L, Taing L, Chen S, Li F, Liu T, Zang C, Xu H, Chen Y, Meyer CA, Zhang Y, Brown M, Long HW*, Liu XS*. ChiLin: a comprehensive ChIP-seq and DNase -seq quality control and analysis pipeline. BMC Bioinformatics 2016; 17(1):404. 
    [Abstract] [Full Paper]
  • Zang C#, Luyten A#, Chen J, Liu XS. Shivdasani RA*. NF-E2, FLI1 and RUNX1 collaborate at areas of dynamic chromatin to activate transcription in mature mouse megakaryocytes. Sci Rep 2016; Jul 26; 6:30255. 
    [Abstract] [Full Paper]
  • Li B, Severson E, Pignon JC, Zhao H, Li T, Novak J, Jiang P, Shen H, Aster JC, Rodig S, Signoretti S, Liu JS*, Liu XS*. Comprehensive analyses of tumor immunity: implications for cancer immunotherapy. Genome Biol 2016; 17:174. 
    [Abstract] [Full Paper][Software]
  • Li B#, Li T#, Pignon JC, Wang B, Wang J, Shukla SA, Dou R, Chen Q, Hodi FS, Choueiri TK, Wu C, Hacohen N, Signoretti S, Liu JS*, Liu XS*. Landscape of tumor-infiltrating T cell repertoire of human cancers. Nat Genet 2016; 48(7):725-32. 
    [Abstract] [Full Paper] [Software]
  • Cejas P, Li L, O’Neill NK, Duarte M, Rao P, Bowden M, Zhou CW, Mendiola M, Burgos E, Feliu J, Moreno-Rubio J, Guadalajara H, Moreno V, Garcia-Olmo D, Bellmunt J, Mullane S, Hirsch M, Sweeney CJ, Richardson A, Liu XS, Brown M, Shivdasani RA*, Long HW*. Chromatin immunoprecipitation from fixed clinical tissues reveals tumor-specific enhancer profiles. Nat Med 2016; 22(6):685-91. 
    [Abstract] [Full Paper]
  • Zang C#, Wang T#, Deng K, Li B, Hu S, Qin Q, Xiao T, Zhang S, Meyer CA, He HH, Brown M, Liu JS, Xie Y*, Liu XS*. High-dimensional genomic data bias correction and data integration using MANCIE. Nat Commun 2016; Apr 13;7:11305. 
    [Abstract] [Full Paper]
  • Kong L#, Zhang P#, Li W, Yang Y, Tian Y, Wang X, Chen S, Yang Y, Huang T, Zhao T, Tang L, Su B, Li F, Liu XS, Zhang F*. KDM1A promotes tumor cell invasion by silencing TIMP3 in non-small cell lung cancer cells. Oncotarget 2016; 7(19):27959-74. 
    [Abstract] [Full Paper]
  • Goel S*, Wang Q, Watt AC, Tolaney SM, Dillon DA, Li W, Ramm S, Palmer AC, Yuzugullu H, Varadan V, Tuck D, Harris LN, Wong KK, Liu XS, Sicinski P, Winer EP, Krop IE, Zhao JJ*. Overcoming therapeutic resistance in HER2-positive breast cancers with CDK4/6 inhibitors. Cancer Cell 2016; 29(3):255-69. 
    [Abstract] [Full Paper]
  • Du Z#, Sun T#, Hacisuleyman E, Fei T, Wang X, Brown M, Rinn JL, Lee MG, Chen Y*, Kantoff PW*, Liu XS*. Integrative analyses reveal a long noncoding RNA-mediated sponge regulatory network in prostate cancer. Nat Commun 2016; 6:10982. 
    [Abstract] [Full Paper]
  • Liu Y, Fei T, Zheng X, Brown M, Zhang P*, Liu XS*, Wang H*. An integrative pharmacogenomic approach identifies two-drug combination therapies for personalized cancer medicine. Sci Rep 2016; 6:22120. 
    [Abstract] [Full Paper]
  • Shu S#, Lin CY#, He HH#, Witwicki RM#, Tabassum DP, Roberts JM, Janiszewska M, Huh SJ, Liang Y, Ryan J, Doherty E, Mohammed H, Guo H, Stover DG, Ekram MB, Peluffo G, Brown J, D’Santos C, Krop IE, Dillong D, McKeown M, Ott C, Qi J, Ni M, Rao PK, Duarte M, Wu SY, Chiang CM, Anders L, Young RA, Winer EP, Letai A, Barry WT, Carroll JS, Long HW, Brown M, Liu XS, Meyer CA, Bradner JE*, Polyak K*. Response and resistance to BET bromodomain inhibitors in triple-negative breast cancer. Nature 2016; 529(7586):413-7. 
    [Abstract] [Full Paper]
  • Xu H#, Xu K#, He HH, Zang C, Chen CH, Chen Y, Qin Q, Wang S, Hu S, Li F, Long H, Brown M*, Liu XS*. Integrative analysis reveals the transcriptional collaboration between EZH2 and E2F1 in the regulation of cancer-related gene expression. Mol Cancer Res 2016; 14(2):163-72. 
    [Abstract] [Full Paper]

2015

  • Du Z, Fei T, Brown M, Liu XS, Chen Y. Data integration on noncoding RNA Studies. Chapter in: Tseng G, Ghosh D, Zhou XJ, eds. Integrating Omics Data.Cambridge University Press: Cambridge, England. Sept 2015: 403-424. 
    [Full Chapter]
  • Li W#, Koster J#, Xu H, Chen CH, Xiao T, Liu JS, Brown M*, Liu XS*. Quality control, modeling and visualization of CRISPR screens with MAGeCK-VISPR. Genome Biol 2015; 16(1):281.
    [Abstract] [Full Paper]
  • Jiang P, Wang H, Li W, Zang C, Li B, Wong YJ, Meyer C, Liu JS, Aster JC, Liu XS*. Network analysis of gene essentiality in functional genomics experiments. Genome Biol epub_Oct 30.
    [Abstract] [Full Paper]
  • Zhang J#, Wang C#, Chen X, Takada M, Fan C, Zheng X, Wen H, Liu Y, Wang C, Pestell RG, Aird KM, Kaelin WG Jr Liu XS, Zhang Q*. EgIN2 associates with NFR-1PGC1a omplex and controls mitochondrial function in breast cancer. EMBO J. epub_Oct 22.
    [Abstract] [Full Paper]
  • Zhang N#, Wang H#, Fang Y, Wang J*, Zheng X*, Liu XS*. Predicting anticancer drug responses using a dual-layer integrated cell line-drug network model. PLOS Computational Biology. 2015;doi:10.1371/100498_Sept 29.
    [Abstract] [Full Paper]
  • Xu H#, Xiao T#, Chen CH, Meyer CA, Wu Q, Wu D, Cong L, Zhang F, Liu JS, Brown M*, Liu XS*. Sequence determinants of improved CRISPR sgRNA design. Genome Res. 2015;25:(8)1147-57.
    [Abstract] [Full Paper] [Software]
  • Fei Q#, Yang X#, Jiang H, Wang Q, Yu Y, Yu Y, Yi W, Zhou S, Chen T, Lu C, Atadja P, Liu XS, Li E, Zhang Y*, Shou J*. SETDB1 modulates PRC2 activity at developmental genes independently of H3K9 trimethylation in mouse ES cells. Genome Res. 2015.
    [Abstract] [Full Paper] [Supplementary]
  • Jiang P, Freedman ML, Liu JS, Liu XS*. Inference of transcriptional regulation in cancers. PNAS 2015; doi/10.1073.
    [Abstract] [Full Paper] [Software]
  • Jiang P, Liu XS*. Big data mining yields novel insights on cancer. Nature Genetics 2015; 47(2):103-4.
    [Abstract] [Full Paper]
  • Wang H, Zang C, Liu XS., Aster JC*. The role of notch receptors in transcriptional regulation. J Cell Physiol 2015; 230(5):982-8. PMCID:PMC4442318
    [Abstract] [Full Paper]

2014

  • Zhang Y#,*, Vastenhouw NL#,*, Feng J, Fu K, Wang C, Ge Y, van Hummelen P, Schier AF*, Liu XS*. Canonical nucleosome organization at promoters forms during genome activation. Genome Res 2014; 24(2):260-6. PMCID:PMC3912416
    [Abstract] [Full Paper]
  • Wang Q#, Huang J#, Sun H#, Liu J, Wang J, Wang Q, Qin Q, Mei S, Zhao C, Yang X, Liu XS*, Zhang Y*. CR Cistrome: a ChIP-Seq database for chromatin regulators and histone modification linkages in human and mouse. Nucl Acids Res 2014; 42:D450-8. PMCID:PMC3965064
    [Abstract] [Full Paper]
  • Sun T, Wang X, He HH, Sweeney CJ, Liu XS, Brown M, Balk S, Lee GS*, Kantoff PW*. MiR-221 promotes the development of androgen independence in prostate cancer cells via downregulation of HECTD2 and RAB1A. Oncogene 2014; 33(21):2790-80. PMCID:PMC3883998
    [Abstract] [Full Paper]
  • Wang H#, Zang C#, Taing L, Arnett K, Wong YJ, Pear WS, Blacklow SC, Liu XS*, Aster JC*. NOTCH1/RBPJ complexes drive target gene expression through dynamic interactions with super-enhancers. PNAS 2014; 111(2):705-10. PMCID:PMC3896193
    [Abstract] [Full Paper]
  • Wee S, Dhanak D, Li H, Armstrong SC, Copeland RA, Sims R,Baylin SB, Liu XS, Schweizer L*. Targeting epigenetic regulators for cancer therapy. Annals NYAS2014; 30-6.
    [Abstract] [Full Paper]
  • Watanabe H#, Ma Q#, Peng S, Adelmant G, Swain D, Song W, Fox C, Francis JM, Pedamallu CS, Deluca DS, Brooks AN, Wang S, Que J, Rustgi AK, Wong KK, Ligon KL, Liu XS, Marto JA, Meyerson M, Bass AJ*. SOX2 and p63 colocalize at genetic loci in squamous cell carcinomas. J Clin Invest 2014; 124(4):1636-45. PMCID:PMC3973117
    [Abstract] [Full Paper]
  • Chen X, Iliopoulos D, Zhang Q, Tang Q, Greeenblatt MB, Hatziapostolou M, Ni M, Chen Y, Lim E, Hu DZ, Hu B, Song M, Brown M, Liu XS, Glimcher LH*. XBP1 sustains tumor initiating cells in triple negative breast cancer by controlling the hypoxia response. Nature 2014; 508(7494):103-7. PMCID:PMC41505133
    [Abstract] [Full Paper]
  • Lu T, Aron L, Zullo J, Pan Y, Kim H, Chen Y, Tang TH, Kim HM, Drake D, Liu XS, Bennett DA, Colaiacovo MP, Yankner BA*. REST and stress resistance in ageing and Alzheimer’s disease. Nature 2014; 507(7493):448-54. PMCID:PMC4110979
    [Abstract] [Full Paper]
  • Yamamoto S#, Wu Z#, Russnes HG, Takagi S, Peluffo G, Vaske C, Zhao X, Moen Vollan HK, Maruyama R, Ekram MB, Sun H, Kim JH, Carver K, Zucca M, Feng J, Almendro V, Bessarabova M, Rueda OM, Nikolsky Y, Caldas C, Liu XS, Polyak K*. JARID1B is a luminal lineage-driving oncogene in breast cancer. Cancer Cell2014; 25(6):762-77. PMCID:PMC4079039
    [Abstract] [Full Paper]
  • Hsieh CL, Fei T, Chen Y, Li T, Gao Y, Wang X, Sun T, Sweeney CJ, Lee GS, Chen S, Balk SP, Liu XS, Brown M, Kantoff PW*. Enchancer RNAs participate in androgen receptor-driven looping that selectively enhances gene activation. Proc Natl Acad Sci USA 2014; 111(20):7319-24. PMCID:PMC4034202
    [Abstract] [Full Paper]
  • Wang J, Lin X, Wang S, Wang C, Wang Q, Duan X, Lu P, Wang Q, Wang C, Liu XS, Huang J*. PHF8 and REST/NRSF co-occupy gene promoters to regulate proximal gene expression. Sci Rep 2014; 4:5508. PMCID:PMC4031473
    [Abstract] [Full Paper]
  • Zheng X#, Zhao Q#, Wu HJ#, Li W, Wang H, Meyer CA, Qin QA, Xu H, Zang C, Jiang P, Li F, Hou Y, He J, Wang J, Wang J, Zhang P*, Zhang Y*, Liu XS*. MethylPurify:tumor purity deconvolution and differential methylation detecton from single tumor DNA methylomes. Genome Biol 2014; 15(8):419. PMCID:PMC4165374.
    [Abstract] [Full Paper]
  • Meyer CA*, Liu XS* . Identifying and mitigating bias in next-generation sequencing methods for chromatin biology. Nat Rev Genet 2014; 15(11):709-21.
    [Abstract] [Full Paper]
  • Stoeck A*, Lejnine S, Truong A, Pan L, Wang H, Zang C, Yuan J, Ware C, MacLean J, Garrett-Engele PW, Kluk M, Laskey J, Haines BB, Moskaluk C, Zawel L, Fawell S, Gilliland G, Zhang T, Kremer B, Knoechel B, Bernstein Be, Pear WS, Liu XS , Aster JC*, Sathyanarayanan S*. Discovery of biomarkers predictive of GSI response in triple negative breast cancer and adenoid cystic carcinoma. Cancer Discov 2014; 4(10):1154-67. PMCID:PMC4184927
    [Abstract] [Full Paper]
  • Luyten A#, Zang C#, Liu XS* , Shivdasani RA*. Active enhancers are delineated de novo during hematopoiesis, with limited lineage fidelity among specified primary blood cells. Genes Dev 2014; 28(16):1827-39. Genes Dev 2014; 28(16):1827-39. PMCID:PMC4197967
    [Abstract] [Full Paper]
  • Meng FL#, Du Z#, Federation A, Hu J, Wang Q, Kieffer-Kwon KR, Meyers RM, Amor C, Wasserman CR, Neuberg D, Casellas R, Nussenzweig MC, Bradner JE*, Liu XS*, Alt FW*. Convergent transcription at intragenic super-enhancers targets AID-initiated genomic instability. Cell 2014; 159(7):1538-48. PMCID:PMC4322776
    [Abstract] [Full Paper]
  • Cai C#,*, He HH#,*, Gao S, Chen S, Yu Z, Gao Y, Chen S, Chen MW, Zhang J, Ahmed M, Wang Y, Metzger E, Schule R, Liu XS, Brown M, Balk SP. Lysine-specific demethylase 1 has dual functions as a major regulator of androgen receptor transcriptional activity. Cell Rep 2014; 9(5):1618-27. PMCID:PMC4268359
    [Abstract] [Full Paper]
  • Li W#, Xu H#, Xiao T, Cong L, Love MI, Zhang F, Irizarry RA, Liu JS, Brown M, Liu XS*. MAGeCK enables robust identification of essential genes from genome-scale CRISPR/Cas9 knockout screens. Genome Biol 2014; 15(12):554. PMCID:PMC4290824
    [Abstract] [Full Paper] [Software]
  • Yashiro-Ohtani Y#, Wang H#, Zang C, Arnett KL, Bailis W, Ho Y, Knoechel B, Lanauze C, Louis L, Forsyth KS, Chen S, Chung Y, Schug J, Blobel GA, Liebhaber SA, Bernstein BE, Blacklow SC, Liu XS, Aster JC, Pear WS*. Long-range enhance activity determines Myc sensitivity to Notch inhibitors in T cell leukemia. Proc Natl Acad Sci U S A 2014; 111(46):E4946-53. PMCID:PMC4246292
    [Abstract] [Full Paper]
  • Hu CY, Mohtat D, Yu Y, Ko YA, Shenoy N, Bhattacharya S, Izquierdo MC, Park AS, Giricz O, Vallumsetla N, Gundabolu K, Ware K, Bhagat TD, Suzuki M, Pullman J, Liu XS, Greally JM, Susztak K*, Verma A*. Kidney cancer is characterized by aberrant methylation of tissue-specific enhancers that are prognostic for overall survival. Clin Cancer Res 2014; 20(16):4349-60.PMCID:PMC4424050
    [Abstract] [Full Paper]
  • Ho JW#, Jung YL#, Liu T#, et al, Strome S*, Elgin SC*, Liu XS*, Lieb JD*, Ahringer J*, Karpen GH*, Park PJ*. Comparative analysis of metazoan chromatin organization. Nature 2014; 512(7515):449-52. PMCID:PMC4227084
    [Abstract] [Full Paper]
  • He HH#, Meyer CA#, Hu SS#, Chen MW, Zang C, Liu Y, Rao PK, Fei T, Xu H, Long H, Liu XS*, Brown M*. Refined DNase-seq protocol and data analysis reveals intrinsic bias in transcription factor footprint identification. Nat Methods 2014; 11(1):73-8. 2013; Dec 8: 10.1038/nmeth.2762 epub. PMCID:PMC4018771
    [Abstract] [Full Paper]

2013

  • Verzi MP#, Shin H#, San Roman AK, Liu XS*, Shivdasani RA*. Intestinal master transcription factor CDX2 controls chromatin access for partner transcription factor binding. Mol Cell Biol 2013;33(2):281-92. PMCID:PMC3554120
    [Abstract] [Full Paper]
  • Trynka G, Sandor C, Han B, Xu H, Stranger BE, Liu XS Raychaudhuri S*. Chromatin marks identify critical cell types for fine mapping complex trait variants. Nat Genet 2013; 45(2):124-30. PMCID:PMC3826950
    [Abstract] [Full Paper]
  • Zhang X, Peterson KA, Liu XS, McMahon AP, Ohba S. Gene regulatory networks mediating canonical Wnt signal directed control of pluripotency and differentiation in embryo stem cells. Stem Cells 2013; 31(12):2667-79. PMCID:PMC3830733
    [Abstract] [Full Paper]
  • Cai C, Wang H, He HH, Chen S, He L, Ma F, Mucci L, Wang Q, Fiore C, Sowalsky AG, Loda M, Liu XS, Brown M, Balk SP*, Yuan X*. ERG induces androgen receptor-mediated regulation of SOX9 in prostate cancer. J Clin Invest 2013; 123(3):1109-22. PMCID:PMC3582143
    [Abstract] [Full Paper]
  • Du Z#, Li H#, Wei Q#, Zhao X, Wang C, Xu W, Liu XS*, Jin W*, Su Z*. Genome-wide analysis of histone modifications: H3K4me2, H3K4me3, H3K9ac, and H3K27ac in oryza sativa L. japonica. Mol Plant 2013; 6(5):1463-72. PMCID:PMC3842134
    [Abstract] [Full Paper]
  • Du Z#, Fei T#, Verhaak RGW, Su Z, Zhang Y,Brown M*, Chen C*, Liu XS*. Integrative genomic analyses reveal clinically relevant long noncoding RNAs in human cancer. Nat Struct Mol Biol 2013; 20(7):908-13. PMCID:PMC3702647
    [Abstract] [Full Paper] [Supplementary] [Data]
  • Choudhury S#, Almendro V#, Merino VF#, Wu Z#, Maruyama R#, Su Y, Martins FC, Fackler MJ, Bessarabova M, Kowalczyk A, Consway T, Beresford-Smith B, MacIntyre G, Cheng YK, Lopez-Bujanda Z, Kaspi A, Hu R, Robens J, Nikolskaya T, Haakensen VD, Schnitt SJ, Argani P, Ethington G, Panos L, Grant M, Clark J, Herlihy W, Lin SJ, Chew G, Thompson EW, Greene-Colozzi A, Richardson AL, Rosson GD, Pike M, Garber JE, Nikolsky Y, Blum JL, Au A, Hwang ES, Tamimi RM, Michor F, Haviv I, Liu XS, Sukumar S*, Polyak K*. Molecular profiling of human mammary gland links breast cancer risk to a p27+ cell population with progenitor characteristics. Cell Stem Cell 2013; 13(1):117-30. PMCID:PMC3703476
    [Abstract] [Full Paper]
  • Sun H, Qin B, Liu T, Wang Q, Liu J, Wang J, Lin X, Yang Y, Taing L, Rao PK, Brown M, Zhang Y, Long HW*, Liu XS*. CistromeFinder for ChIP-seq and DNase-seq data reuse. Bioinformatics 2013; 29(10):1352-4. PMCID:PMC3654708
    [Abstract] [Full Paper]
  • Ni M#, Chen Y#, Fei T, Li D, Lim E, Liu XS*, Brown M*. Amplitude modulation of androgen signaling by c-MYC. Genes Dev 2013; 27(7):734-48. PMCID:PMC3639415
    [Abstract] [Full Paper]
  • Tam WL, Lu H, Burkhuisen J, Soh BS, Lim E, Reinhardt F, Wu ZJ, Krall JA, Bierie B, Guo W, Chen X, Liu XS, Brown M, Lim B, Weinberg RA. Protein kinase C a is a central signaling node and therapeutic target for breast cancer stem cells. Cancer Cells 2013; 24(3):347-64. PMCID:PMC4001722
    [Abstract] [Full Paper]
  • Shin H#, Liu T#, Duan X, Zhang Y*, Liu XS*. Computational methodology for ChIP-seq analysis. Quantitative Biology 2013; 1(1):54-70. PMCID:PMC4346130
    [Full Paper]
  • He HH, Meyer CA, Long H, Liu XS, Brown M. A closer look into DNase I hypersensitivity. Epigenetics and Chromatin 2013; 6(Suppl 1):P25.
    [Abstract] [Full Paper]
  • Xu K, Fei T, Wu ZJ, Su Z, Groner AC, He HH, Cai C, Stack EC, Loda M, Liu T, Morrissey C, Vessella RL, Kantoff PW, Balk SP, Liu XS, Brown M. Polycomb-independent activity of EZH2 in castration resistant prostate cancer. Epigenetics and Chromatin 2013; 6(Suppl 1):O14.
    [Full Paper]
  • Catic A, Suh CY, Hill CT, Daheron L, Henkel T, Orford KW, Dombkowski DM, Liu T, Liu XS, Scadden DT.Genome-wide map of nuclear protein degradation shows NCoR1 turnover as a key to Mitochondrial gene regulation. Cell 2013; 155(6):1380-95. PMCID:PMC4068507
    [Abstract] [Full Paper]
  • Wang S, Sun H, Ma J, Zang C, Wang C, Wang J, Tang Q, Meyer CA, Zhang Y, Liu XS. Target analysis by integration of transcriptome and ChIP-seq data with BETA. Nat Protoc 2013; 8(12):2502-15. PMCID:PMC4135175
    [Abstract] [Full Paper] [Software]
  • Wang H*, Meyer CA, Fei T, Wang G, Zhang F*, Liu XS. A systematic approach identifies FOXA1 as a key factor in the loss of epithelial traits during the epithelial-to-mesenchymal transition in lung cancer. BMC Genomics 2013; 14:680.PMCID: PMC3852829
    [Abstract] [Full Paper]
  • Sulahian R, Casey F, Shen J, Qian ZR, Shin H, Ogino S, Weir BA, Vazquez F, Liu XS, Hahn WC, Bass AJ, Chan V, Shivdasani RA. An integrative analysis reveals functional targets of GATA6 transcriptional regulation in gastric cancer. Oncogene. 2013; Dec 9. Doi: 10.1038/onc2013.517 epub.
    [Abstract] [Full Paper]

2012

  • Wang C, Tian R, Zhao Q, Xu H, Meyer CA, Li C, Zhang Y, Liu XS. Computational inference of mRNA stability from histone modification and transcriptome profiles. Nucleic Acids Res 2012; 40(14):6414-23. PMCID:PMC3414115
    [Abstract] [Full Paper]
  • Qin B#, Zhou M#, Ge Y#, Taing L, Liu T, Wang Q, Wang S, Chen J, Shen L, Duan X, Hu S, Long H, Zhang Y*, Liu XS*. CistromeMap: A knowledgebase and web server for ChIP-Seq and DNase-Seq studies in mouse and human. Bioinformatics 2012; 28(10):1411-2. PMCID:PMC3448563
    [Abstract] [Full Paper] [Software]
  • Chen Y#, Negre N#, Li Q, Mieczkowska JO, Slattery M, Liu T, Zhang Y, Kim TK, He HH, Zieba J, Ruan Y, Bickel PJ, Myers RM, Wold BJ, White KP*, Lieb JD*, Liu XS*. Systematic evaluation of factors influencing ChIP-seq fidelity. Nat Methods 2012; 9(6):609-614. PMCID:PMC347507
    [Abstract] [Full Paper]
  • Chen S, Ma J, Wu F, Xiong LJ, Ma H, Xu W, Lu R, Li X, Villen J, Gygi SP, Liu XS, Shi Y. The histone H3 Lys 27 demethylase JMJD3 regulates gene expression by impacting transcriptional elongation. Genes Dev 2012; 26(12):1364-75. PMCID:PMC3387663
    [Abstract] [Full Paper]
  • He HH#, Meyer CA#, Chen MW, Jordan VC, Brown M*, Liu XS*. Differential DNase I hypersensitivity reveals factor-dependent chromatin dynamics. Genome Res 2012; 22(6):1015-25. PMCID:PMC3371710
    [Abstract] [Full Paper]
  • Feng J#, Liu T#, Qin B, Zhang Y#, Liu XS*. Identifying ChIP-seq enrichment using MACS. Nat Protoc 2012; 7(9):1728-40.
    [Abstract] [Full Paper]
  • Feng J, Meyer CA, Wang Q, Liu JS, Liu XS*, Zhang Y*. GFOLD: a generalized fold change for ranking differentially expressed genes from RNA-seq data. Bioinformatics 2012; 28(12):2782-8.
    [Abstract] [Full Paper] [Software]
  • Landt SG, Marinov GK, Kundale A, Kheradpour P, Pauli F, Batzoglou S, Bernstein BE, Bickel P, Brown JB, Cayting P, Chen Y, Desalvo G, Epstein C, Fisher-Aylor KI, Euskirchen G, Gerstein M, Gertz J, Hartemink AJ, Hoffman MM, Iyer Vr, Jung YL, Karmakar S, Kellis M, Kharchenko PV, Li Q, Liu T, Liu XS, Ma L, et al. ChIP-seq guidelines and practices of the ENCODE and modENCODE consortial. Genome Res 2012; 22(9):1813-31. PMCID:PMC3431496
    [Abstract] [Full Paper]
  • Meyer CA, Tang Q, Liu XS. Applications of next generation sequencing on studies of nuclear receptor regulation and function. Mol Endocrinol 2012;26(10):1651-9. PMCID:PMC3458226
    [Abstract] [Full Paper]
  • Fu K, Tang W, Feng J, Liu XS, Zhang Y. DiNuP: a systematic approach to reveal differential nucleosome positioning. Bioinformatics 2012; 28(15):1965-71. PMCID:PMC3400967
    [Abstract][Full Paper]
  • Bailey ST#, Shin H#, Westerling T, Liu XS*, Brown M*. Estrogen receptor prevents p53-dependent apoptosis in breast cancer. Proc Natl Acad Sci USA, 2012; 109(44):18060-5. PMCID:PMC3497783
    [Abstract][Full Paper]
  • Benson MJ, Aijo T, Chang X, Gagnon J, Pape UJ, Anatharaman V, Aravind L, Pursiheimo JP, Oberdoerffer S, Liu XS, Lahesmaa R, Lahdesmaki H, Rao A. Heterogeneous nuclear ribonucleoprotein L-like (hnRNPLL) and elongation factor, RNA polymerase II, 2 (ELL2) are regulators of mRNA processing in plasma cells. Proc Natl Acad Sci USA 2012; 109(4):16252-7. PMCID:PMC3479602
    [Abstract][Full Paper]
  • Maruyama R, Shipitsin M, Choudhury S, Wu ZJ, Protopopov A, Yao J, Lo PK, Bessarabova M, Ishkin A, Nikolsky Y, Liu XS, Sukumar S, Polyak K. Breast cancer special feature: altered antisense-to-sense transcript ratios in breast cancer. Proc Natl Acad Sci USA 2012; 9(8):2820-4. PMCID:PMC3286925
    [Abstract] [Full Paper]
  • Xu K#, Wu ZJ#, Groner AC, He HH, Cai C, Lis RT, Wu X, Stack EC, Loda M, Liu T, Xu H, Cato L, Thornton JE, Gregory RI, Morrissey M, Vessella RL, Montironi R, Magi-Galluzzi C, Kantoff PW, Balk SP, Liu XS*, Brown M*. EZH2 oncogenic activity in castration-resistant prostate cancer is polycomb-independent. Science2012; 338(6113):1465-9. PMCID:PMC3625962
    [Abstract] [Full Paper]
  • Xu Y, Xu C, Kato A, Tempel W, Abreu JG, Bian C, Hu Y, Hu D, Zhao B, Cerovina T, Diao J, Wu F, He HH, Cui Q, Clark E, Ma C, Barbara A, Veenstra GJ, Xu G, Kaiser UB, Liu XS, Sugrue SP, He X, Min J, Kato Y, Shi YG. Tet3 CXXC domain and dioxygenase activity cooperatively regulate key genes for xenopus eye and neural development. Cell 2012; 151(6):1200-13. PMCID:PMC3705565
    [Abstract] [Full Paper]

2011

  • Cai C, He HH , Chen S, Ilsa Coleman I, Wang H, Fang Z, Chen S, Nelson PS, Liu XS, Brown M, Balk SP. Androgen receptor gene expression in prostate cancer is directly suppressed by the androgen receptor through recruitment of lysine demethylase 1. Cancer Cell 2011; 20(4):457-71. PMCID:PMC3225024
    [Abstract] [Full Paper]
  • Tang Q, Chen Y, Meyer CA,, Geistlinger T, Lupien M, Wang Q, Liu T, Zhang Y, Brown M*, Liu XS*. A comprehensive view of nuclear receptor cancer cistromes. Cancer Res 2011; 71(22):6940-7. PMCID:PMC3610570
    [Abstract] [Full Paper]
  • Chen Y, Meyer CA, Liu T, Li W, Liu JS, Liu XS. MM-ChIP enables integrative analysis of cross-platform and between-laboratory ChIP-chip or ChIP-seq data. Genome Biol 2011; 12(2):R11. PMCID:PMC3188793.
    [Abstract] [Full Paper]
  • Feng D*, Liu T*, Sun Z, Bugge A, Mullican SE, Alenghai T, Liu XS, Lazar MA. A circadian rhythm orchestrated by histone deacetylase 3 controls hepatic lipid metabolism. Science 2011; 331(6022):1315-9. PMCID:PMC3389392
    [Abstract] [Full Paper]
  • Liu T, Rechtsteiner A, Egelhofer TA, Vielle A, Latorre I, Cheung MS, Ercan S, Ikegami K, Jensen M, Kolasinska-Zwierz P, Rosenbaum H, Shin H, Taing S,Takasaki T, Iniguez AL, Desai A, Dernburg AF, Kimura H, Lieb JD, Ahringer J, Strome S, Liu XS. Broad chromosomal domains of histone modification patterns in C. elegans. Genome Res 2011; 21(2):227-36. PMCID:PMC3032926
    [Abstract] [Full Paper]
  • Meyer CA*, He HH, Brown M, Liu XS*. BINOCh: Binding inference from nucleosome occupany changes. Bioinformatics 2011; 27(13):1867-8. PMCID:PMC3117357. [Abstract] [Full Paper]
  • Verzi MP, Shin H, Ho LL, Liu XS, Shivdasani RA. Essential and redundant functions of caudal family proteins in activating adult intestinal genes. Mol Cell Biol2011; 31(10):2026-39. PMCID:PMC3133364.
    [Abstract] [Full Paper]
  • Wang X*, Laurie JD, Liu T, Wentz J, Liu XS*. Computational dissection of Arabidopsis smRNAome leads to discovery of novel microRNAs and short interfering RNAs associated with transcription start sites. Genomics 2011; 97(4):235-43. PMCID:PMC3707929
    [Abstract] [Full Paper]
  • Wang X*, Liu XS*. Systematic curation of miRBase annotation using integrated small RNA high-throughput sequencing data for C. elegans and Drosophila. PMCID:PMC3268580 Frontiers in Genetics 2011; 2(25):1-14. [Full Paper]
  • Maruyama R, Choudhury S, Kowalczyk A, Bessarabova M, Beresford-Smith B, Conway T, Kaspi A, Wu Z, Nkkolskaya T, Merino VF, Lo PK, Liu XS, Nikolsky Y, Sukumar S, Haviv I, Polyak K. Epigenetic regulation of cell type-specific expression patterns in the human mammary epithelium. PLoS Genetics 2011; 7(4):31001369. PMCID:PMC3080862
    [Abstract] [Full Paper]
  • Pastor WA#, Pape UJ#, Huang Y, Henderson HR, Lister R, Ko M, McLoughlin EM, Brudno Y, Mahapatra S, Kapranov P, Tahiliani M, Daley GQ, Liu XS, Ecker JR, Milos PM, Agarwal S, Rao A. Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells. Nature 2011; 473(7347):394-7. PMCID:PMC3124347.
    [Abstract] [Full Paper]
  • Marotta LL, Almendro V, Shipitsin M, Schemme J, Walker SR, Bloushtain-Qimron N, Kim JJ, Choudhury SA, Maruyama R, Wu Z, Gonen M, Mulvey LA, Bessarabova MO, Huh SJ, Silver SJ, Kim SY, Park SY, Lee HE, Anderson KS, Richardson AL, Nikolskaya T, Nikolsky Y, Liu XS, Root DE, Hahn WC, Frank DA, Polyak K. The JAK2/STAT3 signaling pathway is required for growth of CD44+CD24- stem cell-like breast cancer cells in human tumors. J Clin Invest 2011; 121(7):2723-35. PMCID:PMC3223826.
    [Abstract] [Full Paper]
  • Ni M#, Chen Y#, Lim E, Wimberly H, Bailey ST, Imai Y, Rimm DL, Liu XS*, Brown M*. Targeting androgen receptor in estrogen receptor-negative breast cancer. Cancer Cell 2011; 20(1):119-31. PMCID:PMC3180861
    [Abstract] [Faculty of 1000 evaluation] [Harvard Gazette’s story] [Full Paper]
  • Liu T#,, Ortiz JA#, Taing L, Meyer CA, Lee B, Zhang Y, Shin HG, Wong SS, Ma J, Lei Y, Pape UJ, Poidinger M, Chen Y, Yeung K, Brown M, Turpaz Y*, Liu XS*. Cistrome: an integrative platform for transcriptional regulation studies. Genome Biol 2011; 12(8):R83. PMCID:PMC3245621
    [Abstract] [Full Paper] [Software]
  • Adams DJ, Berger B, Harismendy O, Huttenhower C, Liu XS, Myers CL, Oshlack A, Rinn JL, Walhout AJ. Genomics in 2011: challenges and opportunities. Genome Biol 2011; 12(12):137. PMCID:PMC3334607
    [Abstract] [Full Paper]

2010

  • Bienvenu F, Jirawatnotai S, Elias JE, Meyer CA, Mizeracka K, Marson A, Frampton GM, Cole MF, Odom D, Odajima J, Geng Y, Zagozdzon A, Jecrois M, Young RA, Liu XS, Cepko C, Gygi SP, Sicinski P. Transcriptional role of cyclin D1 in development revealed by a genetic-proteomic screen. Nature 2010; 463:374-78. PMCID:PMC2943587
    [Abstract] [Full Paper]
  • He HH#, Meyer C#, Shin H, Bailey ST, Wei G, Wang Q, Zhang Y, Xu K, Ni M, Lupien M, Mieczkowski P, Lieb JD, Zhao K, Brown M*, Liu XS*. Nucleosome dynamics defines transcriptional enhancers. Nat Genet 2010; 42:343-7.PMCID:PMC2932437
    [Abstract] [Full Paper] [Software]
  • Hirsch HA, Iliopoulos D, Joshi A, Zhang Y, Jaeger SA, Bulyk M, Liu XS, Struhl K. A transcriptional signature and common gene networks link cancer with lipid metabolism and diverse human diseases. Cancer Cell 2010; 17(4):348-61. PMCID: PMC2854678
    [Abstract] [Full Paper]
  • Ji H*, X Shirley Liu*. Analyzing ‘omics data using hierarchical models. Nature Biotechnology 2010; 28(4):337-40. PMCID:PMC2904972
    [Abstract] [Full Paper]
  • Vastenhouw NL, Zhang Y, Woods IG, Imam F, Regev A, Liu XS*, Rinn J*, Schier AF*. Chromatin signature of embryonic pluripotency is established during genome activation. Nature 2010;464(7290):922-6.PMCID:PMC2874748
    [Abstract] [Full Paper]
  • Wolfer A, Wittner B, Irimia D, Flavin RJ, Lupien M, Gunawardane RN, Meyer CA, Lightcap ES, Tamayo P, Mesirov JP, Liu XS, Shioda T, Toner M, Loda M, Brown M, Bruggs JS, Ramaswamy S. MYC regulation of a ”poor-prognosis” metastatic cancer cell state. Proc Natl Acad Sci U S A 2010; 107(8):3698-703. PMCID:PMC2840447
    [Abstract] [Full Paper]
  • Ahmadiyeh N, Pomerantz MM, Grisanzio C, Herman P, Jia L, Almendro V, He HH, Brown M, Liu XS, Davis M, Caswell JL, Beckwith CA, Hills A, Macconaill L, Coetzee GA, Regan MM, Freedman ML. 8q24 prostate, breast and colon risk loci show tissue-specific long-range interaction with MYC. Proc Natl Acad Sci U S A2010; 107(21):9742-6. PMCID:PMC2906844
    [Abstract] [Full Paper]
  • Verzi MP, Hatzis P, Sulahian R, Philips J, Schuijers J, Shin H, Freed E, Brown MA, Lynch JP, Dang DT, Clevers H, Liu XS, Shivdasani RA. TCF4 and CDX2, major transcription factors for intestinal function, converge on the same cis-regulatory regions. Proc Natl Acad Sci U S A 2010; 107(34):15157-62. PMCID:PMC2930576
    [Abstract] [Full Paper]
  • Lupien M#, Meyer CA#, Bailey ST, Eeckhoute J, Cook J, Westerling T, Zhang X, Carroll JS, Rhodes DR, Liu XS*, Brown M*. Growth factor stimulation induces a distinct ER{alpha} cistrome underlying breast cancer endocrine resistance. Genes Dev 2010; 24(19):2219-27. PMCID:PMC2947773
    [Abstract] [Full Paper]
  • Fan X, Moqtaderi Z, Jin Y, Zhang Y, Liu XS, Struhl K. Nucleosome depletion at yeast terminators is not intrinsic and can occur by a transcriptional mechanism linked to 3′-end formation. Proc Natl Acad Sci USA 2010; 107(42):17945-50. PMCID:PMC2964211
    [Abstract] [Full Paper]
  • Cao Q, Zhou M, Wang X, Meyer CA, Zhang Y, Chen Z, Li C*, Liu XS*. CaSNP: a database for interrogating copy number alterations of cancer from SNP array data. Nucleic Acids Res 2011; 39(Database issue):D968-74. Epub 2010; Oct 23. PMCID:PMC3013814
    [Abstract] [Full Paper]
  • Wu ZJ#, Meyer CA#, Choudhury S, Shipitsin M, Bessarabova M, Nikolsky Y, Sukumar S, Schwartzman A, Liu JS, Polyak K*, Liu XS*. Gene expression profiling of human breast tissue samples using SAGE-Seq. Genome Res 2010; 20(12):1730-9. PMCID:PMC2989999
    [Abstract] [Full Paper] [Software]
  • Verzi MP,#, Shin HG#, He HH, Meyer CA, Montgomery RK, Fleet JC, Brown MA, Lius XS, Shivdasani RA. Differentiation-specific histone modifications reveal dynamic chromatin interactions and partners for the intestinal transcription factor CDX2. Dev Cell 2010; 19(5):713-26.PMCID:PMC3001591
    [Abstract] [Full Paper]
  • Ko M, Huang Y, Jankowska A, Pape UJ, Tahiliani M, Bandukwala HS, An J, Lamperti ED, Koh KP, Liu XS, Aravind L, Agarwal S, Maciejewki JP, Rao A. Impaired hydroxylation of 5-methylcytosine in myeloid neoplasms with mutant TET2. Nature 2010; 468(7325):839-43. PMCID:PMC3003755
    [Abstract] [Full Paper]
  • Zhang Y, Moqtaderi Z, Rattner B, Euskirchen G, Snyder M, Kadonaga JT, Liu XS, Struhl K. Evidence against a genomic code for nucleosome positioning. Reply to: “Nucleosome sequence preferences influence in vivo nucleosome organization”. Nat Struct Mol Biol 2010; 17:920-23).
    [Full Paper]
  • The modENCODE Consortium (Liu XS*). Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project. Science 2010; 330(6012):1775-87.
    [Abstract] [Full Paper]

2009

  • Boros J, Donaldson IJ, O’Donnel A, Zeef L, Lupien M, Meyer CA, Liu XS, Brown M, Sharrocks AD. Elucidation of the Elk-1 target gene network reveals a role in the coordinate regulation of core components of the gene regulation machinery. Genome Res.2009; 11:1963-73. PMCID:PMC2775591.
    [Abstract] [Full Paper]
  • Eeckhoute J, Lupein M, Meyer CA, Verzi MP, Shivdasani RA, Liu XS, Brown M. Cell-type selective chromatin remodeling defines the active subset of FoxA1-bound enhancers. Genome Res. 2009;19(3)372-80. PMCID:PMC2661808.
    [Abstract] [Full Paper]
  • Huang J, Chen T, Liu X, Yuan D, Jiang J, Li J, Li D, Liu XS, Li W, Kang J, Pei G. More synergetic cooperation of Yamanaka factors in induced pluripotent stem cells than in embryonic stem cells. Cell Res. 2009;19(10):1127-38.
    [Abstract] [Full Paper]
  • Johnson WE, Liu JS, Liu XS. Doubly-stochastic continuous-time hidden Markov approach for applications on genome tiling arrays. Annals of Applied Statistics.2009; 3(3):1183-1203.
    [Full Paper]
  • Kolasinska-Zwierz P, Down T, Latorre I, Liu T, Liu XS, Ahringer J. Differential chromatin marking of introns and expressed exons by H3K36me3. Nat Genet.2009;41(3):376-81. PMCID:PMC2649722.
    [Abstract] [Full Paper]
  • Liu XS, Meyer CA. ChIP-Chip: algorithms for calling binding sites. Methods Mol Biol 2009; 556-75. PMCID:PMC3609550
    [Abstract] [Full Paper]
  • Lupien M, Eeckhoute J, Meyer CA, Krum SA, Rhodes, DR, Liu XS, Brown M. Coactivator function defines the active estrogen receptor alpha cistrome. Moll Cell Biol. 2009;29(12):3413-23. PMCID:PMC2698732.
    [Abstract] [Full Paper]
  • Shin H, Liu T, Manrai AK, Liu XS. CEAS: Cis-regulatory element annotation system. Bioinformatics 2009;25(19):2605-6.
    [Abstract] [Full Paper] [Software]
  • Wang X, Elling A, Li X, Li N, Peng Z, He G, Sun H, Qi Y, Liu XS, Deng XW. Genome-wide and organ-specific landscapes of epigenetic modifications and their relationships to mRNA and small RNA transcriptomes in maize. Plant Cell. 2009;21(4):1053-69. PMCID:PMC2685623.
    [Abstract] [Full Paper]
  • Wang Q, Li W, Zhang Y, Yuan X, et al., Kantoff PW, Liu XS*, Brown M*. Androgen receptor regulates a distinct transcription program in androgen-independent prostate cancer. Cell. 2009;138(2):245-56. *Joint corresponding authors. PMCID:PMC2726827.
    [Abstract] [Full Paper]
  • Xia X, Lemieux M, Li W, Carroll JS, Brown M, Liu X, Kung AL. Integrative analysis of HIF binding and transactivation reveals its role in maintaining histone methylation homeostatis. Proc Natl Acad Sci USA. 2009;106(11):4260-5. PMCID:PMC2657396.
    [Abstract] [Full Paper]
  • Zhang Y, Moqtaderi Z, Rattner B, Zhenhai Zhang Z, Euskirchen G, Snyder M, Kadonaga JT, Pugh BF, Liu XS, Struhl K. Intrinsic histone-DNA interactions are not the major determinant of nucleosome positions in vivo: evidence against a nucleosome code. Nat Struct Mol Biol. 2009;16(8):847-52. PMCID:PMC2823114.
    [Abstract] [Full Paper]

2008

  • Agoulnik IU, Bingman WE, Nakka M, Li W, Wang Q, Liu XS, Brown M, Weigel NL. Target gene specific regulation of androgen receptor activity by p42/p44 MAPK. Mol Endocrinol 2008; 22(11):2420-32. PMCID:PMC2582542.
    [Abstract] [Full Paper]
  • Gottardo R, Li W, Johnson WE, Liu XS. A flexible and powerful Bayesian hierarchical model for ChIP-chip experiments. Biometrics.2008; 64(2):468-78.
    [Abstract] [Full Paper]
  • Holmes KA, Song JS, Liu XS, Brown M, Carroll JS. Nkx3-1 and LEF-1 function as transcriptional inhibitors of Estrogen Receptor Activity. Cancer Res. 2008 Sep 15;68(18):7380-5.
    [Abstract] [Full Paper]
  • Johnson DS, Li W, et al., Struhl K, Myers RM, Lieb JD, Liu XS. Systematic evaluation of variability in ChIP-chip experiments using predefined DNA targets. Genome Res. 2008; 18(3):393-403. PMCID:PMC2259013.
    [Abstract] [Full Paper]
  • Lefterova M, Zhang Y, Steger DJ, Schupp M, Schug J, Cristancho A, Feng D, Zhuo D, Stoeckert CJ, Liu XS, Lazar MA. PPARgamma and C/EBP factors orchestrate adipocyte biology via adjacent binding on a genome-wide scale. Genes Dev 2008; 22:2941-2952. PMCID:PMC2577797.
    [Abstract] [Full Paper]
  • Li W, Carroll JS, Brown M, Liu XS. xMAN: extreme Mapping of OligoNucleotides. BIOCOMP ’07 (acceptance rate 27%). BMC Genomics 9 2008; (Suppl 1):S20. PMCID:PMC2386063.
    [Abstract] [Full Paper] [Software]
  • Lupien M, Eeckhoute J, Meyer CA, Wang Q, Zhang Y, Li W, Carroll JS, Liu XS, Brown M. FoxA1 translates epigenetic signatures into enhancer driven lineage-specific transcription. Cell 2008;132(6):958-70. PMCID:PMC2323438.
    [Abstract] [Full Paper]
  • Ozsolak F, Poling L, Wang Z, Liu H, Liu XS, Roeder RG, Zhang X, Song JS, Fisher DE. Chromatin structure analyses identify miRNA promoters. Genes Development 2008; 22(22):3172-83. PMCID:PMC2593607.
    [Abstract] [Full Paper]
  • Song J, Liu X, Liu XS, He X. A high-resolution map of nucelosome positioning on a fission yeast centromere. Genome Res. 2008, 18(7):1064-72. PMCID:PMC2493395.
    [Full Paper]
  • Stayrook KR, Savkur RS, Su C, Varga G, Bu X, Wei T, Nagpal S, Liu XS, Burris T. Regulation of human 3a-hydroxysteroid dehydrogenase (AKR1C4) gene expression by the liver X receptor a. Molecular Pharmacology 2008; 73(2):607-12. (cited by 4)
    [Abstract] [Full Paper]
  • Yagi S, Hirabayashi K, Sato S, Li W, Takahashi Y, Hirakawa T., Hattori N, Ohgane J, Tanaka S, Liu XS, Shiota K. DNA methaylation profile of tissue-dependent and differentially methylated regions (T-DMRs) in mouse promoter regions demonstrating tissue-specific gene expression. Genome Res 2008; 18(12):1969-78. PMCID:PMC2593572.
    [Abstract] [Full Paper]
  • Zhang Y*, Liu T*, Meyer CA, Eeckhoute J, Johnson DS, Bernstein B, Nusbaum C, Myers RM, Brown M, Li W, Liu XS. Model-based Analysis of ChIP-seq (MACS).Genome Biology 2008, 9(9) R137. PMCID:PMC2592715. *Joint first authors.
    [Abstract] [Full Paper] [Software]
  • Zhang Y*, Shin H*, Song JS, Lei Y, Liu XS. Identifying positioned nucleosomes with epigenetic marks in human from ChIP-Seq. BMC Genomics 2008; 9:537. PMCID:PMC2596141. *Joint first authors.
    [Abstract] [Full Paper] [Software]

2007

  • He H, Wang J, Liu T, Liu X, Li T, Wang Y, Qian Z, Zheng H, Zhu X, Wu T, Shi B, Deng W, Zhou W, Skogerbo G, Chen R. Mapping the C. elegans noncoding transcriptome with a whole genome tiling microarray. Genome Res. 14 (2007); 1471-1477.
    [Abstract] [Full Paper]
  • Litovchick L, Sadasivam S, Florens L, Zhu X, Swanson SK, Velmurugan S, Chen R, Washburn MP, Liu XS, DeCaprio JA. Evolutionally conserved multi-subunit RBL2/p130 and E2F4 protein complex represses human cell cycle-dependent genes in quiescence. Mol Cell 26 (2007) 539-51.
    [Abstract] [Full Paper]
  • Liu XS. Getting started in tiling microarray analysis. PLoS Comput Biol 2007; 3(10):1842-4.
    [Abstract] [Full Paper]
  • O’Neil J, Tchinda J, Gutierrez A, Moreau L, Maser R, Wong KK, Li W, KcKenna K, Liu X, Neuberg D, Silverman L, DeAngelo D, Kutok J, Rothstein R, DePinho R, Chin L, Lee C, Look AT. Tandem duplication as a novel mechanism of MYB activation in human T-ALL. J Exp Med (2007) 204(13):3059-66.
    [Abstract] [Full Paper]
  • Ozsolak F*, Song JS*, Liu XS#, Fisher DE#. High-throughput mapping of the chromatin structure of human promoters. Nat. Biotech. 25 (2007) 244-248. *Joint first authors; #Joint corresponding authors.
    [Abstract] [Full Paper]
  • Song JS, Johnson WE, Zhu X, Zhang X, Li W, Manrai AK, Liu JS, Chen R, Liu XS. Model based analysis for 2-color arrays (MA2C). Genome Biol. 8(8) R178.
    [Abstract] [Full Paper] [Software]
  • Song J, Maghsoudi K, Li W, Fox A, Quackenbush J and Liu XS. Microarray Blob-Defect Removal Improves Array Analysis. Bioinformatics 23 (2007) 966-971.
    [Abstract] [Full Paper] [Software]
  • Wang Q, Li W, Liu XS, Carroll JS, Janne OA, Keeton EK, Chinnaiyan AM, Pienta KJ and Brown M. A hierarchical network of transcription factors governs androgen receptor dependent prostate cancer growth. Mol. Cell 27(3):380-92 (2007).
    [Abstract] [Full Paper]

2006

  • Carroll JS, Meyer CA, Song J, Li W, Geistlinger TR, Eeckhoute J, Brodsky AS,KeetonEK, Fertuck KC,Hall GF, Wang Q, Bekiranov S, Sementchenko V, Fox EA, Silver PA, Gingeras TR, Liu XS*, Brown M*. Genome-wide analysis of estrogen receptor binding sites. Nat. Genet. 38 (2006) 1289-1297. *Joint corresponding authors.
    [Abstract] [Full Paper]
  • Ji X*, Li W*, Song J, Wei L, Liu XS. CEAS: cis-regulatory element annotation system. Nucleic Acids Res. 34 (2006) W551-554 *Joint first authors.
    [Abstract] [Full Paper] [Software]
  • Johnson WE*, Li W*, Meyer CA*, Gottardo R, Carroll JS, Brown M, Liu XS. MAT: Model-based analysis of tiling-arrays for ChIP-chip. Proc. Natl. Acad. Sci. USA 103 (2006) 12457-12462. *Joint first authors.
    [Abstract] [Full Paper] [Software]
  • Lieb JD, Beck S, Bulyk ML, Farnham P, Hattori N, Henikoff S, Liu XS, Okumura K, Shiota K, Ushijima T, Greally JM. Applying whole-genome studies of epigenetic regulation to study human disease. Cytogenet. Genome Res. 2006, 114:1-15.
    [Abstract] [Full Paper]
  • Nelson EA, Walker SR, Li W, Liu XS, Frank DA. Identification of Human STAT5-dependent Gene Regulatory Elements Based on Interspecies Homology.J. Biol. Chem. 281 (2006) 26216-26224.
    [Abstract] [Full Paper]
  • Palomero T, Odom DT, O’Neil J, Ferrando AA, Margolin A, Neuberg DS, Winter SS, Larson RS,Li W, Liu XS, Young RA, Look AT. Transcriptional regulatory networks downstream of TAL1/SCL in T-cell acute lymphoblastic leukemia. Blood 108 (2006) 986-992.
    [Abstract] [Full Paper]
  • Swinburn IA, Meyer CA, Liu XS, Silver PA, Brodsky AS. Genomic localization of RNA-binding proteins reveals links between pre-mRNA processing and transcription. Genome Res. 16 (2006) 912-921.
    [Abstract] [Full Paper]
  • Zhang Y, Liu XS, Liu Q, Wei L.Genome-wide in silico Identification and Analysis of cis Natural Antisense Transcripts (cis-NATs) in Ten Species. Nucleic Acids Res.34 (2006) 3465-3475.
    [Abstract] [Full Paper]

2005

  • Ben-Yehuda S, Jujita M, Liu XS, Gorbatyuk B, Skoko D, Yan J, Eichenberger P, Rudner DZ, Marko JF, Liu JS, Losick R. Defining a centromere-like element in Bacillus subtilis by identifying the binding sites for the chromosome-anchoring protein RacA. Mol. Cell 2005 Mar 18;17(6):773-82.
    [Abstract] [Full Paper]
  • Brodsky AS, Meyer CA, Hall G, Swinburne IA, Keenan BJ, Liu XS, Fox EA, Silver PA. Genomic mapping of RNA polymerase II reveals sites of co-transcriptional regulation in human cells. Genome Biology. 2005, 6(8):R64.
    [Abstract] [Full Paper]
  • Carroll JS, Liu XS, Brodsky AS, Li W, Meyer CA, Szary AJ, Shao W, Hestermann EV, Geistlinger TR, Fox EA, Silver PA, Brown M. Chromosome-wide mapping of estrogen receptor binding reveals long-range regulation requiring the forkhead protein FoxA1. Cell 2005, 122(1):33-43.
    [Abstract] [Full Paper]
  • Hong P, Liu XS, Zhou Q, Lu X, Liu JS, Wong WH. A boosting approach for motif modeling using ChIP-chip data. Bioinformatics 2005, 21(11):2636-43.
    [Abstract] [Full Paper]
  • Li W, Meyer CA, Liu XS. A hidden Markov model for analyzing ChIP-chip experiments on genome tiling arrays and its application to p53 binding sequences. ISMB2005. Bioinformatics 2005, 21 Suppl.1:i274-i282.
    [Abstract] [Full Paper] [Software]
  • Liu XS. Gibbs sampling and bioinformatics. Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics. John Wiley & Sons, Ltd, UK, 2005.ISBN: 0-470-84974-6.
    [Publication]

2004

  • Jensen ST, Liu XS, Zhou Q, Liu JS. Computational discovery of gene regulatory binding motifs: a Bayesian perspective. Statistical Science 2004, 19(1): 188-204.
    [Full Paper]
  • Liu Y*, Liu XS*, Wei L, Altman RB, Batzoglou S. Eukaryotic regulatory element conservation analysis and identification using comparative genomics. Genome Res. 2004, 14(3):451-8. *Joint first authors.
    [Abstract] [Full Paper] [Software]
  • Liu Y, Wei L, Batzoglou S, Brutlag DL, Liu JS, Liu XS. A suite of web-based programs to search for transcriptional regulatory motifs. Nucleic Acids Res. 2004, 32(Web Server Issue):W204-W207.
    [Abstract] [Full Paper]
  • Yildiz FH, Liu XS , Heydorn A, Schoolnik GK. Molecular Analysis of Rugosity in a Vibrio cholerae O1 El Tor phase variant. Mol. Microbiol. 2004, Jul;53(2):497-515.
    [Abstract] [Full Paper]

2003

  • Conlon EM*, Liu XS*, Lieb JD, Liu JS. Integrating regulatory motif discovery and genome-wide expression analysis. Proc. Natl. Acad. Sci. USA 2003, 100(6):3339-44. *Joint first authors.
    [Abstract] [Full Paper] [Software]

2002

  • Liu XS*, Brutlag DL, Liu JS. An algorithm for finding protein-DNA binding sites with applications to chromatin immunoprecipitation microarray experiments. Nat. Biotech. 2002, 20(8):835-9. *Liu X added middle name Shirley.
    [Abstract] [Full Paper] [Software]
  • Liu JS, Gupta M, Liu X, Mayerhofere L, Lawrence CE. Statistical models for biological sequence motif discovery. Case Studies in Bayesian Statistics, IV, 2002, Springer-Verlag, New York.
    [Full Paper]

2001

  • Lieb JD, Liu X, Botstein D, Brown PO. Promoter-specific binding of Rap1 revealed by genome-wide maps of protein-DNA association. Nat. Genet. 2001, 28(4):327-34.
    [Abstract] [Full Paper]
  • Liu X, Brutlag DL, Liu JS. BioProspector: discovering conserved DNA motifs in upstream regulatory regions of co-expressed genes. Proc. Pac. Symp. Biocomput.2001:127-38.
    [Abstract] [Full Paper] [Software]

1999

  • Dugan JM, Berrios DC, Liu X, Kim DK, Kaizer H, Fagan LM. Automation and integration of components for generalized semantic markup of electronic medical texts. Proc. AMIA Symp. 1999:736-40.
    [Full Paper]
  • Fischer P, Liu X, Lizotte-Waniewski M, Kamal IH, Ramzy RM, Williams SA. Development of a quantitative, competitive polymerase chain reaction-enzyme-linked immunosorbent assay for the detection of Wuchereria bancrofti DNA. XParasitol Res. 1999,85(3):176-83.
    [Full Paper]

1998

  • Liu X, Altman RB. Updating a bibliography using the related articles function within PubMed. Proc. AMIA Symp. 1998:750-4.
    [Abstract] [Full Paper]