Peter Park

Peter Park, PhD

Professor of Biomedical Informatics
Director, Bioinformatics and Integrative Genomics (BIG) PhD Track

10 Shattuck Street, Boston, MA 02115

Park Lab

Dr. Park is a Professor of Biomedical Informatics at Harvard Medical School and the director of its Bioinformatics and Integrative Genomics PhD program. His research group specializes in computational and statistical analysis of large-scale DNA sequencing data to understand genetic and epigenetic mechanisms related to disease processes. Originally trained in applied mathematics (B.A., Harvard; Ph.D., Caltech), he was introduced to molecular biology and genetics during his postdoctoral studies in biostatistics. His laboratory has developed several algorithms for identifying and interpreting genomic alterations in the human genome, especially those from cancer patients. His group has made major contributions to many consortium projects such as The Cancer Genome Atlas (TCGA), Encyclopedia of DNA Elements (ENCODE), and Brain Somatic Mosaicism Network, and 4D Nucleome, and Somatic Mosaicism across Human Tissues (SMaHT). His work has been funded by the National Institutes of Health, Cancer Research UK Grand Challenges, The Mark Foundation for Cancer Research, Simons Foundation, Chan Zucherberg Initiative, Blavatnik Therapeutics Challenge, the HMS Quadrangle Fund for Advancing and Seeding Translational Research (Q-FASTR), and others.


DBMI Research Areas
DBMI Courses
Diploid donor-specific assembly enhances somatic structural variant detection in cancer genomes.
Authors: Zhang Y, Qu H, Qin Q, Li H, Park PJ.
bioRxiv
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Systematic artifacts from Illumina two-color chemistry confound variant identification and actionability in clinical panels.
Authors: Jin H, Andreopoulos M, Viswanadham VV, Park PJ.
medRxiv
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The Data Distillery: A Graph Framework for Semantic Integration and Querying of Biomedical Data.
Authors: Ahooyi TM, Stear B, Simmons JA, Metzger VT, Kumar P, Evangelista JE, Clarke DJB, Xie Z, Kim H, Jenkins SL, Maurya MR, Ramachandran S, Fahy E, Gillespie TH, Imam FT, Kokash N, Roth ME, Fullem R, Jevtic D, Mihajlovic A, Tiemeyer M, Bakker C, Schroeder AJ, Markowski J, Nedzel J, Hill DD, Terry J, Nemarich C, Boline J, Park PJ, Ardlie KG, Vora J, Mazumder R, Ranzinger R, de Bono B, Subramaniam S, Grethe JS, Yang JJ, Lambert CG, Resnick A, Milosavljevic A, Ma'ayan A, Silverstein JC, Taylor DM.
bioRxiv
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Comprehensive benchmarking of somatic single-nucleotide variant and indel detection at ultra-low allele fractions using short- and long-read data.
Authors: Jiny Ha YJ, Maziec D, Markowski J, Georges SJ, Parmalee NL, Berselli M, Coorens THH, Dong S, Gardiner S, Kalra D, Li D, Miao B, Musunuri R, Xue L, Yu Z, Walker K, Anderson L, Au NYT, Cibulskis C, Doddapaneni H, Grochowski CM, Jensen DM, Lindsay T, Loy K, Narayan A, Narzisi G, Ou J, Pham MM, Runnels AM, Stergachis AB, Sutherlin LM, Wang T, Jin H, Feng WC, Zhang Y, Veit AD, TaeHee Kim C, Chun HE, Ardlie K, Fulton RS, Germer S, Gibbs R, Marth GT, Bennett JT, Park PJ.
bioRxiv
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Tissue specificity and chromosomal alterations shape divergent immune programs in HRD tumors.
Authors: Gulhan DC, Barras D, Mina M, Ghisoni E, Kim YN, Viswanadham V, Jin H, Huber F, Homicsko K, Bassani-Sternberg M, Ciriello G, Park PJ, Dangaj Laniti D.
bioRxiv
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Application of Weighted Interaction-Fingerprints for Rationalizing Neosubstrate Potency and Selectivity of Cereblon-Based Molecular Glues.
Authors: Luchini G, Liu S, Powers HL, Cherney E, Zhu J, Danga K, Thompson JW, Shi L, Pagarigan B, Wei DD, Park P, Degnan AP, Zapf CW, Riggs JR, Johnson S, Cummins T.
J Med Chem
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Multi-platform framework for mapping somatic retrotransposition in human tissues.
Authors: Wang S, Bae M, Wang J, Zhao B, Nguyen K, Mallett S, Switzenberg JA, Losh SJ, Sexton CE, Miao B, Dong S, Zeng X, Wang Z, McDonald TL, Mumm C, Gadde RK, Tariq AM, Chen Z, Feng WC, Burn A, Park J, Chu C, Shen H, Wang T, Urban AE, Zhu X, Li H, Burns KH, Chun HE, Park PJ, Boyle AP, Mills RE, Zhou W, Lee EA.
bioRxiv
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A recurrent sequencing artifact on Illumina sequencers with two-color fluorescent dye chemistry and its impact on somatic variant detection.
Authors: Fu BJ, Viswanadham VV, Maziec D, Jin H, Park PJ.
bioRxiv
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Comprehensive benchmarking of somatic structural variant detection at ultra-low allele fractions.
Authors: Zhang Y, English AC, Paulin LF, Grochowski CM, Maheshwari S, Mack T, Berselli M, Veit AD, Fu Y, Park PJ, Sedlazeck FJ.
bioRxiv
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FAIR sharing of Chromatin Tracing datasets using the newly developed 4DN FISH Omics Format.
Authors: Navelkar R, Cosolo A, Bintu B, Cheng Y, Gardeux V, Gutnik S, Fujimori T, Hafner A, Jay A, Jia BB, Jussila AP, Llimos G, Lioutas A, Martins NMC, Moore WJ, Takei Y, Wong F, Yang K, Zhang H, Zhu Q, Bienko M, Bintu L, Cai L, Deplancke B, Nollmann M, Mango SE, Ren B, Park PJ, Sawh AN, Schroeder A, Swedlow JR, Vahedi G, Wu CT, Aufmkolk S, Boettiger AN, Farabella I, Strambio-De-Castillia C, Wang S.
ArXiv
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