Vincent J. Carey, PhD
Brigham And Women's Hospital
Brigham And Women's Hospital
Phone: (617) 525-2265
Fax: (617) 525-2008
Vincent J. Carey, PhD
Brigham And Women's Hospital
EDUCATIONAL TITLES
DF/HCC PROGRAM AFFILIATION
Publications from Harvard Catalyst Profiles
- Lê Cao KA, Abadi AJ, Davis-Marcisak EF, Hsu L, Arora A, Coullomb A, Deshpande A, Feng Y, Jeganathan P, Loth M, Meng C, Mu W, Pancaldi V, Sankaran K, Singh A, Sodicoff JS, Stein-O'Brien GL, Subramanian A, Welch JD, You Y, Argelaguet R, Carey VJ, Dries R, Greene CS, Holmes S, Love MI, Ritchie ME, Yuan GC, Culhane AC, Fertig E. Community-wide hackathons to identify central themes in single-cell multi-omics. Genome Biol 2021; 22:220. PubMed
- Carey VJ, Ramos M, Stubbs BJ, Gopaulakrishnan S, Oh S, Turaga N, Waldron L, Morgan M. Global Alliance for Genomics and Health Meets Bioconductor: Toward Reproducible and Agile Cancer Genomics at Cloud Scale. JCO Clin Cancer Inform 2020; 4:472-479. PubMed
- Ramos M, Geistlinger L, Oh S, Schiffer L, Azhar R, Kodali H, de Bruijn I, Gao J, Carey VJ, Morgan M, Waldron L. Multiomic Integration of Public Oncology Databases in Bioconductor. JCO Clin Cancer Inform 2020; 4:958-971. PubMed
- Su S, Carey VJ, Shepherd L, Ritchie M, Morgan MT, Davis S. BiocPkgTools: Toolkit for mining the package ecosystem. F1000Res 2019; 8:752. PubMed
- Wang J, Heng YJ, Eliassen AH, Tamimi RM, Hazra A, Carey VJ, Ambrosone CB, de Andrade VP, Brufsky A, Couch FJ, King TA, Modugno F, Vachon CM, Hunter DJ, Beck AH, Hankinson SE. Alcohol consumption and breast tumor gene expression. Breast Cancer Res 2017; 19:108. PubMed
- Kannan L, Ramos M, Re A, El-Hachem N, Safikhani Z, Gendoo DM, Davis S, Gomez-Cabrero D, Castelo R, Hansen KD, Carey VJ, Morgan M, Culhane AC, Haibe-Kains B, Waldron L. Public data and open source tools for multi-assay genomic investigation of disease. 2015. PubMed
- Vázquez Ede L, Carey VJ, Kaye KM. Identification of Kaposi's sarcoma-associated herpesvirus LANA regions important for episome segregation, replication, and persistence. J Virol 2013; 87:12270-83. PubMed
- Shioda T, Rosenthal NF, Coser KR, Suto M, Phatak M, Medvedovic M, Carey VJ, Isselbacher KJ. Expressomal approach for comprehensive analysis and visualization of ligand sensitivities of xenoestrogen responsive genes. Proc Natl Acad Sci U S A 2013; 110:16508-13. PubMed
- Lawrence M, Huber W, Pagès H, Aboyoun P, Carlson M, Gentleman R, Morgan MT, Carey VJ. Software for computing and annotating genomic ranges. PLoS Comput. Biol. 2013; 9:e1003118. PubMed
- Wan ES, Qiu W, Baccarelli A, Carey VJ, Bacherman H, Rennard SI, Agusti A, Anderson W, Lomas DA, Demeo DL. Cigarette smoking behaviors and time since quitting are associated with differential DNA methylation across the human genome. Hum Mol Genet 2012; 21:3073-82. PubMed
- Murphy A, Chu JH, Xu M, Carey VJ, Lazarus R, Liu A, Szefler SJ, Strunk R, Demuth K, Castro M, Hansel NN, Diette GB, Vonakis BM, Franklin Adkinson N, Klanderman BJ, Senter-Sylvia J, Ziniti J, Lange C, Pastinen T, Raby BA. Mapping of numerous disease-associated expression polymorphisms in primary peripheral blood CD4+ lymphocytes. Hum Mol Genet 2010; 19:4745-57. PubMed
- Kho AT, Bhattacharya S, Tantisira KG, Carey VJ, Gaedigk R, Leeder JS, Kohane IS, Weiss ST, Mariani TJ. Transcriptomic analysis of human lung development. Am J Respir Crit Care Med 2010; 181:54-63. PubMed
- Lawrence M, Gentleman R, Carey V. rtracklayer: an R package for interfacing with genome browsers. Bioinformatics 2009; 25:1841-2. PubMed
- Carey VJ,Davis AR,Lawrence MF,Gentleman R,Raby BA. Data structures and algorithms for analysis of genetics of gene expression with Bioconductor: GGtools 3.x. Bioinformatics 2009; 25:1447-8. PubMed
- Chu JH,Weiss ST,Carey VJ,Raby BA. A graphical model approach for inferring large-scale networks integrating gene expression and genetic polymorphism. BMC Syst Biol 2009; 3:55. PubMed
- Foudi A,Hochedlinger K,Van Buren D,Schindler JW,Jaenisch R,Carey V,Hock H. Analysis of histone 2B-GFP retention reveals slowly cycling hematopoietic stem cells. Nat Biotechnol 2009; 27:84-90. PubMed
- Carey VJ, Gentleman R. Interpreting genetics of gene expression: integrative architecture in Bioconductor. Pac Symp Biocomput 2009. PubMed
- Asare AL,Gao Z,Carey VJ,Wang R,Seyfert-Margolis V. Power enhancement via multivariate outlier testing with gene expression arrays. Bioinformatics 2009; 25:48-53. PubMed
- Ben-Porath I, Thomson MW, Carey VJ, Ge R, Bell GW, Regev A, Weinberg RA. An embryonic stem cell-like gene expression signature in poorly differentiated aggressive human tumors. Nat Genet 2008; 40:499-507. PubMed
- Carey VJ, Gentry J, Sarkar R, Gentleman D, Ramaswamy S. SGDI: system for genomic data integration. Pac Symp Biocomput 2008. PubMed
- Tishler PV, Carey VJ. Can comparison of MZ- and DZ-twin concordance rates be used invariably to estimate heritability? Twin Res Hum Genet 2007; 10:712-7. PubMed
- Tarca AL, Carey VJ, Chen XW, Romero R, Draghici S. Machine learning and its applications to biology. PLoS Comput Biol 2007; 3:e116. PubMed
- Carey VJ, Morgan M, Falcon S, Lazarus R, Gentleman R. GGtools: analysis of genetics of gene expression in bioconductor. Bioinformatics 2007; 23:522-3. PubMed
- Bilban M, Heintel D, Scharl T, Woelfel T, Auer MM, Porpaczy E, Kainz B, Kröber A, Carey VJ, Shehata M, Zielinski C, Pickl W, Stilgenbauer S, Gaiger A, Wagner O, Jäger U,. Deregulated expression of fat and muscle genes in B-cell chronic lymphocytic leukemia with high lipoprotein lipase expression. Leukemia 2006; 20:1080-8. PubMed
- Hufnagel M, Carey VJ, Baldassarri L, Reinert RR, Huebner J. Distribution of four capsular serotypes of Enterococcus faecalis among clinical isolates from different geographical origins and infection sites. Infection 2006; 34:22-5. PubMed
- Reimers M, Carey VJ. Bioconductor: an open source framework for bioinformatics and computational biology. Methods Enzymol 2006; 411:119-34. PubMed
- Carey VJ, Bishop L, Charleston J, Conlin P, Erlinger T, Laranjo N, McCarron P, Miller E, Rosner B, Swain J, Sacks FM, Appel LJ. Rationale and design of the Optimal Macro-Nutrient Intake Heart Trial to Prevent Heart Disease (OMNI-Heart). Clin Trials 2005; 2:529-37. PubMed