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Louie RJ, Guo J, Rodgers JW, White R, Shah N, Pagant S, Kim P, Livstone M, Dolinski K, McKinney BA, Hong J, Sorscher EJ, Bryan J, Miller EA, Hartman JL 4th. A yeast phenomic model for the gene interaction network modulating F508del-CFTR protein biogenesis. Genome Med. 2012 Dec 27;4(12):103. doi:10.1186/gm404 | PMID: 23270647 | Research Highlight: Flirting with CFTR modifier genes at happy hour via Genome Medicine or PMID: 23270638 | Highly Accessed

McLellan JL, O'Neil NJ, Barrett I, Ferree E, van Pel DM, Ushey K, Sipahimalani P, Bryan J, Rose AM, Hieter P. Synthetic Lethality of Cohesins with PARPs and Replication Fork Mediators. PLoS Genet. 2012 Mar;8(3):e1002574. doi:10.1371/journal.pgen.1002574 | PMID: 22412391

Kennedy MA, Kabbani N, Lambert JP, Swayne LA, Ahmed F, Figeys D, Bennett SA, Bryan J, Baetz K. Srf1 Is a Novel Regulator of Phospholipase D Activity and Is Essential to Buffer the Toxic Effects of C16:0 Platelet Activating Factor. PLoS Genet. 2011 Feb 10;7(2):e1001299. doi:10.1371/journal.pgen.1001299 | PMID: 21347278

Kokel D, Bryan J, Laggner C, White R, Cheung CY, Mateus R, Healey D, Kim S, Werdich A, Haggarty S, MacRaeC, Shoichet B & Peterson R (2010). Rapid behavior-based identification of neuroactive small molecules in the zebrafish. Nat Chem Biol. 2010 Mar;6(3):231-237. Supplementary Information (incl. videos) | doi:10.1038/nchembio.307 | PMID: 20081854 | News & Views coverage | rated “Must Read” by the Faculty of 1000

McLellan J, O'Neil N, Tarailo S, Stoepel J, Bryan J, Rose A, Hieter P. Synthetic Lethal Genetic Interactions that Decrease Somatic Cell Proliferation in C. elegans Identify the Alternative RFCCTF18 as a Candidate Cancer Drug Target. Mol Biol Cell. 2009 Dec;20(24):5306-13. doi:10.1091/mbc.E09-08-0699 | PMID: 19846659 | featured in Dec 2009 InCytes from MBC

Brumm, J, Conibear, E, Wasserman, WW, Bryan, J. Discovery and Expansion of Gene Modules by Seeking Isolated Groups in a Random Graph Process. PLoS One. 2008;3(10):e3358. doi:10.1371/journal.pone.0003358 | PMID: 18843375

Schluter C, Lam KK, Brumm J, Wu BW, Saunders M, Stevens TH, Bryan J*, Conibear E*, *joint corresponding authors. Global Analysis of Yeast Endosomal Transport Identifies the Vps55/68 Sorting Complex. Mol Biol Cell. 2008 Apr;19(4):1282-94. Web Supplement | doi:10.1091/mbc.E07-07-0659 | PMID: 18216282 | Recommended by the Faculty of 1000 | featured in Apr 2008 InCytes from MBC

Marks VD, Ho Sui SJ, Erasmus D, van der Merwe GK, Brumm J, Wasserman WW, Bryan J, van Vuuren HJ. Dynamics of the yeast transcriptome during wine fermentation reveals a novel fermentation stress response. FEMS Yeast Res. 2008 Feb;8(1):35-52. doi:10.1111/j.1567-1364.2007.00338.x | PMID: 18215224

Konorov SO, Glover CH, Piret JM, Bryan J, Schulze HG, Blades MW, Turner RF. In situ analysis of living embryonic stem cells by coherent anti-stokes Raman microscopy. Anal Chem. 2007 Sep 15;79(18):7221-5. doi:10.1021/ac070544k | PMID: 17691751

Kavoosi M, Lam D, Bryan J, Kilburn DG, Haynes CA. Mechanically stable porous cellulose media for affinity purification of family 9 cellulose-binding module-tagged fusion proteins. J Chromatogr A. 2007 Dec 21;1175(2):187-96. doi:10.1016/j.chroma.2007.07.082 | PMID: 18023448

Mayor T, Graumann J, Bryan J, MacCoss MJ, Deshaies RJ. Quantitative profiling of ubiquitylated proteins reveals proteasome substrates and the substrate repertoire influenced by the Rpn10 receptor pathway. Mol Cell Proteomics. 2007 Nov;6(11):1885-95. doi:10.1074/mcp.M700264-MCP200 | PMID: 17644757

Glover CH, Marin M, Eaves CJ, Helgason CD, Piret JM, Bryan J. Meta-analysis of differentiating mouse embryonic stem cell gene expression kinetics reveals early change of a small gene set. PLoS Comput Biol. 2006 Nov 24;2(11):e158. Web Supplement | doi:10.1371/journal.pcbi.0020158 | PMID: 17121458

Mookherjee N, Brown KL, Bowdish DM, Doria S, Falsafi R, Hokamp K, Roche FM, Mu R, Doho GH, Pistolic J, Powers JP, Bryan J, Brinkman FS, Hancock RE. Modulation of the TLR-mediated inflammatory response by the endogenous human host defense peptide LL-37. J Immunol. 2006 Feb 15;176(4):2455-64. PMID: 16456005

Hsiao WW, Ung K, Aeschliman D, Bryan J, Finlay BB, Brinkman FS. Evidence of a large novel gene pool associated with prokaryotic genomic islands. PLoS Genet. 2005 Nov;1(5):e62. doi:10.1371/journal.pgen.0010062 | PMID: 16299586 | Recommended by the Faculty of 1000

Baetz K, McHardy L, Gable K, Tarling T, Rebérioux D, Bryan J, Andersen RJ, Dunn T, Hieter P, Roberge M. Yeast genome-wide drug-induced haploinsufficiency screen to determine drug mode of action. Proc Natl Acad Sci U S A. 2004 Mar 30;101(13):4525-30. doi:10.1073/pnas.0307122101 | PMID: 15070751

Bryan, J. Problems in gene clustering based on gene expression data. Journal of Multivariate Analysis 90, 44-66 (2004). In the Special Issue on Multivariate Methods in Genomic Data Analysis. doi:10.1016/j.jmva.2004.02.011 | article

Hokamp K, Roche FM, Acab M, Rousseau ME, Kuo B, Goode D, Aeschliman D, Bryan J, Babiuk LA, Hancock RE, Brinkman FS. ArrayPipe: a flexible processing pipeline for microarray data. Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W457-9. doi:10.1093/nar/gkh446 | PMID: 15215429

Bryan J, Yu Z, Van Der Laan MJ. Analysis of longitudinal marginal structural models. Biostatistics. 2004 Jul;5(3):361-80. doi:10.1093/biostatistics/kxg041 | PMID:15208200 | reprint

van der Laan, MJ, Pollard, KS, Bryan, J. A New Partitioning Around Medoids Algorithm. Journal of Statistical Computation and Simulation, 73(8), pp.575-584. doi:10.1080/0094965031000136012

Bryan, J, Pollard, KS, van der Laan, MJ. Paired and Unpaired Comparison and Clustering with Gene Expression Data. Statistica Sinica 12(2002),87-110. Article

van der Laan MJ, Bryan J. Gene expression analysis with the parametric bootstrap. Biostatistics. 2001 Dec;2(4):445-61. doi:10.1093/biostatistics/2.4.445 | PMID: 12933635 | Reprint

Bryan, J., Sun, R. Temporal trendsin survival after AIDS in California, 1985 - 1994. California HIV/AIDS Update 1998 April; 11: 28-29.