BBS Faculty Member - Peter Park

Peter Park

HMS Center for Biomedical Informatics
Informatics Program, Children's Hospital Boston
Division of Genetics, Brigham and Women's Hospital


Harvard Medical School
Countway Library Room 318
10 Shattuck St.
Boston, MA 02115
Tel: 617-432-7373
Fax: 617-432-0693
Email: peter_park@harvard.edu
Lab Members: 13 postdoctoral fellows, 3 graduate students, 2 bioinformatics analysts
Visit my lab page here.



Statistical Analysis of Genomic Data
Our methodological interest is in development of computational techniques for integrative analysis of genomic data sets. We have worked extensively on analysis of data from microarray-based technologies in the past, and we now focus on data from next-generation sequencing technology. We are particularly interested in ChIP-sequencing for detecting DNA-protein interactions and whole-genome sequencing to characterize copy number and structural variations. Careful analysis includes proper processing, detection of relevant feature in the data by application of appropriate statistical methods, and proper estimation of their statistical significance. For a BBS student with a strong quantitative background, joint thesis supervision with an experimentalist is an option.

Epigenomics
Our biological focus is on chromatin structure and its relationship to gene regulation. In collaboration with several laboratories, we have profiled a number of histone modifications as well as gene expression and nucleosome positions in several model systems. We are also involved in a model organism ENCODE project in which we are mapping more than a hundred chromatin-associated proteins and histone modifications in several tissues and developmental stages of Drosophila. By computational and statistical analysis of these data, we aim to uncover the principles behind chromatin organization and epigenetic mechanisms. We are also involved in the Cancer Genome Atlas project to comprehensively characterize genomic features of multiple tumor types.



Last Update: 8/22/2013



Publications

For a complete listing of publications click here.

 


 

Lee E, Iskow R, Yang L, Gokcumen O, Haseley P, Luquette LJ 3rd, Lohr JG, Harris CC, Ding L, Wilson RK, Wheeler DA, Gibbs RA, Kucherlapati R, Lee C,Kharchenko PV*, Park PJ*, The Cancer Genome Atlas Research Network (2012), Landscape of Somatic Retrotransposition in Human Cancers, Science, June 28 [epub]

Kharchenko PV, Alekseyenko AA, Schwartz YB, Minoda A, Riddle NC, Ernst J, Sabo PJ, Larschan E, Gorchakov AA, Gu T, Linder-Basso D, Plachetka A, Shanower G, Tolstorukov MY, Luquette LJ, Xi R, Jung YL, Park RW, Bishop EP, Canfield TP, Sandstrom R, Thurman RE, MacAlpine DM, Stamatoyannopoulos JA, Kellis M, Elgin SCR, Kuroda MI, Pirrotta V, Karpen GH*, Park PJ* (2011). Comprehensive analysis of the chromatin landscape in Drosophila melanogaster,
Nature, 471:480-5.

Tolstorukov MY, Volfovsky N, Stephens RM, Park PJ (2011). Impact of chromatin structure on sequence variability in the human genome,
Nature Structural & Molecular Biology, 18:510-5.

Park PJ. (2009) ChIP-seq: advantages and challenges of a maturing technology,
Nature Reviews Genetics , 10:669-80



© 2013 by the President and Fellows of Harvard College