Peter J. Park

发表

A user’s guide to the online resources for data exploration, visualization, and discovery for the Pan-Cancer Analysis of Whole Genomes project (PCAWG)

Mary Goldman, Junjun Zhang, Nuno A. Fonseca, 2019 .

EMSAR: estimation of transcript abundance from RNA-seq data by mappability-based segmentation and reclustering

Sanghyuk Lee, Peter J. Park, Soohyun Lee, 2015, BMC Bioinformatics.

Standard for improving emergency information interoperability: the HL7 data elements for emergency department systems

Peter J. Park, James C. McClay, Mark G. Janczewski, 2015, J. Am. Medical Informatics Assoc..

Integrative analysis reveals the direct and indirect interactions between DNA copy number aberrations and gene expression changes

Peter J. Park, Hyunju Lee, Sek Won Kong, 2008, Bioinform..

Functional Relationships Between Gene Pairs in Oral Squamous Cell Carcinoma

Peter J. Park, Mark Whipple, Winston Patrick Kuo, 2003, AMIA.

A multivariate approach for integrating genome-wide expression data and biological knowledge

Peter J. Park, Sek Won Kong, William T. Pu, 2006, Bioinform..

CGHweb: a tool for comparing DNA copy number segmentations from multiple algorithms

Peter J. Park, Weil R. Lai, Vidhu Choudhary, 2008, Bioinform..

Comparing expression profiles of genes with similar promoter regions

Peter J. Park, Atul J. Butte, Isaac S. Kohane, 2002, Bioinform..

Power comparisons for disease clustering tests

Peter J. Park, Toshiro Tango, Martin Kulldorff, 2003, Comput. Stat. Data Anal..

Genomic basis for RNA alterations in cancer

Mary Goldman, Nuno A. Fonseca, Brian Craft, 2020, Nature.

nuScore: a web-interface for nucleosome positioning predictions

Peter J. Park, Wilma K. Olson, Victor Zhurkin, 2008, Bioinform..

Analyses of non-coding somatic drivers in 2,658 cancer whole genomes

Jun Yu, Chen Hong, Ken Chen, 2020, Nature.

chipchipnorm: normalization for chip-chip data

Peter J. Park, Jonathan M. Dreyfuss, Shouyong Peng, 2009 .

CrossChip: a system supporting comparative analysis of different generations of Affymetrix arrays

Byoung-Tak Zhang, Peter J. Park, Isaac S. Kohane, 2005, Bioinform..

hiHMM: Bayesian non-parametric joint inference of chromatin state maps

Peter J. Park, Kyung-Ah Sohn, Djordje Djordjevic, 2015, Bioinform..

Tibanna: software for scalable execution of portable pipelines on the cloud

Peter J. Park, Jeremy Johnson, Soohyun Lee, 2018, bioRxiv.

Normalization and experimental design for ChIP-chip data

Peter J. Park, Shouyong Peng, Artyom A. Alekseyenko, 2007, BMC Bioinformatics.

The 4D Nucleome Project

Peter J. Park, Sheng Zhong, Jay Shendure, 2017 .

Comparative analysis of algorithms for identifying amplifications and deletions in array CGH data

Peter J. Park, Weil R. Lai, Mark D. Johnson, 2005, Bioinform..

Combining gene expression data from different generations of oligonucleotide arrays

Peter J. Park, Steven A. Greenberg, Sek Won Kong, 2004, BMC Bioinformatics.

Nozzle: a report generation toolkit for data analysis pipelines

Peter J. Park, Nils Gehlenborg, Gad Getz, 2013, Bioinform..

HiGlass: Web-based visual comparison and exploration of genome interaction maps

Peter J. Park, Hanspeter Pfister, Peter Kerpedjiev, 2017 .

A permutation test for determining significance of clusters with applications to spatial and gene expression data

Peter J. Park, Marcello Pagano, Marco Bonetti, 2009, Comput. Stat. Data Anal..

Gene expression levels in different stages of progression in oral squamous cell carcinoma

Lucila Ohno-Machado, Peter J. Park, Tor-Kristian Jenssen, 2002, AMIA.

StratomeX: Visual Analysis of Large‐Scale Heterogeneous Genomics Data for Cancer Subtype Characterization

Dieter Schmalstieg, Peter J. Park, Christian Partl, 2012, Comput. Graph. Forum.

HiTea: a computational pipeline to identify non-reference transposable element insertions in Hi-C data

Peter J. Park, Chong Chu, Soohyun Lee, 2020, bioRxiv.

rSW-seq: Algorithm for detection of copy number alterations in deep sequencing data

Peter J. Park, Tae-Min Kim, Ruibin Xi, 2010, BMC Bioinformatics.

A Nonparametric Scoring Algorithm for Identifying Informative Genes from Microarray Data

Peter J. Park, Marcello Pagano, Marco Bonetti, 2000, Pacific Symposium on Biocomputing.

The HL7 Standards-Based Model of Emergency Care Information

Peter J. Park, James C. McClay, Laura Heermann Langford, 2013, MedInfo.

Evaluation of somatic copy number estimation tools for whole-exome sequencing data

Peter J. Park, Sang Cheol Kim, Ruibin Xi, 2016, Briefings Bioinform..

Corrigendum: The 4D nucleome project

Peter J. Park, Sheng Zhong, Jay Shendure, 2017, Nature.

Quantized correlation coefficient for measuring reproducibility of ChIP-chip data

Peter J. Park, Shouyong Peng, Mitzi I. Kuroda, 2010, BMC Bioinformatics.

Integration of heterogeneous expression data sets extends the role of the retinol pathway in diabetes and insulin resistance

Peter J. Park, Simon Kasif, Isaac S. Kohane, 2009, Bioinform..

The HL7 Specification of the Data Elements for Emergency Department Systems (DEEDS)

Peter J. Park, James C. McClay, Laura Heermann Langford, 2012, American Medical Informatics Association Annual Symposium.

Linking gene expression data with patient survival times using partial least squares

Lu Tian, Peter J. Park, Isaac S. Kohane, 2002, ISMB.

BamSnap: a lightweight viewer for sequencing reads in BAM files

Peter J. Park, Minseok Kwon, Michele Berselli, 2021, Bioinform..

Systematic Identification of Synergistic Drug Pairs Targeting HIV

Peter J. Park, Ruibin Xi, Stephen J. Elledge, 2012, Nature Biotechnology.

Aging and neurodegeneration are associated with increased mutations in single human neurons

Peter J. Park, Minseok Kwon, Thomas W. Chittenden, 2017 .

Variable Requirements for DNA-Binding Proteins at Polycomb-Dependent Repressive Regions in Human HOX Clusters

Peter J. Park, Peter V. Kharchenko, Laurence Daheron, 2013, Molecular and Cellular Biology.

Comprehensive identification of somatic nucleotide variants in human brain tissue

Peter J. Park, Jonathan Pevsner, Eduardo Soriano, 2020, bioRxiv.

Apc inhibition of Wnt signaling regulates supernumerary tooth formation during embryogenesis and throughout adulthood

Peter J. Park, Jennifer J. Lund, Richard L. Maas, 2009, Development.

Spt6 Regulates Intragenic and Antisense Transcription, Nucleosome Positioning, and Histone Modifications Genome-Wide in Fission Yeast

Peter J. Park, Jürg Bähler, Fred Winston, 2013, Molecular and Cellular Biology.

An assessment of histone-modification antibody quality

Peter J. Park, Bing Ren, Peter V. Kharchenko, 2010, Nature Structural &Molecular Biology.

Swi/Snf chromatin remodeling/tumor suppressor complex establishes nucleosome occupancy at target promoters

Peter J. Park, Ping Lu, Michael Y. Tolstorukov, 2013, Proceedings of the National Academy of Sciences.

Accurate detection of mosaic variants in sequencing data without matched controls

Peter J. Park, Minseok Kwon, Isidro Cortés-Ciriano, 2019, Nature Biotechnology.

NGSCheckMate: software for validating sample identity in next-generation sequencing studies within and across data types

Peter J. Park, Scott Ouellette, Woong-Yang Park, 2017, Nucleic acids research.

Aging and neurodegeneration are associated with increased mutations in single human neurons

Peter J. Park, Minseok Kwon, Thomas W. Chittenden, 2017, Science.

Comprehensive Characterization of Cancer Driver Genes and Mutations (vol 173, 371.e1, 2018)

Li Ding, Peter J. Park, Niranjan Nagarajan, 2018 .

Impact of sequencing depth in ChIP-seq experiments

Peter J. Park, Charles B. Epstein, Gary H. Karpen, 2014, Nucleic acids research.

A Genome-Wide Screen Reveals Functional Gene Clusters in the Cancer Genome and Identifies EphA 2 as a Mitogen in Glioblastoma

Peter J. Park, Peter M. Black, Isaac Kohane, 2006 .

Genomic footprints of activated telomere maintenance mechanisms in cancer

Roland Eils, Isidro Cortes-Ciriano, Peter J. Park, 2017, bioRxiv.

MNase titration reveals differences between nucleosome occupancy and chromatin accessibility

Peter J. Park, Jakub Mieczkowski, Sarah K. Bowman, 2016, Nature Communications.

Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing

Ken Chen, Mark Gerstein, Satoru Miyano, 2018, Nature Genetics.

Failure to replicate the STAP cell phenomenon

Peter J. Park, George Q. Daley, Marius Wernig, 2015, Nature.

A Sequence Motif within Chromatin Entry Sites Directs MSL Establishment on the Drosophila X Chromosome

Peter J. Park, Elaine R. Mardis, Shouyong Peng, 2008, Cell.

Unphosphorylated SR-Like Protein Npl3 Stimulates RNA Polymerase II Elongation

Peter J. Park, Jonathan M. Dreyfuss, Steven P. Gygi, 2008, PloS one.

Comparative Analysis of the Transcriptome across Distant Species

Peter J. Bickel, Raymond K. Auerbach, Peter J. Park, 2014, Nature.

Somatic mutation in single human neurons tracks developmental and transcriptional history

Peter J. Park, Eunjung Lee, Thomas W. Chittenden, 2015, Science.

Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing

Peter J. Park, Ruibin Xi, Isidro Cortés-Ciriano, 2018, bioRxiv.

The Landscape of Microsatellite Instability in Colorectal and Endometrial Cancer Genomes

Peter J. Park, Tae-Min Kim, Peter W. Laird, 2013, Cell.

Nucleosomal occupancy changes locally over key regulatory regions during cell differentiation and reprogramming

Peter J. Park, Michael Y. Tolstorukov, Robert E. Kingston, 2014, Nature Communications.

The somatic genomic landscape of chromophobe renal cell carcinoma.

Lawrence A. Donehower, Peter J. Park, Gyan Bhanot, 2014, Cancer cell.