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| Yuliya V. Karpievitch |
| Lead Biostatisticain | |
| Caprion Proteomics, Menlo Park, US | |
| My Ph. D is from the Medical University of South Carolina (MUSC) . I spent my last 1.5 years of gradute work at the M. D. Anderson Cancer Center in Houston TX working with Jonas S. Almeida and Elizabeth G. Hill. I spent 2.5 years as a postdoc in Alan Dabney's group at the Department of Statistics at Texas A&M University as part of the Bioinformatics Traning Grant. I realocated to PNNL in January of 2010. I moved to Caprion where I work as a biostatistian (and sometimes bioinformatician). My research is in the area of computational/quantitative proteomics. As part of main analysis at Caprion I design experimets, perform normalization, missing value imputations and significance analyses. We as a group first do sample profiling with MS, I then determine what ions are differentially expressed and we follow up with selecting MRM transitions and doing MRM experimets to identify peptides and subsequently proteins involved in disease. |
Andreev VP, Petyuk VA, Karpievitch YV, Clarke J, Camp DG, Smith RD, Lieberman A, Albin R, Myers AJ. Quantitative Proteomics reveals 197 Proteins with Significantly Altered Abundances in Cortical Samples of Alzheimer's Disease versus Normally Aged Human Brains. Molecular Psychiatry (submitted).
Stanley J, Adkins JN, Slysz GW, Monroe ME, Purvine SO, Karpievitch YV, Anderson GA, Smith RD, Dabney AR. A Statistical Method for Assessing Peptide Identification Confidence in Accurate Mass and Time Tag Proteiomics. Analytical Chemistry, 2011, July 15 (epub).
Karpievitch YV, Polpitiya AD, Anderson GA, Smith RD, Dabney AR (2010) Liquid Chromatography Mass Spectrometry-Based Proteomics: Biological and Technical Aspects. Anals of Applied Statistics.
Karpievitch YV, Hill EG, Leclerc AP, Dabney AR, Almeida JS (2009) An introspective comparison of random forest-based classifiers for the analysis of cluster-correlated data by way of RF++. PLoS One, 4(9):e7087.
Karpievitch YV, Taverner T, Adkins JN, Callister SJ, Anderson GA, Smith RD, Dabney AR (2009) Normalization of peak intensities in bottom-up MS-based proteomics using singular value decomposition. Bioiformatics 2009, 25(19):2573-80. Epub 2009 Jul 14. [DAnTE]
Karpievitch YV, Stanley J, Taverner T, Huang J, Adkins J, Ansong C, Hefron F, Metz TO, Quan W-J, Yoon H, Smith RD, Dabney AR. A Statistical Framework for Protein Quantitation in Bottom-Up MS-Based Proteomics. Bioinformatics 2009, 25(16):2028-34. [DAnTE]
Karpievitch YV, Hill EG, Smolka AJ, Morris JS, Coombes KR, Baggerly KA, Almeida JS. PrepMS: TOF MS data graphical preprocessing tool. Bioinformatics. 2007 Jan 15;23(2):264-5. Epub 2006 Nov 22.
Karpievitch YV, Almeida JS. mGrid: a load-balanced distributed computing environment for the remote execution of the user-defined Matlab code. BMC Bioinformatics. 2006 Mar 15;7:139.
Barcelona Science Park, September 2010. Title: "Missing Values in Shotgun
Proteomics Data Analysis"
Joint Statistical Meeting (JSM), Vancouver, Canada 2010. Title: "Normalization
and Missing Value Imputation for Proteomics Analysis"
Purdue University, Department of Statistics, October 2010. Title: "Shotgun Proteomic Data Analysis and Statistical Approaches to Protein Quantification"
Towers of Hanoi execution time in C++ vs. Matlab. What a difference!
Here is how is works
Courses I taught at the Computer Science Department, College of Charleston
e-mail: yuliya DOT k AT gmail DOT com